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Query: gi|60682477|ref|YP_212621.1|(removed signalp:1-23) hypothetical protein (BF3007) [Bacteroides fragilis NCTC 9343] (Range: 24-588), from B.fragilis

Results of FFAS03 search in CSGID
Master-slave alignment(slide right to see more) does not show gaps in the query sequence, use ali links to display alignment between query and templates.
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# Score Template Links and tools%idFirst CYSTPDGVMSSLSQAEKIMESRPDSAMAILQHIPTPETLHGKAQADYSLLMTQAMDKNYINFTSDSLIKFAVGYYGGHTEDLVAKGKSFYYYGRVMESLDKVEDAMTFYLKAKDVLQSSDQFKLLGLVTEKIGDLNRRQKLLDAALNDYKESFDFYASIPDSLCMLYAYRNLGRGFLYKNQIDSAYYYYDKALYILNLKKYSAVGSILLELGVIHRSEKDYVGAEQYFLSFIEKEKDPEKLFSGYLALGNLYLYMDRLKDAERYLLLCLGSSNLVIKRDACECLYDLEKELNNFKGAIGYKDIADSLRIITQDIDIQNSIATLQSRYNSEKWQRESLQSSIEKKNILLISSFVSFIAIMVIIYIYYKYRTNQKLVKDINERIRKNDADIKMYQRQILNYQDLQRETLQDYRNQIGELHGKMSVLEDQNKALSLRLTEKKHDIPESEADDLYAIYMQALHILIMLRGKNIENTSGKKLLLDADWDKLFHLSNAIHGDFITRIKNDFPTLTKHDIEICCLLRFGIEHEVLGSIFLTETDSVTKAKRRMKKRLNLSASDDLDVFLLKYLast
1 -32.800IDP04095 hypothetical protein [Yersinia pestis CO92] YPO1987 [Yersinia pestis CO92]  ali follow..  81...GTGNPDKAMVFLSQIGLEKPSSFSAYKNYVDAWIEKKQPESALKLLLDAYRDTPDQAVTIYKDIYGDNIIEPTNQLRMLLAIAENYRVNGAPKNTLIYTDKAQVMFIDVLKK--KKNNEIHFYKDYLNLINLYSFAGNKQQALILSEQLLRAA---DKGTYYDLALSGIMAFYHANGFTEEYNALIATSIATTDKSSFAPKPIEEIKLIRLLNATNETGLIKERIDKLMISPEYAKSIVKKLVDIGRIAEAKKLAADAEVIYLSQLKDSPPKEVERNYRDLAEMYGFAGDVVSAERILNKHVTTAQNYFITDKNKQWDEARARVVKDTGLSGQNLTLLQN.............................................................................................................................................................................................................................. 484
2 -28.700IDP01392 lipoprotein NlpI VC0648 [Vibrio cholerae O1 biovar El Tor str. N16961]  ali follow..  13  43..............................................................QQEVQIARLSQLLQRTDLEPEIRAKMLFERGNYYDSVGLRDLARLDFTQSLSINPAQPD------VFNLLGVYYTEAGEFDAAYESFDSTLEL------DPSNEYAVRNRAIALYYGERPQLALEEITKHYQQDPQD-----PFRALWLYIIESDIDPTKARTELLERYQQHDEQAQRLTEAYFYLGKRYQMQGELAHALSLYKLAISFNEYVEHRYAFLELGRIYQQAREEQLARAKAEAMTQ................................................................................................................................................................................................................................................................... 303
3 -25.700IDP90405 hypothetical protein [Chlamydia trachomatis D/UW-3/CX] CT_651 [Chlamydia trachomatis D/UW-3/CX]  ali follow..  295.......................TQLPLFMDALLMWENSYVHPDYSLVL---ERMKPAVLQDGIRTQKICQAIADSKIEKLKEKLIELFSDELVFCVSQGNTVCADQYLALLKMLDPRSSWGHKLLLSEKEINMVCEDDAQYSRLKDYLLLWEEQDIADVDRQQLVHYLFFSAKHLWRGGQEEACLRLLKEILVFSQ-NEKACLNRTLRLVKHFYTQAVWIENFLDEVGLPKTLASDAE--IANCLADAQYLFAKGDYRLCIVYSSWLARAA----STEALQLLGLSLVEQKEYTEALEVFQRLPLGEDTWNSQVHKASLLCYKYIARQQKEKS....................................................................................................................................................................................................................................... 606
4 -25.100IDP06057 hypothetical protein jhp0260 [Helicobacter pylori J99] NP_222981 [Helicobacter pylori J99]  ali follow..  23.KAETLSEDHQILLSSDAFHRG-ATAQKGYMNL-------KQTNKVVYAKEAAISAASLGDIKTAMHLAMLYQKITNNRND----VSINKILVDGYAQMGQIDKAIELLHKIRKEEKTIA-------TDNVLGTLYLTQKRLDKAFPLLNKFYNQVHDED-------SLEKLITIYFLQNRKKEGLDLLQSHIDRYGCS-----EQLCQKALNTFTQFNELDLAKTTFARLYEKNPIVQNA----QFYIGVLILLKEFDKAQQIAELFPFDRRL---------LLDLYTAQKKFDQASKQASL-------IYQERKDPKFLGLEAIYHYESLSANKKKLTKEE.............................................................................................................................................................................................................................. 316
5 -24.500IDP91388 TPR repeat-containing protein [Vibrio vulnificus CMCP6] VV1_1438 [Vibrio vulnificus CMCP6]  ali follow..  11  184................................................................................TQEQLAEKAIGRAEKALDANNLQNALSAYSDALRHTPNNEV------VRQKLAALYFGKGDSRKAYELLQAGIALNPEGET------LRIALSKMLIKANQNEAALTPLVALYDDSG-------KEYLAMRAALAQKIKKDDIALESYQRLSQMDSEN---ARWWLGLAIQQERALDFKSAQVSYQAALSKVGISNQSQRF--IKDRLALLQNLESA............................................................................................................................................................................................................................................................................ 376
6 -24.000IDP02495 gene: pflA; paralyzed flagella protein PflA [Campylobacter jejuni subsp. jejuni NCTC 11168] Cj1565c [Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819]  ali follow..  10  182...DKANYNQVVIDAQNAINRYRGSIFTILYKLRAQNKLYTQDPS-------------MRDQQILEKMIDDAKNWTRTFTSDKNFSEVLHIMLRTYIALAQRADVEYTMSI---LDNEQPNNYFTQLSKLDYADYIYNLNEKEKAVNIYENTYF---NTKNLDLAARAAMSLAKNLLSNEQVNKAIEYINTILKANPEYFGKDIPRSL-ELAKLFNQKGQFDISASIYEDAFAKMSKLDPSYETLKDLALVLSHANRSSDAKKYLDLYMDDKDENIANKALDEDVALYYKEGNFSAILAYKDLIESKKIPNATQFLEKAAINDLKNAIKADNCINAANIFMRFSAYDIGQKIENKKQMLACLIRTSNVEQALDYIDKNYNDNKQYPQVIKISKDIANSRILKSDDENFKAYYLQFLSLLRLNDYNQAIKILQILESFPMNFSMVEAYDALLSYANDHNMQTTILTYAPKAIDYQNFKGINLFSPNLEFIYLDALTK-INKNEESLAVLTD-------LLKLKLSDEDRARAL-ERMQNIQAEKESLKQCLEIKSASNWQNLCKS. 781
7 -23.300IDP05506 putative lipoprotein [Clostridium difficile 630] CD1232 [Peptoclostridium difficile 630]  ali follow..  11  12....................................................................................VSFLIMISMVGCAPKESATEVAKKYLDSIEIKDYEVAYNLLSTLKDYKLGEENKVEKYKYSNKEYTNLVKI------KETDTIKYITENKEDTANFDRYFIIEDNEYKLLWHKDFKRALSSNKIARSETEKDEDKDYNKAAIDIKKAIEIDDKN---PLAYYTQSYIYIELQRYDEALKSIDKYLEYLDKNNESDAYNLRGVIFMSKSEFNKARESYNKALELNPD............................................................................................................................................................................................................................................................... 259
8 -23.300IDP90308 hypothetical protein [Chlamydia trachomatis D/UW-3/CX] CT_700 [Chlamydia trachomatis D/UW-3/CX]  ali follow..  13  80.....ERFEEAEKLLGEAKKLKLAGAHFFLEAAHAFSLLSAELMGEREVARYTISLVYLGEVDAACRIIEPWIGPLAH-------QEVFISVGHIYFATKRYADAIDFYRRARSLGSCPID------VLYNLAHSLRICGQYVDAGMLFRELLGDPVYKDE------AMFNIGLCEQKLGNSKKALLIYQNSELWFRCQSYADDWNCCVHYGLALCHLKKYAEAEKVYLRVIQKTPDCLVACKALAWLGVGHATMISAREGIAYAKRALQIKR---SPEVLELLSACEAREGNFDVAYDIQAILAERDTTAKERRRSQILKNLRQKLPID........................................................................................................................................................................................................................................... 428
9 -22.700IDP90425 hypothetical protein [Chlamydia trachomatis D/UW-3/CX] CT_547 [Chlamydia trachomatis D/UW-3/CX]  ali follow..  32..........................................................................IAPNRYTPKHSPELYFEMGDKYFQAKKFKQALLCFGM---ITHHFPEHALHPKAQFLVGLCYLEMGHPDLADKALTQYQELADTEYSEQLFAIKYSPLEGFPKLLKADTDALRIFEEIVT--ASSDADLKASALYAKGALLFDRKEYSEAIKTLKKVSLQFPSHSLSPESFTLIAKIHCLQALLQDARMNAAALRKQ---EAYASCLYSTGRFYEKKRKASSAKIYYSIALEFPDTSYVAKCNKRLERLSKQ............................................................................................................................................................................................................................................... 316
10 -21.900IDP90315 CHLTR possible phosphoprotein [Chlamydia trachomatis D/UW-3/CX] CT_744 [Chlamydia trachomatis D/UW-3/CX]  ali follow..  11  47LLPIFDAFIRRIVNDSSSLSEKDWETATWLICEYIRGSLKRGEQELCSELVKPLFSLAVMPPQSKARIKQVWQVLNPQGASLKDLVRLLESSGCFAREQKNYQDALRLCEELQENLTSGSPLSTVYEVEQAFLKRISLA-AYCSAEESYAEAVEQLIKK-DRSQEVDAILFAHALSKLPWEETLGEHELEVLISGGHYLTSIYSQHAYFSLLEQYFKKSQIQEISRLLDFGKTVFVETHKYPEYLFFLGKYWFYLRDFSRAEEAFSSVIRYADRLSLAETYEYLGCLACYKGHYASAKEFFLKAYKGWGREDAGIGLYLLAVLEKDPILCQQVREQVSLS................................................................................................................................................................................................................................. 443
11 -20.800IDP90377 hypothetical protein [Chlamydia trachomatis D/UW-3/CX] CT_274 [Chlamydia trachomatis D/UW-3/CX]  ali follow..  17  2........................................................................................................LDNEWKAILGWGDEE------LEELRISGYSFLRQGHYQKAILFFEALVIL------DPLSVYDFQTLGGLYLQISENTKALYVLDQALRM-----QGDHLPTLLNKTKALFCLGRIEEASAI-ASYLTSCPDP---IIADDAEALLLSYVKPPLVAVR.............................................................................................................................................................................................................................................................................................................. 139
12 -20.800IDP91180 gene: lcrH_1; low calcium response protein H [Chlamydia trachomatis D/UW-3/CX] CT576 [Chlamydia trachomatis D/UW-3/CX]  ali follow..  9.....................................................................................SKKPSASFNKKSRSRLAEIAAQKKAKAEDLEQKYP-----VPTEEETKQVLMDILQGLSNGLTLQQILGLSDVLLE------EIYTVAYTFYSQGKYQEAIGLFQILTAS-----KPQCYKYILGLSSCYHQLKMYDEAAFGFFLAFDAQPEN---PIPPYYIADSLMKLNQPEESQDFLDITIDMCK--NKPEYKVLKDRCSIMKQSLDAVLKKEKSAKGSETQASSPKNTKAKKAASNKKKAK........................................................................................................................................................................................................................................... 232
13 -20.000IDP91307 putative YscY [Vibrio parahaemolyticus RIMD 2210633] VP1663 [Vibrio parahaemolyticus RIMD 2210633]  ali follow..  12  7.....................................................................................................................................................................IELLLVHAALQVQYQQPDQAIAILDAVLEL-----EPEREDALHTLAVACLQTGRYTRAVAVCEGLLKSQSQSVQAAGIWFCLSQARWKQNDVEGARQAHRRYLQSLHSESHE............................................................................................................................................................................................................................................................................................... 114
14 -19.700IDP92722 hypothetical protein [Francisella tularensis subsp. tularensis SCHU S4] FTT0369c [Francisella tularensis subsp. tularensis SCHU S4]  ali follow..  13  2........................KAKFIIAFLS-------ILFFSSSYATLEQCYKDGVNQDYEKVLESCKPYLKTDARATGLLAE--ANIQLDSSDLEDALWAVNFYQKNGA-PKDPEGARSYSYLVYLIGELYFFKVDQKKGIEYIIKSAN--------LGYDIAQNQLGNLYVRVGNFAKAYKWYKLAIANGSLDARNAYLMNNERIGDTYLNPKSPDFAIQWYQKAYE----LDHISPVETGLARAYMAKGDKKLAYKYAREAIQQPY----APAFVVIADLTDNYAYLAEAVELYKNPAL................................................................................................................................................................................................................................................................... 295
15 -19.000IDP90409 hypothetical protein [Chlamydia trachomatis D/UW-3/CX] CT_667 [Chlamydia trachomatis D/UW-3/CX]  ali follow..  1.............................................................................................................MADLDVFKED------FALLFEAGMVAIKQGDEASAKALFQALQVLDPE-------TAHELGSGLLHLHKMELTKAEVLFRAIVEK-----DPENWSAKAFLSLTLMQGSSFEVRRESLERCLQLADQ---VLESCEVESTRALAKSVLDWHDGLVAKS......................................................................................................................................................................................................................................................................................................... 144
16 -18.900IDP06329 58 kDa phosphoprotein, putative [Toxoplasma gondii VEG] EEE34668 [Toxoplasma gondii VEG]  ali follow..  5....SPQKVAELKAFIGMCERDPSIL----------------------------HRPELSFFKEYLQSLKAAIPAERQAGAGSPDRPTTSPVPEASSDDSSLESEVEEFDEESLKDSEVIPP------ETSPLPPLAPEGEKELTDDELDKLGKLKEE--------------ASAACEAGNSERALEKYTEALLIGNPT-----ALLYTRRADVLLKLKRPVACIRDCDEALKLNPDS---ARAYKIRGKANRLLGKWREAHSDLDMGQKIDYDEGLWDMQKLVDEKFKKIEEHERKIVRKCEEAEKKRR--EKEARKRRAAAQRAYEEQKQRDAAG.................................................................................................................................................................................................................................... 279
17 -18.900IDP91182 gene: lcrH_2; type III secretion chaperone [Chlamydia trachomatis D/UW-3/CX] CT862 [Chlamydia trachomatis D/UW-3/CX]  ali follow..  11  17.....................................................................................GHLYLQHASLMRHLAYLLDKIARSYHHMCPLPDNMEAYFENYI-----------PNKDIPLDTYQKIFKLSSEDLE------QVYKEGYNAYLQGDYEESSTAFYWLIFF-----NPFVSKFWFSLGASLHMLQKYQQALHAYGVAALLREKD---PYPHYYAYICYTLLNNPEEAEKALDLAWQKVKTSSAYSSLKEEILAIKS................................................................................................................................................................................................................................................................................... 196
18 -18.500IDP06006 Hsp70 interacting protein [Toxoplasma gondii] ABG75606 [Toxoplasma gondii]  ali follow..  3................ALSPQKVAELKAFIGMCERDPSILHRPELSF--------------FKEYLQSLKAAIPAERQAGAGSPDRPTTSPVPEASSDDSSLESEVEEFDEESLKDSEVIPP------ETSPLPPLAPEGEKELTDDELDKLGKLKEE--------------ASAACEAGNSERALEKYTEALLIGNPT-----ALLYTRRADVLLKLKRPVACIRDCDEALKLNPDS---ARAYKIRGKANKLLGKWREAHSDLDMGQKIDYDEGLWDMQKLVDEKFKKIEEHERKIVRKCEEAEKKRR--EKEARKRRAAAQRAYEEQKQRDAAG.................................................................................................................................................................................................................................... 279
19 -18.400IDP00560 gene: hemY; putative protoheme IX biogenesis protein YPO3852 [Yersinia pestis CO92]  ali follow..  11  78.GRKRTRARNQMKAA-KLAEGDFLQVEKLLTRNADHA----EQPMVNYLLAAEAAQQRGDEFRTNQYLERAAE------VADGDQLPVNITRVRIQLAQGHIHAARHGVDRLLDQAPRH------PEVLRLAEQAYLRSGAYRSLLDILPAMSKTQIHTPEEVAEQQAYIGIMNQCMADEGSEGLKRWWKDQSRKVRNEIP-----LQVALAEHLIECDDHDVAQKIILDSLKHIKQHGATPLLNSTLGQLMLKHGEWEKASEAFKAALAQRP---DGYDYAWLADALDKLHRPEDAAQARREGLLLT................................................................................................................................................................................................................................................................. 391
20 -18.300IDP93896 secretion system chaperone SscA [Yersinia enterocolitica subsp. palearctica Y11] YP_006007024 [Yersinia enterocolitica subsp. palearctica Y11]  ali follow..  14  7..............................................................................................................................................DEIINFMRRGGSLRMLAKMDPQDLALVYDYSVQLCQGGEYDGAKRLLNLLVRF-----DHWNFSYWLTLGLCYQQTADFHQAIYCFSRAGQIQVDD---PRSSCSAGECYLACGNRIYAEKAFRAALNWCH--ARPEWIHIQQQAERGLAALLLEV........................................................................................................................................................................................................................................................................... 152
21 -18.200IDP93914 type III secretion apparatus protein [Yersinia enterocolitica subsp. enterocolitica 8081] YP_001007694 [Yersinia enterocolitica subsp. enterocolitica 8081]  ali follow..  14  20..............................................................................................................................................DELCQALMEGASYKDIYGIPQSTMDGLYAYAYEFYEQGKLKEAETFFRFLSIYDFYN-----TDYVMGLAAVYQLTKRYEKAVELYSLAFVLAKDD---YRPLFHAGQCNLMLKKSSAALHCFESTFNGSDLELKQKSSVYLTALKKNLTESEPA............................................................................................................................................................................................................................................................................ 167
22 -17.900IDP04289 gene: yscY; hypothetical protein YPCD1.35c [Yersinia pestis CO92] YPCD1.35c [Yersinia pestis CO92]  ali follow..  10.....................................................................................QEFLLLNGWLQLQCGHAERACILLDALLTLNPEHLA------GRRCRLVALLNNNQGERAEKEAQWLISHDPLQAG------NWLCLSRAQQLNGDLDKARHAYQHYLELKDHNES............................................................................................................................................................................................................................................................................................................................................................................ 113
23 -17.600IDP93884 secretion system chaperone SscB [Yersinia enterocolitica subsp. palearctica Y11] YP_006007028 [Yersinia enterocolitica subsp. palearctica Y11]  ali follow..  12  1...................................................................................................................................MDKMLAILAQVNKTLENISNPQDRPQCERVSQQEIQARYEQGYQAWLADNYITAVEDFSWLTLH-----RPLEPHFHLALAGALQMQQEFILALSAYASALLLEAKS---PGPVYQMAVCLHAIKRDADAREALQMVIEMSYMRIAEKANILLGKV...................................................................................................................................................................................................................................................................................... 153
24 -17.500IDP02091 gene: malT; transcriptional regulator MalT [Salmonella typhimurium LT2] STM3515 [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]  ali follow..  367.AGDAQMLRDILLNHGLFNHSELALLEESLKALPWESLLENPR----LVLLQAWLMQSQHRYSEVNTLLARAEQEIKGVMDGTLHAEFNALRAQVAINDGNPEEAERLAKLALDELPL-AWFYSRIVATSVHGEVLHCKGDLSQSLSLMQQTEQMARHHDVWHYALWSLIQQSEIQFAQGFLQAAWETQERAFQLIKEQQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIAVLSTPQQQLQCLTLLVQCSLARGDLDNARSQLNRLENLLGNGRISNADKVRVIYWQLTGDKKSAANWLRHTPKPAFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNCNLLLLNQLY-----WQSGRKNDAQRVLLDALQLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPEMEQHRAQRILREINQHHRHKFAHFDEGFVERLLNHPDVPELIRTS---------------------------------------PLTQREWQVLGLIYSGYSNEQIAGELAVAATTIKTHIRNLYQKLGVAHRQD........ 885
25 -17.000IDP90083 hypothetical protein CGSHiII_00664 [Haemophilus influenzae PittII] ZP_01795671 [Haemophilus influenzae PittII]  ali follow..  15  13...................................................................FGASIFSFQSTAW--ADTPEQQFQQGLTAYEQSDYQTAFKLWLPMAE--------QGYAQAQGGLGMMYERKQDDFKAVNWYRKAAE--------QGDADAQLNLGAMYAIKQDGVEAVKWFRKAAE-------QGNAKAQNGLGMMYRGKQDYFKAVKWYRKAAE-----QGYGGAQVMLGFSYLSQVNKSLAKEWFGKACDNGE----QVGCEYYSKLNRG................................................................................................................................................................................................................................................................................... 217
26 -16.600IDP95380 set238a-017 [Vibrio cholerae]  ali follow..  10  25.....................................................................................AMESVEQGIRLFNQKEYQQAQQIFQQQSDAGS--------AYATFWLGVAQYKNRQHFEAGQTFLQAAE--------MGDPWAMGVLSEYEYYKKWYDLAIKGWKKEAEKGNGKALLQLQFFTNSLNAVLYVNISVEDEIKYLKLAAN-----QGYAPAMETLYYRMNTIG-YDEAMKWINKAIELGY----AEAARTLLLSYTLPPDPKKAYYYSRLTEALYRNVIKDGLPVSDENGEAVLEILVTEQEQADMDKQVAE............................................................................................................................................................................................................................ 322
27 -16.200IDP01204 glycosyl transferase, group 2 family protein BA_2274 [Bacillus anthracis str. Ames]  ali follow..  11  18CKNESRIMERCLNATKSIVDFSTDHTPEIIENWCKESLAQKTYPEADYLLILDADMILEVDPEFDKTSLTEDHYLTLQYDIHIKYWLTWKSVGVTHEKADKFERDERLLLQGIN--DPETTPDLHIRYLFYLAQTYFHLSQFEDSIKWYKKRVEAGGWVEE---VFYSLLRIGFCYEQLANRSANK--------------QHEVTEADEKENAKKQEEQYTALAVLYFQKAWEYRPTR---AEPLYQLARMYRLKSQNNIALMYALQGKEVPFPKDDL-FDYEISINAFYIPHKKHLGAASQKYLESKKEELPLHIANMVENNAKFY.............................................................................................................................................................................................................................................. 406
28 -15.600IDP91867 DNA-binding protein [Streptococcus uberis 0140J] SUB0057 [Streptococcus uberis 0140J]  ali follow..  11  23CGDESELSVRQLARIES--QSNPAKALFIAKKLGVPDLPKRYQELKYLILRHPTYMNTDSIEERESQFDIIFEDYYADLPEEEQVLIDRLRSRFEVYQSGNSVYGQDLLLEYIDQIKKKKTYDLNDIFFIDLYLTCGYVSSFKETLFDKGIFECFTSKLKDLFLLNNVLMTAIAVGLTLEEYVKIRTLLNVCRRIMTITQDQRMPIYYMYEWRYLFHEKDFRKAPYYYQQSLRTHGDEYLKTMIVNAWQEDQDKVKTLESQKE.............................................................................................................................................................................................................................................................................................................. 310
29 -15.100IDP95164 putative regulatory protein [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044] YP_002918285 [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044]  ali follow..  14  138...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................QAVLPLVELAIRDCLQEEDDLPAILTAKEREIVGMVREGASNKLIARQLDISLSTVKTHLRNIFAKTEVVNRTEL....... 212
30 -15.100IDP91582 hypothetical protein CBU_0295 [Coxiella burnetii RSA 493]  ali follow..  10  27..................RETNLIDLANAFIEASNREDISSTALIAWKIREFFN--------DKPHEDCVNYFNYITQLPD--DIPAKSYLLGMAYFLKQNTGRAKFFLRKATK--------AGEPNATVELFEIYSEEREKDQAQIYLNQALE--------KNHPRAQWLAANHSLEKEELENAKTLFQKAAI-LFEAVQAGSVEALARLFAVCGNKYQIKEAKRCYEAVLF-----TNNPYAIYRFACFLEHEKGLFLLLSEWTETAPLLLSLVFSSIAYMLYEKRIGQESNLDPIVYYGKAIEYCIEAIENEHFEALNKLEEIFTWIPKIFNLSNW.................................................................................................................................................................................................................................. 345
31 -15.000IDP95163 positive regulator for ctr capsule biosynthesis, positive transcription factor [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] YP_001336074 [Klebsiella pneumoniae subsp. pneumoniae MGH 78578]  ali follow..  11  105..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................SKSITPKDLDVILVNYLKYKNTSVGQLTLPTLSLSKTESNMLQMWMAGHGTSQISTQMNIKAKTVSSHKGNIKKKIQTHNKQVIYHIVR.. 193
32 -14.900IDP93831 cellulose synthase subunit BcsC [Yersinia enterocolitica subsp. enterocolitica 8081] YP_001008212 [Yersinia enterocolitica subsp. enterocolitica 8081]  ali follow..  10  161.ARLPGQEVLATQKLASLDQQYPGQGYALLEKVATDPNGTSDAADLWMDTIVTALTHFLDVFSTGPQADIARKELANQQTMLADPTYQARLSGLAKVDSGSGVAAIPALKQALAASPNDPE------ILGALGLAYARAGDRAQALRLFEQAQKSDKDGLKSDKWASLIKDEGDKALKAGNTALAQQKYQQARQIDGSD-----SYALIGLGDVAVARHDDKTAEQHYQQALRLDPANSSAVRGLANIAEMLAAQQQWHQAAEKYRQAQKMA---NDVWITYRLAQALAQDGHLAQADAEFHQLASRKPGLSSTERDSQALAHLATLPAAQWNDNIRELDQRLKLDQ.......................................................................................................................................................................................................................... 579
33 -14.700IDP91492 putative type III secretion protein [Vibrio parahaemolyticus RIMD 2210633] VP1693 [Vibrio parahaemolyticus RIMD 2210633]  ali follow..  11  6.....................................................................................................................................................................RQLLAEIALMATGMHRHQEANTIADCLEETSNSE-----EVVVMIRAMSLMNKGAYEEAHRLLEPLCTAYPD------LISLAALAAAKAGLLSQAERWMELAAQGSE--ESQAFAASFTQDIRNLG................................................................................................................................................................................................................................................................................. 119
34 -14.600IDP05189 putative glycosyltransferase [Clostridium difficile 630] CD0240 [Peptoclostridium difficile 630]  ali follow..  11  6VKNEENILEKTLKSLSVLRNSIESELIIV-NTIRIAKQYTEK--------FSSMRNISISYAKGEWLLILDADEVLIDYSNIIKFFESFKYCGKVHEQINKVKRNEKLLLEELK--EDEKS----PYTNYQIGKNLIILGKYQEALDYLEKSYKLYSK--LEIVPGYLITNLAKVYLYLGKAKKCEKLCLKYINKDRNN-----IDIYYHIAQAQVDLGKYENSIDSYKRYIYLLDNYEMSTQAIITLIKIYYKLEKYDLVISEYDNIEDVEKKK---NVYFSLFMSLYKLNRFEDIKNYYREIPNIYKSLCDIEGNYGLLNKIRINKHVSLDTCRKILNEEKDIVYASVIKIAFEEKVDLLDIFYNMEYVWIEKYLRYILALERSFNVSIYKYIISCPNTSEIEKIRVYKVISKILLESVNLSDKKYKELFYIYIMYSYKYIKYIYSNLSDCELINEYPFYNRIIKIFISELEESITESEEFKLLKDNFIIRIENMIENLIEDYSKTFADDVKI-----------NIKAILFMCEDKFEEADFALKKALSLDLEN......... 699
35 -14.300IDP91862 DNA-binding protein [Streptococcus equi subsp. zooepidemicus] SZO_00390 [Streptococcus equi subsp. zooepidemicus]  ali follow..  24CGDESELSIRQLARIEL--QSIPSKVVFIAKALDVSELPKRYKELKYLILRTPTYMDDDKLKLREEQFNEIFEDYYDQLPEEEKLVVDCLQSIMDTLLTENINFGVGLLQEYFEQTKSKTNDLILIELYLAYLDIAGMNGEYSDKGFYDSLLDILLNQFEELFIVNKIAIGISSLSIKNNKPEILEKVIVLSQKIILKTQDNRMPILNLIEWKYLMKKKDIEMAKKCYDKACQLTGDQYLEKKLREEWGKDIKRYQ..................................................................................................................................................................................................................................................................................................................... 304
36 -13.700IDP90084 hypothetical protein CGSHiII_00674 [Haemophilus influenzae PittII] ZP_01795673 [Haemophilus influenzae PittII]  ali follow..  13  12....................................................................................................LFGASVFSFQSTAWADTLEQQF--------QQGSEATTRGDYQTTFKFLLPLAE--------QGNALAQMMLGVMYAKKQDDVEAVKWYRKAAE-------QGYADAQAMLGFSYLLQVNKSLAKEWFGKACD-----NGDQNGCEYYGKLNRG....................................................................................................................................................................................................................................................................................................................... 146
37 -13.700IDP05313 putative lipoprotein [Bacillus anthracis str. Ames] BA_1061 [Bacillus anthracis str. Ames]  ali follow..  30....................................................................................................................................GKTALTNKEYKNALSSFERALDEKKDDSGAIVLVEQTKIMAVKLKEEKKIEESIQSFEKVENM-----KDGNATLIKQAKKERTALLAILEQKKKYSEQLTK--------------SEELINKKNYAEAKETLNKLVLETK--DNKNLEEYNKKAVGLVTKIGEEEKTAKSKATAKAQKTSAVTSQKVVTEKNQDAFTFEKAKEYIKNEYKE............................................................................................................................................................................................................................. 222
38 -13.300IDP90994 hypothetical protein y1355 [Yersinia pestis KIM 10] y1355 [Yersinia pestis KIM10+]  ali follow..  16  40........................................................................RYWQGNQNTAMTEASSAYQKVSTALSTNSAGNVSADSIALAEKFVQSNKNNYGVLVGLELAHDFVEQNAFDKAAQQLSQALG---QTKDENLLSLINLRLARVQLQLKKPDEALKTLDAV------QGDGWTAMAQDVRGDALLSKGDTAGARAAYSKAIESNASQALQALLRMKLNNL.......................................................................................................................................................................................................................................................................................................................... 209
39 -13.000IDP91865 DNA-binding protein [Streptococcus pyogenes str. Manfredo] SpyM50034 [Streptococcus pyogenes str. Manfredo]  ali follow..  10  24CGDESELSVRQLARIEL--QSIPSKVIFIAKALNVSELPKRYKELKYLILRTPTYMDDGKLQVREEQFDEIFEDYYDKLPEEEKVAVDIIQAKFEVYQTGDINFGYSILKEFLPQLKRKSIYNLNELLLIDLYLIILVVSHFSDDIFDVQFYEEITESMEDLFLLNNILLSCADTYIRLKMFGRLKETLQLSHFIMSTIQDQKMPMYCMYEWKLIFYLKDINRARNYFEQSIQMTGDTYLVQKLRGEWNKDIHYI...................................................................................................................................................................................................................................................................................................................... 303
40 -13.000IDP93897 response regulator protein [Yersinia enterocolitica subsp. enterocolitica 8081] YP_001007718 [Yersinia enterocolitica subsp. enterocolitica 8081]  ali follow..  20  135............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................VQKSSDIQELFFAISYVARGSQSAQKNTHHTLTGRETEVLRMLLNGLKQKEISVRLNISFKTVSNTKTRAFKKLGLTSNTDFFKYAHE. 233
41 -12.800IDP91833 DNA-binding protein [Streptococcus suis SC84] SSUSC84_0046 [Streptococcus suis SC84]  ali follow..  25CDDELELSVRQLTRIEA--ASKPSKIQYIATRLGMGSLPERYSKLKFDVLRTPTYGNEDLAEKRDAMMTEIYDDYYDELPEEEKIAIDAIQSRIDTLESGTAGFGKEILEDYFEQIFRKRDLLIVRLHLEYVRLSSCDSEIFRQFLKIIEHLHEQINISNDLFVLRDTLLSCVNILGSKKYYEPIPKIFDSVDKIIQSTQDQKKPIVSVLKWKYLFVDKDRDEAEKHYLDAVLFAK......................................................................................................................................................................................................................................................................................................................................... 279
42 -12.700IDP95323 hypothetical protein A55_A0022 [Vibrio cholerae 1587] EAY35133 [Vibrio cholerae 1587]  ali follow..  10  90.....................................................................................SDAMVWYAKLIYRVNNRPKALSLYQKAMDDGNMLSPGLISSGCVSYFGEKNCTLEHFNKAIELFKPLAA--------QGDLRAQYFLLQQQELDKSKETRAQYIQEVIRFSQAHYYQPLMDYVNTI-----TTEQYNLAIDLLTIAAN-----NNYIPAINKLSFLLEDTAQ-EESERLINLSLKLGSTSTVKYKYHRSNRGSEEKYFYNALYKGLSGEYSFDVHTLNDEEKAKVNEKVKLFMKDIT......................................................................................................................................................................................................................................... 337
43 -12.600IDP91435 DNA uptake lipoprotein [Vibrio vulnificus CMCP6] VV1_0485 [Vibrio vulnificus CMCP6]  ali follow..  20...........................................................................SSEQIVPDVPPAELYAEAQTSLQGGNWLTAIEKLEA---LDSRYPFGAYSEQVQLDLIYAYYKNDDLALGLATISRFTRLN----THEKMDWVLYMRGLTHMAQDR-NFMHDLFNIDRSDRDPEPVKQAFDDFKKLLERYPNSPYAEDSQKRMFALKNRLAEYD------LATADYYLRREAWIAAINRSQELQKTPDTIAARKSLKIQLEAYKQLGLQDAIARTEELI..................................................................................................................................................................................................................................................................... 236
44 -12.600IDP00102 gene: evgA; putative positive transcription regulator (sensor EvgS) NT01SF2944 [Shigella flexneri 2a str. 2457T]  ali follow..  14  100............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................VSKKEGMNNIIAAIEAAKNGFPFSLQQKLDSLSKQEISVMRYILDGKDNNDIAEKMFISNKTVSTYKSRLMEKLECKSLMDLYTFAQR. 200
45 -12.300IDP92667 hypothetical protein BB0803 [Bordetella bronchiseptica RB50] NP_887352 [Bordetella bronchiseptica RB50]  ali follow..  1.......................................................................................MQTSVLAMPPRDGGLAGQAAAVQARIRRAPADAD------LRAQLFQLAAVQGDWRRAAEQLQLCARLNPLA------QPMANLYLAAIHGELRREAVLAGQAEPGFLAERP-----CWCEPLLQALRAQASDPERAAMLRAQAFDAAQASAGTLEDAAAGQAGYAWICDGDSRLGPVCELILDGSYAWLP--FAQVAAVHLPAPQGLCDLVWARAEIALADG------AVVRGLVPARYPPSAGQDDGLRLGRATC............................................................................................................................................................................................................................. 232
46 -12.300IDP95326 hypothetical protein A51_C0019 [Vibrio cholerae MZO-3] EAY41860 [Vibrio cholerae MZO-3]  ali follow..  15  22.........................................................................................IEQGIRLFNQKEYQQAQQIFQQQSDVGS--------AYATFWLGVTQYKNRQHFEAGDTFLKAAE--------MGDPWAMGVLGDVNLYANNPCKDEKWLTKAKQGWKVLAENGNGKAAFAL---KINQREWWEYIPFYRQSRYQEIVSKAIPNGGYKFLDYNTYWDSSEAKLPYLKLAANQGY----APAMETLYYRMDTI-GYDEAMKWINKAIELGYA............................................................................................................................................................................................................................................................... 224
47 -12.300IDP90946 gene: bvgA; virulence factors transcription regulator [Bordetella pertussis Tohama I] BP1878 [Bordetella pertussis Tohama I]  ali follow..  12  102............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................VCKHENLHEVINAAKAVMAGTLSEMSTLISVLSNRELTVLQLLAQGMSNKDIADSMFLSNKTVSTYKTRLLQKLNATSLVELIDLAKR. 205
48 -12.300IDP91859 DNA-binding protein [Streptococcus agalactiae A909] SAK_0081 [Streptococcus agalactiae A909]  ali follow..  24CGDESELSVRQLARIEA--ESVPSKAHYIARNLGVSELSKKYKELKYLILRTPTYNDTDRLDLIEKYLDEIYLNFYDDLPEDEKIAIESIQSSLDIYISKSHHFGDDLIREYMNQIKRKKIYSINDLLIIKLWQYKITASRYDPNIFKIDTFIGTIDKLENLFLLRDVLIYSLGILFILAEYQQIENIINTLNDILIKTQDQKRPIIDMFEWKYLFYKENREVAKRKYQESTLFAQ......................................................................................................................................................................................................................................................................................................................................... 281
49 -12.200IDP93894 lipoprotein [Yersinia enterocolitica subsp. enterocolitica 8081] YP_001005558 [Yersinia enterocolitica subsp. enterocolitica 8081]  ali follow..  34.........................................................................................................................................................................STVYEYYKSDASPEQQIAALKESIEKSRAQGLPVPPGLHAHLGMLYGNTGHTDLAMTEFNTEKSAFPESTPFMD---FLMSKDKGAFK.................................................................................................................................................................................................................................................................................................................... 118
50 -12.100IDP91861 transcriptional regulator [Streptococcus dysgalactiae subsp. equisimilis GGS_124] SDEG_0056 [Streptococcus dysgalactiae subsp. equisimilis GGS_124]  ali follow..  13  163....................................................................................LIELYLAYLDIEGMYGEYSDKVFYDSLLDNLLKQFDELFIVNKIIIDISSLSIKTNKLDNLEKTIAISQKIMAKIQDWNRMPILKLIEWKYLIKQKNRKQAEESYTKACLFAQITGDKYLEQLIKEWEKDICA............................................................................................................................................................................................................................................................................................................................................................ 302
51 -12.100IDP91866 hypothetical protein SPy_0037 [Streptococcus pyogenes M1 GAS] SPy_0037 [Streptococcus pyogenes M1 GAS]  ali follow..  24CGDESELSVRQLARIEL--QSIPSKVIFIAKALNVSELPKRYKELKYLILRTPTYMDDGKLQVREEQFDEIFEDYYDKLPEEEKIIIDCLQATLDTLLSENTNFGIDLLQEYFNQIKTKVNDLILLELYLAYLDIEGMDGQYSDKIFYDSLLDNLSEQFDELFIVNKIIIDISSLSLKNNRLDNLEKAIEMSQKIMAKIQDNRMPILKLIEWKYLIKQKDIIKAEQSFMKACLFAQMTADQYLENKLIQEWEKDVKSY................................................................................................................................................................................................................................................................................................................... 303
52 -12.000IDP06196 hypothetical protein HP0336 [Helicobacter pylori 26695] NP_207134 [Helicobacter pylori 26695]  ali follow..  18  9...................................................................................................KDLKKAIQYYVKACE----------LNEMFGCLSLVSNSQINKQKLFQYLSKACE--------LNSGNGCRFLGDFYENKKDLRKAAQYYSKACGLND-------QDGCLILGYKQYAVKNEKQAVKTFEKACRL-----GSEDACGILNNY.......................................................................................................................................................................................................................................................................................................................... 138
53 -11.900IDP91817 gene: rcsB; DNA-binding response regulator in two-component regulatory system with RcsC and YojN [Escherichia coli str. K-12 substr. MG1655] b2217 [Escherichia coli str. K-12 substr. MG1655]  ali follow..  12  107............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................VLKQGAPTDLPKALAALQKGVSRLLEKISKRLSPKESEVLRLFAEGFLVTEIAKKLNRSIKTISSQKKSAMMKLGVENDIALLNYLSS. 207
54 -11.900IDP92665 lipoprotein [Bordetella bronchiseptica RB50] NP_887361 [Bordetella bronchiseptica RB50]  ali follow..  35.............................................................................................................................AERDLQQIRQSYSAGAYGDVIRQVAHADAL--AQAPQSMRIEAWKLQAFSYCVTDHRVLCEAGFRRILQADPAFTLEPNEAGHPQWGPAYERARAAPAG..................................................................................................................................................................................................................................................................................................................................................... 131
55 -11.900IDP95126 transcriptional regulator RcsB [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] YP_001336285 [Klebsiella pneumoniae subsp. pneumoniae MGH 78578]  ali follow..  12  107............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................VLKQGAPTDLPKALAALQKGVSRLLEKISKRLSPKESEVLRLFAEGFLVTEIAKKLNRSIKTISSQKKSAMMKLGVENDIALLNYLSS. 207
56 -11.400IDP91832 putative transcriptional regulator [Streptococcus mutans UA159] SMU.61 [Streptococcus mutans UA159]  ali follow..  10  24CLDESQLSTRQLTRIES--QSTPNKAVYIAGRLGVTELPSRYKELKYLLLRTPTYGDQQRLAEKETYFDEIFSQFYDDLPEEEQLIIDGLQSKLDIHFSDNIDFGVGILNDYFDQILRKTNYQVNDLILIDLYFSCLTVSGLDSAIFDSRKYNQLLETLEDLFVLNNVLLNNFGLLLELKKYDFVKQLIAVSNKIMDRTHD------FQKKPIVNLLTWKH-----------------------------HLFVEKDYAEAKKSYDAAILFAQLTENINLRENLKEWQKDSQNGT.............................................................................................................................................................................................................................................................................. 304
57 -11.300IDP91834 DNA-binding helix-turn-helix protein [Streptococcus downei F0415] HMPREF9176_0709 [Streptococcus downei F0415]  ali follow..  12  26CHDGSRLTVRQLIRIEK--QSLPDKLDYIAQQLGLKTIPDTYFELKHRLVKFPTYGDPERVGQKQAMIEEAYEKYFTVLPEEELLFLDLSEKILNWSQTKKLVAIEEIYEDAFEQLQEKKYNIDLLSILISVLGVYVQHGDYGATLPVFKKVYQLIEETQQPSYRPSVMMVEAKYLNVEGDKEQAGQLYDQAINFATLLGDQVL------ADGLREEKDRDNLA..................................................................................................................................................................................................................................................................................................................................................... 300
58 -11.200IDP00850 transcriptional regulatory protein DegU, putative SACOL2389 [Staphylococcus aureus subsp. aureus COL]  ali follow..  21  102............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ILKNAPDEQLLLAIRTVYMKLTTSLVNEFKILSKRELEILPLIAKGYGNKEIAEKLFVSVKTVEAHKTHIMTKLGLKSKPELVEYALK. 211
59 -11.100IDP91271 prophage LambdaBa01, positive control factor Xpf, putative [Bacillus anthracis str. Sterne] NT05BA3690 [Bacillus anthracis str. Sterne]  ali follow..  13  98..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................EWDKVRLEDALSLLTEREKEVYLMSRGCLTYREIARYLDITCSTVQSMIERAEKKIARQVNESLFCNC... 166
60 -11.000IDP91864 transcriptional regulator, Cro/CI family [Streptococcus porcinus str. Jelinkova 176] ZP_08398653 [Streptococcus porcinus str. Jelinkova 176]  ali follow..  23CGDESELSIRQLARIEK--QSIPAKVLFIAKKLELPVLPKRYKELKYLILRRPTYMNGQNLVDREAQFDEIFEDYYATLPEEEQLIIDLLQSRFDVYQSGDTNYGKELLREYISQIRKKKSYALNDIFLIDLYLTCGMVSNFKEELFDKGNFDCFTNKLKDLFLLNNVLLTSIAVGISIKEYQKTRILLNVCRRIMTITQDQRMPIYYMYEWKYLFYMKDSQKAYYYYRQSLIFAR......................................................................................................................................................................................................................................................................................................................................... 280
61 -10.400IDP91858 hypothetical protein gbs0048 [Streptococcus agalactiae NEM316] NP_734518 [Streptococcus agalactiae NEM316]  ali follow..  10  24CGDETELSVRQLARIES--QSIPTKAHYIAKQLNVKELPKRYKELKYKLLRTPTYGDANRLAVREAYFDEIYEVFYEELPEDERLIIDCMQSKLDVHFSVNDNFGITILHDYFDQIKKKKEYTTNDFVMIDLYLLCFSINYGMKSLYSLENYHFIMSKLEDNFQLNNVLLNHVELAFQFKQKKYVQQIIHRSNAIMTEIHD------FQKRPILSLIEWKY-----------------------------LLIIEKDRTKAETCFKQSILFAELIGDLYLKGKLIEEWNK................................................................................................................................................................................................................................................................................... 297
62 -10.300IDP92614 gene: vraR; DNA-binding response regulator [Staphylococcus aureus subsp. aureus USA300_FPR3757] SAUSA300_1865 [Staphylococcus aureus subsp. aureus USA300_FPR3757]  ali follow..  12  103............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ILKTTSAKDIADAVRKTSPEVLVKMRNRMEMLTEREMEILLLIAKGYSNQEIASASHITIKTVKTHVSNILSKLEVQDRTQAVIYAFQ. 204
63 -9.980IDP91835 DNA-binding protein [Streptococcus equinus ATCC 9812] HMPREF0819_1750 [Streptococcus equinus ATCC 9812]  ali follow..  13  23CGDETELSVRQLARIEL--QSIPSKAQFIANRLGVKELPKRYKELKYLLLRTPTYGDQERVDRKNDYFDEISENYYDIIPEEEKLIIDCLQSKFDVHFSDDVNFGDGILNDYFDQVIRKETSLILNNVLLNNIALAFKFEREDYVYKVIKISDRIMTEIHDFQRRPILSLVEWKYYLKFHDYDSAKQSFTHATLFARLIGDVYL------ENKLKEEWKFDTTT..................................................................................................................................................................................................................................................................................................................................................... 300
64 -9.810IDP91863 DNA-binding protein [Streptococcus parauberis KCTC 11537] STP_0036 [Streptococcus parauberis KCTC 11537]  ali follow..  23CGDETELSVRQLVRIEQ--QSLPAKLVYLAKVLDIRSIPHDYLALKYQIIRTPLYMNDQVMAIREGQFDAIFEKYYDYLPDEEKLIIDFLQSKFDVYQSGDANFGRPLLQDYIRQISKKKRYQFLIDLYLTCAIVSSFKAEFFDLDLYRRFLSKLLLMEKDLFLLNNVLLTCIDVGIRIGHFELIQPALKASHRIMYKVQDQRLPIYCMHAWKNLFYTKSVKRGEDYFHQAQLFAKLIGDKNLEGKLAREWQKNLAESEKT................................................................................................................................................................................................................................................................................................................ 305
65 -9.090IDP95329 tryptophanase [Vibrio cholerae V51] EAZ51002 [Vibrio cholerae V51]  ali follow..  27....................................................................................................NPQDDIALFQPFIT-INKKSADPYISSTVKP-ILVNIQHGRHDIASSKLQSLIE--------VNDSDAMVWYAKLIYRVNNRTKALSLYQKAMDYIMLSPGLISSGCVSYFGEKNCTLEHFNKAIELFKPLAA-----QGDVRAQYFLLQQQELDKSKETRAQYIQEVIRFSQAHYYQPLMDYVNTILTRDKYEARTTEQYNLAIDLLTIASNYNYVPAIKRLLEVDLDEEVFTKRMEQLTR............................................................................................................................................................................................................................... 273

FFAS is supported by the NIH grant R01-GM087218-01
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Selected papers from Godzik Lab
Ying Zhang, Ines Thiele, Dana Weekes, Zhanwen Li, Lukasz Jaroszewski, Krzysztof Ginalski, Ashley Deacon, John Wooley, Scott Lesley, Ian Wilson, Bernhard Palsson, Andrei Osterman, Adam Godzik. Three-Dimensional Structural View of the Central Metabolic Network of Thermotoga maritima. Science. 2009 Sep 18;325(5947):1544-9.

Mayya Sedova, Mallika Iyer, Zhanwen Li, Lukasz Jaroszewski, Kai W Post, Thomas Hrabe, Eduard Porta-Pardo, Adam Godzik Cancer3D 2.0:: interactive analysis of 3D patterns of cancer mutations in cancer subsets. Nucleic Acids Research, gky1098 2018; Published on November 8 2018.

Ye Y, Osterman A, Overbeek R, Godzik A. Automatic detection of subsystem/pathway variants in genome analysis. Bioinformatics. 2005 Jun 1;21 Suppl 1:i478-i486.