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Query: IDP91436 gene: rluD; 23S rRNA pseudouridine synthase D [Vibrio vulnificus CMCP6] VV1_0484 [Vibrio vulnificus CMCP6], from CSGID

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 MAQQIELTNTVKDSQLGQRLDQAIAELFADFSRSRLKEWLLDGKVTVDGNVVTKPRTKVMGGEVITVLAELEDEVRWEAQDIPLDIVYEDDDILVINKPRDFVVHPGAGTPDGTVLNALLFHCPEVAEVPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRNITREYEAIAIGRMTAGGKVDKPIGRHATKRTLMAVSPMGKPAVTHFRVAEHFREHTRIRLRLETGRTHQIRVHMSYLQHPLLGDAAYGGRARIPAGASEDVTAMIRNFDRQALHAVMLRFEHPITGEEMEFHAPVPDDMVELTETLRRDAQEHGLPDEYLast
1 -119.000IDP91436 gene: rluD; 23S rRNA pseudouridine synthase D [Vibrio vulnificus CMCP6] VV1_0484 [Vibrio vulnificus CMCP6]  ali  100  1MAQQIELTNTVKDSQLGQRLDQAIAELFADFSRSRLKEWLLDGKVTVDGNVVTKPRTKVMGGEVITVLAELEDEVRWEAQDIPLDIVYEDDDILVINKPRDFVVHPGAGTPDGTVLNALLFHCPEVAEVPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQKRNITREYEAIAIGRMTAGGKVDKPIGRHATKRTLMAVSPMGKPAVTHFRVAEHFREHTRIRLRLETGRTHQIRVHMSYLQHPLLGDAAYGGRARIPAGASEDVTAMIRNFDRQALHAVMLRFEHPITGEEMEFHAPVPDDMVELTETLRRDAQEHGLPDEY 325
2 -112.000IDP04648 gene: rluD; ribosomal large subunit pseudouridine synthase D [Francisella tularensis subsp. tularensis SCHU S4] FTT1245 [Francisella tularensis subsp. tularensis SCHU S4]  ali follow..  43  6LSNRFHQNIIMHPKDAGKRIDVAINEQFEQFSRAQIQKWLKEGSITVNGRAT-KPKHIVLGDEEVEINIELLPTNEWIAEDINLKIIFEDDDIIVIDKPVNMIVHPGAGNPTGTVSNALLHRYKDQDKLPRAGIVHRLDKDTSGLMVAAKSSIAYHNLVQQLAERKVSRKYLAIVEGEIYKQGTINQPIGRDPTNRTKMAINYRGKEAITHYTSIEVYDGFTLIECQLETGRTHQIRVHMKSIKHPLVGDQTYNKSST------KLEKLAITIPTRQALHAYKLSFIHPTTAKMVKFKSKLPEDMLNLKAQLEQTVEMLDEDFE. 322
3 -103.000IDP06158 hypothetical protein jhp0682 [Helicobacter pylori J99] NP_223400 [Helicobacter pylori J99]  ali follow..  26  1......MQKVFIAPTHYKRIDEFLAKEL-QISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDAITLLTPKIVPKPKKELDLEIEVIFEDEDLLVLNKPPNLVVHKAPSVKEPTLVDWLKSQNYELGLKERYGIVHRLDKDTSGGIVIAKNNFTHVCLSEQLKTKMMGRYYIALLSTPLKEKMSVECYLTRNPNNRLKMIALKAAKKEKSRYSLLTSQNGMDLIGAKLFTGRTHQIRAHLEYLNRHIIGDNLYGLNG-----------VLSKEEIRIMLHAYLIEFKHPRSEQKLRFKVPLLKDMLEYLKKVFDKEN........ 310
4 -90.400IDP06187 hypothetical protein jhp0890 [Helicobacter pylori J99] NP_223608 [Helicobacter pylori J99]  ali follow..  25  2.................EKAYKLLSVQ-ENISHKKAKALIDSGLVSIGGQKLMVARKELPQNTRFSV-----------QKVEKPSVIFEDENILALFKPPFIESYDLVSFFKGW------------------ALLHRLDKETSGVILLVKESEFHLKAKKAFKDRAVKKEYLAIVQGIIEEEREINAPILTIKTTKAFSKISKKGQEAVTIITPLKIINKKTLLKVGIKTGRTHQIRVHLKHINHPIIGDTLYNNEPS--------------SAKRLMLHAHKIALLGY------EFEAIAPKEFE................... 241
5 -26.200IDP91360 16S rRNA uridine-516 pseudouridylate synthase [Vibrio vulnificus CMCP6] VV1_2843 [Vibrio vulnificus CMCP6]  ali follow..  18  1.................MRLDKFLCDA----TRKEATKILKSGEVTVNEQVQKSGAVKVTEECVVEWQ----------------ELAMQGPRYIMLYKPEGFVCSHEDGFNHTAFVLLDEVKMDEL--------AGRLDVDTTGLVLITDDGKWSHRITS--PKHKCDKTYRVWLADPIGSDYAEKLAEG---------VQLRNEKELTLPAQMTIVNADENEVLLTIHEGKYHQVKRMFAALGNKVE............................................................................. 199
6 -21.800IDP91456 16S rRNA uridine-516 pseudouridylate synthase [Vibrio vulnificus CMCP6] VV1_0246 [Vibrio vulnificus CMCP6]  ali follow..  22  2............SQDNAKRLNKYISET----SRREADKLIEQGRVTINGK-QPEMGTKVLPGDDVCVDGKPVAAK-------------EKPVYIALNKPTGITC-TTERDIPGNIVDFI-------GHKKRIFPIGRLDKPSDGLIFLTNDGDIVNKILR--AGNHHEKEYVV----------RVDKPITPEFIKAMSSGVILDTVTLPCKVTQETK----FSFRIVLTQGLNRQIRRMCEALGYEVF............................................................................. 199
7 -13.500IDP01031 gene: yrfH; ribosome-associated heat shock protein Hsp15 STM3497 [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]  ali follow..  18  1.........MKEKSSVEVRLDKWLWAARFYKTRAMAREMIEGGKVHYNGQRS-KPSKIVELNATLTLTVIVKAITEQRRPASEAVALYEEEKMAQARKLNALTMPHPDRRPD..................................................................................................................................................................................................................... 117
8 -12.000IDP91404 ribosome-associated heat shock protein implicated in the recycling of the 50S subunit [Vibrio vulnificus CMCP6] VV1_0879 [Vibrio vulnificus CMCP6]  ali follow..  25  1..........MSSPNEAVRLDKWLWAARFYKTRSIARDMVDGGKVHYNGQRA-KPSKIVEVGAVLKL.................................................................................................................................................................................................................................................................. 56
9 -10.000IDP90550 gene: rpsD; 30S ribosomal protein S4 [Campylobacter jejuni subsp. jejuni NCTC 11168] Cj1594 [Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819]  ali follow..  27  98.................QRLDNIVYRMGFATTRRFARQLVTHGHVLVNGKRVDIPSFRVEAGAKIEII................................................................................................................................................................................................................................................................. 148
10 -9.380IDP06051 gene: hlyA; hemolysin [Helicobacter pylori J99] NP_223058 [Helicobacter pylori J99]  ali follow..  18  1.................MRLDYALFNQHLANSREKAKALVLKKQVLVNKMVVSKPSFIVKEGDQIELI---APNLFVSRAGEKLGAFLEDHFIDFKEKVV-------VGASKGGFSQVALLKGAKKVLCVDVGLDESLKNDQR-IECYEECDIRGFKTPEKIDLALCDVSFISL....................................................................................................................................................... 151

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.

Li W, Godzik A. cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences. Bioinformatics. 2006 May 26;