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# Query Length Result vs. Range Score %id Covered by template(s)
1 gi|13507740|ref|NP_109689.1| DNA polymerase III beta subunit MPN001 [Mycoplasma pneumoniae M129] 380 COG1018 1-380 -85.700 20  [L] COG0592 DNA polymerase sliding clamp subunit (PCNA homolog)
CSGID 1-380 -94.600 21  IDP04571 DNA polymerase III subunit beta [Bacillus anthracis str. Sterne] BAS0002 [Bacillus anthracis str. Sterne]
H.sapiens 133-377 -8.890 13  sp|Q6WBX8|RAD9B_HUMAN Cell cycle checkpoint control protein RAD9B OS=Homo sapiens GN=RAD9B PE=1 SV=2
HGM_OVER 3-358 -4.480 10  PB004476 gi|139436894|ref|ZP_01771054.1| Hypothetical protein COLAER_00025 [Collinsella aerofaciens ATCC 25986]gi|133776541|gb|EBA40361.1| Hypothetical protein COLAER_00025 [Collinsella aerofaciens ATCC 25986]
NEW_HUMAN_DOMAINS 29-122 -4.830 14  sp|Q04912|RON_HUMAN Macrophage-stimulating protein receptor OS=Homo sapiens GN=MST1R PE=1 SV=2
PDB1018 1-380 -96.900 21  4tr6_A mol:protein length:380 DNA polymerase III subunit beta
PfamA32U 1-120 -43.300 20  PF00712.19; DPO3B_CAUVC/1-121; DNA polymerase III beta subunit, N-terminal domain
135-256 -39.800 12  PF02767.16; DPO3B_PSEPK/129-244; DNA polymerase III beta subunit, central domain
258-380 -52.100 23  PF02768.15; DPO3B_BACSU/253-376; DNA polymerase III beta subunit, C-terminal domain
SCOP207 1-121 -47.200 18  d1vpka1 d.131.1.1 (A:1-120) DNA polymerase III, beta subunit {Thermotoga maritima [TaxId: 2336]}
129-257 -41.200 12  d4k3la2 d.131.1.1 (A:123-244) DNA polymerase III, beta subunit {Escherichia coli [TaxId: 562]}
258-380 -51.000 18  d4k3la3 d.131.1.1 (A:245-365) DNA polymerase III, beta subunit {Escherichia coli [TaxId: 562]}
VFDB 1-380 -85.700 20  [L] COG0592 DNA polymerase sliding clamp subunit (PCNA homolog)
2 gi|13507741|ref|NP_109690.1| DnaJ domain-containing protein MPN002 [Mycoplasma pneumoniae M129] 309 COG1018 2-309 -90.100 18  [O] COG0484 DnaJ-class molecular chaperone with C-terminal Zn finger domain
CSGID 2-309 -95.500 20  IDP01653 gene: dnaJ; chaperone protein dnaJ [Bacillus anthracis str. `Ames Ancestor`] GBAA4538 [Bacillus anthracis str. `Ames Ancestor`]
H.sapiens 2-308 -85.700 20  sp|O60884|DNJA2_HUMAN DnaJ homolog subfamily A member 2 OS=Homo sapiens GN=DNAJA2 PE=1 SV=1
HGM_OVER 5-49 -6.350 22  PB002794 gi|86143885|ref|ZP_01062253.1| hypothetical protein MED217_03525 [Flavobacterium sp. MED217]gi|85829592|gb|EAQ48055.1| hypothetical protein MED217_03525 [Leeuwenhoekiella blandensis MED217]
NEW_HUMAN_DOMAINS 1-59 -7.510 11  sp|Q9UBC1|IKBL1_HUMAN NF-kappa-B inhibitor-like protein 1 OS=Homo sapiens GN=NFKBIL1 PE=1 SV=1
PDB1018 2-299 -79.500 20  4j80_A mol:protein length:284 Chaperone protein DnaJ 2
PfamA32U 2-61 -37.100 43  PF00226.31; Q22028_CAEEL/17-79; DnaJ domain
120-309 -54.200 12  PF01556.18; T0NBZ6_9EURY/129-343; DnaJ C terminal domain
SCOP207 2-76 -42.600 29  d2o37a_ a.2.3.0 (A:) automated matches {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
118-265 -16.900 10  d2q2ga1 b.4.1.0 (A:4-86) automated matches {Cryptosporidium parvum [TaxId: 353152]}
134-222 -19.900 8  d1exka_ g.54.1.1 (A:) Cysteine-rich domain of the chaperone protein DnaJ {Escherichia coli [TaxId: 562]}
VFDB 2-309 -90.100 18  [O] COG0484 DnaJ-class molecular chaperone with C-terminal Zn finger domain
3 gi|13507742|ref|NP_109691.1| DNA gyrase subunit B MPN003 [Mycoplasma pneumoniae M129] 650 COG1018 1-650 -150.000 47  [L] COG0187 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit
CSGID 2-650 -200.000 52  IDP04572 DNA gyrase subunit B [Bacillus anthracis str. Sterne] BAS0005 [Bacillus anthracis str. Sterne]
H.sapiens 2-272 -70.400 20  sp|P11388|TOP2A_HUMAN DNA topoisomerase 2-alpha OS=Homo sapiens GN=TOP2A PE=1 SV=3
87-410 -80.600 18  sp|Q02880|TOP2B_HUMAN DNA topoisomerase 2-beta OS=Homo sapiens GN=TOP2B PE=1 SV=3
277-573 -102.000 24  sp|P11388|TOP2A_HUMAN DNA topoisomerase 2-alpha OS=Homo sapiens GN=TOP2A PE=1 SV=3
411-650 -84.500 27  sp|Q02880|TOP2B_HUMAN DNA topoisomerase 2-beta OS=Homo sapiens GN=TOP2B PE=1 SV=3
HGM_OVER 396-649 -3.120 8  PB015879 Q5LJ14_BACFN/120-411 PB015879; Pfam-B_15879;
NEW_HUMAN_DOMAINS 437-511 -6.730 19  sp|Q6IEE8|SN12L_HUMAN Schlafen family member 12-like OS=Homo sapiens GN=SLFN12L PE=2 SV=3
PDB1018 2-650 -182.000 44  4juo_C mol:protein length:670 DNA topoisomerase 4 subunit B
PfamA32U 39-143 -13.900 21  PF13589.6; A5G4D8_GEOUR/22-165; Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
228-408 -57.900 40  PF00204.25; A9KS52_LACP7/226-396; DNA gyrase B
546-645 -30.300 17  PF16898.5; K5XBZ3_PHACS/641-767; C-terminal associated domain of TOPRIM
577-639 -31.600 63  PF00986.21; M9X0E0_MANHA/738-800; DNA gyrase B subunit, carboxyl terminus
SCOP207 20-227 -80.000 51  d4k4oa1 d.122.1.0 (A:18-224) automated matches {Enterococcus faecalis [TaxId: 226185]}
228-409 -57.000 36  d1kija1 d.14.1.3 (A:221-392) DNA gyrase B {Thermus thermophilus [TaxId: 274]}
411-644 -48.700 28  d1bjta_ e.11.1.1 (A:) DNA topoisomerase II, C-terminal fragment (residues 410-1202) {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
430-629 -95.000 56  d3m4ia_ e.78.1.1 (A:) DNA gyrase beta-prime domain {Mycobacterium tuberculosis [TaxId: 1773]}
VFDB 1-650 -150.000 47  [L] COG0187 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit
4 gi|13507743|ref|NP_109692.1| DNA gyrase subunit A MPN004 [Mycoplasma pneumoniae M129] 839 COG1018 15-839 -159.000 38  [L] COG0188 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), A subunit
CSGID 14-839 -167.000 43  IDP90834 DNA gyrase, subunit A [Vibrio cholerae O1 biovar eltor str. N16961] VC1258 [Vibrio cholerae O1 biovar El Tor str. N16961]
H.sapiens 2-234 -45.900 25  sp|P11388|TOP2A_HUMAN DNA topoisomerase 2-alpha OS=Homo sapiens GN=TOP2A PE=1 SV=3
61-371 -57.000 22  sp|Q02880|TOP2B_HUMAN DNA topoisomerase 2-beta OS=Homo sapiens GN=TOP2B PE=1 SV=3
239-517 -24.800 12  sp|Q02880|TOP2B_HUMAN DNA topoisomerase 2-beta OS=Homo sapiens GN=TOP2B PE=1 SV=3
HGM_OVER 23-189 -1.880 14  HGC00690 gi|162868815|dbj|BABB01001192.1|3.0 TMP00870;
NEW_HUMAN_DOMAINS 49-181 -5.200 21  sp|Q9H1B7|I2BPL_HUMAN Interferon regulatory factor 2-binding protein-like OS=Homo sapiens GN=IRF2BPL PE=1 SV=1
PDB1018 1-499 -120.000 42  4i3h_A mol:protein length:1144 Topoisomerase IV subunit B, DNA topoisomerase 4 subunit A chimera
42-762 -124.000 31  1zvu_A mol:protein length:716 Topoisomerase IV subunit A
507-816 -38.400 26  1suu_A mol:protein length:312 DNA gyrase subunit A
PfamA32U 44-471 -62.700 20  PF00521.20; A0A0D1DXS4_USTMA/785-1232; DNA gyrase/topoisomerase IV, subunit A
SCOP207 17-528 -65.100 17  d1bjta_ e.11.1.1 (A:) DNA topoisomerase II, C-terminal fragment (residues 410-1202) {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
42-499 -107.000 49  d3ilwa_ e.11.1.0 (A:) automated matches {Mycobacterium tuberculosis [TaxId: 1773]}
512-817 -37.400 32  d4g3na_ b.68.10.0 (A:) automated matches {Mycobacterium tuberculosis [TaxId: 83332]}
VFDB 15-839 -159.000 38  [L] COG0188 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), A subunit
5 gi|13507744|ref|NP_109693.1| seryl-tRNA synthetase MPN005 [Mycoplasma pneumoniae M129] 420 COG1018 1-418 -130.000 43  [J] COG0172 Seryl-tRNA synthetase
CSGID 1-418 -130.000 44  IDP04574 seryl-tRNA synthetase [Bacillus anthracis str. Sterne] BAS0015 [Bacillus anthracis str. Sterne]
H.sapiens 1-417 -116.000 25  sp|P49591|SYSC_HUMAN Seryl-tRNA synthetase, cytoplasmic OS=Homo sapiens GN=SARS PE=1 SV=3
HGM_OVER 213-407 -3.690 11  PB064361 Q64PJ4_BACFR/1-580 PB064361; Pfam-B_64361;
NEW_HUMAN_DOMAINS 244-410 -6.130 16  tr|E5RG91|E5RG91_HUMAN Uncharacterized protein OS=Homo sapiens GN=VPS37A PE=4 SV=1
PDB1018 1-419 -128.000 43  2dq3_A mol:protein length:425 Seryl-tRNA synthetase
PfamA32U 1-104 -28.200 22  PF02403.22; C5WTV8_SORBI/1-114; Seryl-tRNA synthetase N-terminal domain
212-394 -13.700 14  PF00587.25; SYT_ECOLI/318-529; tRNA synthetase class II core domain (G, H, P, S and T)
SCOP207 1-109 -32.600 24  d1seta1 a.2.7.1 (A:1-110) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}
112-419 -114.000 35  d1seta2 d.104.1.1 (A:111-421) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}
VFDB 1-418 -130.000 43  [J] COG0172 Seryl-tRNA synthetase
6 gi|13507745|ref|NP_109694.1| thymidylate kinase MPN006 [Mycoplasma pneumoniae M129] 210 COG1018 3-207 -85.100 33  [F] COG0125 Thymidylate kinase
CSGID 3-207 -85.400 32  IDP90611 gene: tmk; thymidylate kinase [Vibrio cholerae O1 biovar eltor str. N16961] VC2016 [Vibrio cholerae O1 biovar El Tor str. N16961]
H.sapiens 1-207 -67.400 23  sp|P23919|KTHY_HUMAN Thymidylate kinase OS=Homo sapiens GN=DTYMK PE=1 SV=4
HGM_OVER 85-121 -3.310 11  PB004718 Q5LIA4_BACFN/1-189 PB004718; Pfam-B_4718;
NEW_HUMAN_DOMAINS 6-101 -5.560 10  sp|Q8IVG5|SAM9L_HUMAN Sterile alpha motif domain-containing protein 9-like OS=Homo sapiens GN=SAMD9L PE=1 SV=2
PDB1018 2-207 -89.800 27  2ccg_A mol:protein length:225 THYMIDYLATE KINASE
PfamA32U 9-197 -84.600 35  PF02223.17; KTHY_BACSU/8-199; Thymidylate kinase
SCOP207 4-206 -89.600 28  d4hlca_ c.37.1.0 (A:) automated matches {Staphylococcus aureus [TaxId: 282458]}
VFDB 3-207 -85.100 33  [F] COG0125 Thymidylate kinase
7 gi|13507746|ref|NP_109695.1| DNA polymerase III subunit delta' MPN007 [Mycoplasma pneumoniae M129] 253 COG1018 2-251 -78.100 19  [L] COG2812 DNA polymerase III, gamma/tau subunits
CSGID 2-234 -73.200 21  IDP91261 DNA polymerase III, delta prime subunit [Bacillus anthracis str. Sterne] NT05BA0041 [Bacillus anthracis str. Sterne]
H.sapiens 2-251 -57.200 10  sp|P35250|RFC2_HUMAN Replication factor C subunit 2 OS=Homo sapiens GN=RFC2 PE=1 SV=3
HGM_OVER 21-249 -4.200 11  PB006101 JCVI_PEP_1096697844517 /source_dna_id=JCVI_ORF_1096697844516 /offset=0 /translation_table=11 /length=371 /full_length=371
NEW_HUMAN_DOMAINS 16-109 -5.890 7  sp|Q6ZRR9|DCDC5_HUMAN Doublecortin domain-containing protein 5 OS=Homo sapiens GN=DCDC5 PE=2 SV=2
PDB1018 2-204 -90.700 20  1njf_A mol:protein length:250 DNA polymerase III subunit gamma
2-251 -83.700 18  3glf_B mol:protein length:395 DNA polymerase III subunit tau
PfamA32U 1-223 -11.200 9  PF04665.12; Q6TUP8_YMTV5/6-246; Poxvirus A32 protein
2-142 -73.300 27  PF13177.6; A5VIC8_LACRD/13-171; DNA polymerase III, delta subunit
2-189 -23.200 7  PF05673.13; Q0K6N5_CUPNH/29-287; Protein of unknown function (DUF815 topsan)
SCOP207 2-204 -90.100 20  d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}
8-240 -11.600 11  d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}
VFDB 2-251 -78.100 19  [L] COG2812 DNA polymerase III, gamma/tau subunits
8 gi|13507747|ref|NP_109696.1| tRNA modification GTPase TrmE MPN008 [Mycoplasma pneumoniae M129] 442 COG1018 1-442 -117.000 27  [R] COG0486 Predicted GTPase
CSGID 3-442 -117.000 29  IDP01354 gene: trmE; tRNA modification GTPase TrmE VC0003 [Vibrio cholerae O1 biovar El Tor str. N16961]
H.sapiens 2-442 -117.000 25  sp|Q969Y2|GTPB3_HUMAN tRNA modification GTPase GTPBP3, mitochondrial OS=Homo sapiens GN=GTPBP3 PE=2 SV=2
HGM_OVER 9-442 -3.280 10  PB002589 gi|91201099|emb|CAJ74158.1| hypothetical protein [Candidatus Kuenenia stuttgartiensis]
NEW_HUMAN_DOMAINS 10-113 -5.080 17  sp|Q10571|MN1_HUMAN Probable tumor suppressor protein MN1 OS=Homo sapiens GN=MN1 PE=1 SV=3
PDB1018 2-442 -119.000 31  1xzp_A mol:protein length:482 Probable tRNA modification GTPase trmE
PfamA32U 6-121 -56.800 40  PF10396.9; A4CKF7_ROBBH/5-124; GTP-binding protein TrmE N-terminus
124-439 -82.100 27  PF12631.7; D5XDU4_THEPJ/127-455; MnmE helical domain
SCOP207 5-121 -58.700 42  d1xzpa3 d.250.1.2 (A:1-117) TrmE formyl-THF-binding domain {Thermotoga maritima [TaxId: 2336]}
122-442 -40.800 23  d1xzpa1 a.24.25.1 (A:118-211,A:372-450) TrmE connector domain {Thermotoga maritima [TaxId: 2336]}
217-362 -54.200 31  d2gj8a_ c.37.1.8 (A:) automated matches {Escherichia coli [TaxId: 469008]}
VFDB 1-442 -117.000 27  [R] COG0486 Predicted GTPase
9 gi|13507748|ref|NP_109697.1| hydrolase MPN009 [Mycoplasma pneumoniae M129] 261 COG1018 1-261 -108.000 26  [L] COG0084 Mg-dependent DNase
CSGID 1-261 -102.000 32  IDP00957 gene: ycfH; predicted metallodependent hydrolase STM1202 [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
H.sapiens 1-260 -93.900 21  sp|Q17R31|TATD3_HUMAN Putative deoxyribonuclease TATDN3 OS=Homo sapiens GN=TATDN3 PE=1 SV=1
HGM_OVER 115-259 -3.180 10  PB002104 Q72PH8_LEPIC/1-220 PB002104; Pfam-B_2104;
NEW_HUMAN_DOMAINS 178-260 -6.400 12  sp|P14543|NID1_HUMAN Nidogen-1 OS=Homo sapiens GN=NID1 PE=1 SV=3
PDB1018 1-261 -104.000 29  1j6o_A mol:protein length:268 TatD-related deoxyribonuclease
PfamA32U 4-260 -104.000 29  PF01026.21; Y454_HAEIN/4-256; TatD related DNase
SCOP207 3-261 -104.000 29  d1j6oa1 c.1.9.12 (A:0-255) Hypothetical protein TM0667 {Thermotoga maritima [TaxId: 2336]}
VFDB 1-261 -108.000 26  [L] COG0084 Mg-dependent DNase
10 gi|13507749|ref|NP_109698.1| hypothetical protein MPN010 [Mycoplasma pneumoniae M129] 131 COG1018 84-131 -5.460 18  [M] COG4238 Murein lipoprotein
CSGID 55-129 -5.930 14  IDP06461 gene: I7L; I7L [Monkeypox virus Zaire-96-I-16] NP_536495 [Monkeypox virus Zaire-96-I-16]
H.sapiens 47-128 -7.860 15  sp|Q6QNY0|BL1S3_HUMAN Biogenesis of lysosome-related organelles complex 1 subunit 3 OS=Homo sapiens GN=BLOC1S3 PE=1 SV=1
HGM_OVER 78-131 -3.750 4  HGC00928 gi|162868028|dbj|BABB01001979.1|3.0 TMP01255;
NEW_HUMAN_DOMAINS 57-119 -5.660 15  tr|Q0PRL4|Q0PRL4_HUMAN Forkhead box P2 variant 3 OS=Homo sapiens GN=FOXP2 PE=2 SV=1
PDB1018 46-130 -39.000 100  2ba2_A mol:protein length:85 Hypothetical UPF0134 protein MPN010
PfamA32U 37-130 -38.000 43  PF01519.16; Y137_MYCPN/43-170; Protein of unknown function DUF16 topsan
SCOP207 2-130 -7.180 16  d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}
VFDB 84-131 -5.460 18  [M] COG4238 Murein lipoprotein
11 gi|13507750|ref|NP_109699.1|(removed signal:1-26) hypothetical protein MPN011 [Mycoplasma pneumoniae M129] 205 COG1018 1-61 -5.510 29  [J] KOG0400 40S ribosomal protein S13
CSGID 6-52 -6.470 10  IDP91976 hypothetical protein HMPREF0837_10616 [Streptococcus pneumoniae TCH8431/19A] HMPREF0837_10616 [Streptococcus pneumoniae TCH8431/19A]
H.sapiens 1-65 -6.460 16  sp|Q9H2G9|GO45_HUMAN Golgin-45 OS=Homo sapiens GN=BLZF1 PE=1 SV=2
HGM_OVER 36-104 -3.850 13  HGC00552 gi|162599220|dbj|BAAV01006262.1|2.0 TMP00636;
NEW_HUMAN_DOMAINS 2-64 -7.120 14  tr|C9JH90|C9JH90_HUMAN Uncharacterized protein OS=Homo sapiens GN=ANO10 PE=4 SV=1
PDB1018 6-58 -6.640 18  3viq_A mol:protein length:122 Swi5-dependent recombination DNA repair protein 1
PfamA32U 16-82 -29.000 32  PF00938.17; Y643_MYCPN/57-141; Lipoprotein
SCOP207 2-61 -7.350 14  d1yt3a2 a.60.8.3 (A:295-375) Ribonuclease D {Escherichia coli [TaxId: 562]}
VFDB 1-61 -5.510 29  [J] KOG0400 40S ribosomal protein S13
12 gi|13507751|ref|NP_109700.1|(removed signal:1-21) hypothetical protein MPN012 [Mycoplasma pneumoniae M129] 214 COG1018 14-150 -5.230 8  [S] COG4731 Uncharacterized protein conserved in bacteria
CSGID 13-64 -5.780 13  IDP91328 ribonuclease G and E [Vibrio vulnificus CMCP6] VV2_0290 [Vibrio vulnificus CMCP6]
H.sapiens 2-204 -6.050 12  sp|Q2T9K0|TMM44_HUMAN Transmembrane protein 44 OS=Homo sapiens GN=TMEM44 PE=2 SV=2
HGM_OVER 18-158 -3.450 19  PB000119 Q6KIT1_MYCMO/1-381 PB000119; Pfam-B_119;
NEW_HUMAN_DOMAINS 6-59 -5.440 13  tr|C9JH90|C9JH90_HUMAN Uncharacterized protein OS=Homo sapiens GN=ANO10 PE=4 SV=1
PDB1018 10-62 -6.570 17  3viq_A mol:protein length:122 Swi5-dependent recombination DNA repair protein 1
PfamA32U 2-65 -14.300 35  PF00938.17; Y643_MYCPN/57-141; Lipoprotein
SCOP207 21-143 -6.500 10  d1fcda2 c.3.1.5 (A:115-255) Flavocytochrome c sulfide dehydrogenase, FCSD, flavin-binding subunit {Chromatium vinosum [TaxId: 1049]}
VFDB 14-150 -5.230 8  [S] COG4731 Uncharacterized protein conserved in bacteria
13 gi|13507752|ref|NP_109701.1| hypothetical protein MPN013 [Mycoplasma pneumoniae M129] 257 COG1018 1-257 -11.900 5  [P] KOG3684 Ca2+-activated K+ channel proteins (intermediate/small conductance classes)
2-115 -15.100 6  [R] KOG2350 Zn-finger protein joined to JAZF1 (predicted suppressor)
CSGID 1-120 -34.800 11  IDP91682 gene: ORF73; nuclear antigen LANA [Murid herpesvirus 4] MuHV4gp74 [Murid herpesvirus 4]
2-254 -18.100 10  IDP91949 pneumococcal histidine triad protein E [Streptococcus pneumoniae str. Canada MDR_19A] SpneCM_010100007099 [Streptococcus pneumoniae str. Canada MDR_19A]
27-166 -24.600 7  IDP05143 triple helix repeat-containing collagen [Bacillus anthracis str. Sterne] BAS4423 [Bacillus anthracis str. Sterne]
H.sapiens 1-132 -40.500 15  sp|Q9H7P9|PKHG2_HUMAN Pleckstrin homology domain-containing family G member 2 OS=Homo sapiens GN=PLEKHG2 PE=1 SV=3
1-197 -23.800 8  sp|A6H8Z2|CI128_HUMAN Uncharacterized protein C9orf128 OS=Homo sapiens GN=C9orf128 PE=2 SV=2
50-135 -43.700 22  sp|P84157|MXRA7_HUMAN(removed signalp:1-33) Matrix-remodeling-associated protein 7 OS=Homo sapiens GN=MXRA7 PE=1 SV=1
HGM_OVER 159-247 -3.790 6  PB069407 _HOMD.0084606_ pint_c_2_12 Prevotella intermedia 17 [3585 - 4295] ORF
NEW_HUMAN_DOMAINS 42-135 -10.600 14  sp|Q92750|TAF4B_HUMAN Transcription initiation factor TFIID subunit 4B OS=Homo sapiens GN=TAF4B PE=1 SV=2
51-109 -14.200 8  sp|Q96DT7|ZBT10_HUMAN Zinc finger and BTB domain-containing protein 10 OS=Homo sapiens GN=ZBTB10 PE=1 SV=2
PDB1018 2-131 -11.400 18  1i3q_A mol:protein length:1733 DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT
2-257 -10.900 7  5ife_C mol:protein length:1304 Splicing factor 3B subunit 1
43-126 -29.800 25  1wck_A mol:protein length:220 BCLA PROTEIN
44-160 -26.400 12  4hsi_A mol:protein length:703 Envelope glycoprotein B
PfamA32U 27-123 -35.800 12  PF17352.2; C5XFS2_SORBI/33-141; Male Flower Specific protein 18
120-256 -13.200 27  PF01519.16; Y137_MYCPN/43-170; Protein of unknown function DUF16 topsan
SCOP207 51-118 -6.900 16  d1jhna3 b.104.1.1 (A:270-411) Calnexin {Dog (Canis familiaris) [TaxId: 9615]}
VFDB 1-257 -11.900 5  [P] KOG3684 Ca2+-activated K+ channel proteins (intermediate/small conductance classes)
2-115 -15.100 6  [R] KOG2350 Zn-finger protein joined to JAZF1 (predicted suppressor)
14 gi|13507753|ref|NP_109702.1| hypothetical protein MPN014 [Mycoplasma pneumoniae M129] 212 COG1018 2-212 -66.900 18  [L] COG0358 DNA primase (bacterial type)
CSGID 2-212 -66.900 18  IDP90503 DNA primase [Vibrio cholerae O1 biovar eltor str. N16961] NP_230169 [Vibrio cholerae O1 biovar El Tor str. N16961]
H.sapiens 18-201 -32.700 14  sp|Q96RR1|PEO1_HUMAN(removed signalp:1-19) Twinkle protein, mitochondrial OS=Homo sapiens GN=PEO1 PE=1 SV=1
HGM_OVER 51-181 -3.350 8  PB007011 gi|160888195|ref|ZP_02069198.1| hypothetical protein BACUNI_00603 [Bacteroides uniformis ATCC 8492]gi|156862330|gb|EDO55761.1| hypothetical protein BACUNI_00603 [Bacteroides uniformis ATCC 8492]
NEW_HUMAN_DOMAINS 71-162 -4.650 8  sp|Q8N122|RPTOR_HUMAN Regulatory-associated protein of mTOR OS=Homo sapiens GN=RPTOR PE=1 SV=1
PDB1018 2-212 -79.200 21  4e2k_A mol:protein length:329 DNA primase
PfamA32U 2-101 -46.800 15  PF08275.11; Q8F416_LEPIN/119-248; DNA primase catalytic core, N-terminal domain
108-195 -43.900 27  PF13155.6; Q8EPY5_OCEIH/263-348; Toprim-like
SCOP207 2-212 -77.600 20  d1dd9a_ e.13.1.1 (A:) DNA primase DnaG catalytic core {Escherichia coli [TaxId: 562]}
VFDB 2-212 -66.900 18  [L] COG0358 DNA primase (bacterial type)
15 gi|13507754|ref|NP_109703.1| hypothetical protein MPN015 [Mycoplasma pneumoniae M129] 285 COG1018 2-283 -55.800 14  [HJ] COG0189 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase)
CSGID 8-275 -31.100 13  IDP00575 gene: ddl; D-alanine--D-alanine ligase YPO0557 [Yersinia pestis CO92]
H.sapiens 8-283 -73.400 15  sp|Q8IXN7|RIMKA_HUMAN Ribosomal protein S6 modification-like protein A OS=Homo sapiens GN=RIMKLA PE=2 SV=2
HGM_OVER 185-283 -3.550 10  PB046158 _JGI.0336690_ 2004028347 [Human Gut Community Subject 8]
NEW_HUMAN_DOMAINS 231-285 -4.700 9  sp|Q9UPW5|CBPC1_HUMAN Cytosolic carboxypeptidase 1 OS=Homo sapiens GN=AGTPBP1 PE=1 SV=3
PDB1018 9-277 -77.000 16  3vpb_A mol:protein length:282 Putative acetylornithine deacetylase
PfamA32U 9-89 -15.700 8  PF18030.1; D3SB52_THISK/1-94; RimK PreATP-grasp domain
92-271 -67.800 17  PF08443.11; RIMK_HAEIN/105-293; RimK-like ATP-grasp domain
SCOP207 11-94 -18.600 11  d3vpda1 c.30.1.0 (A:1-88) automated matches {Thermus thermophilus [TaxId: 274]}
95-277 -65.600 14  d3vpda2 d.142.1.7 (A:89-281) automated matches {Thermus thermophilus [TaxId: 274]}
VFDB 2-283 -55.800 14  [HJ] COG0189 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase)
16 gi|13507755|ref|NP_109704.1| ribosomal S6 modification protein MPN016 [Mycoplasma pneumoniae M129] 288 COG1018 1-288 -54.000 19  [HJ] COG0189 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase)
CSGID 2-288 -26.900 13  IDP00575 gene: ddl; D-alanine--D-alanine ligase YPO0557 [Yersinia pestis CO92]
H.sapiens 1-288 -69.300 22  sp|Q8IXN7|RIMKA_HUMAN Ribosomal protein S6 modification-like protein A OS=Homo sapiens GN=RIMKLA PE=2 SV=2
HGM_OVER 203-288 -2.920 6  PB046158 _JGI.0336690_ 2004028347 [Human Gut Community Subject 8]
NEW_HUMAN_DOMAINS 70-240 -6.170 17  sp|A5YM72|CRNS1_HUMAN Carnosine synthase 1 OS=Homo sapiens GN=CARNS1 PE=1 SV=3
PDB1018 1-288 -71.500 18  3vpb_A mol:protein length:282 Putative acetylornithine deacetylase
PfamA32U 1-87 -15.600 21  PF18030.1; D3SB52_THISK/1-94; RimK PreATP-grasp domain
90-287 -66.400 24  PF08443.11; RIMK_HAEIN/105-293; RimK-like ATP-grasp domain
SCOP207 16-92 -16.800 14  d3vpda1 c.30.1.0 (A:1-88) automated matches {Thermus thermophilus [TaxId: 274]}
82-288 -62.000 12  d1i7na2 d.142.1.3 (A:215-420) Synapsin II {Norway rat (Rattus norvegicus) [TaxId: 10116]}
VFDB 1-288 -54.000 19  [HJ] COG0189 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase)
17 gi|13507756|ref|NP_109705.1| 5,10-methylene-tetrahydrofolate dehydrogenase MPN017 [Mycoplasma pneumoniae M129] 269 COG1018 2-266 -102.000 29  [H] COG0190 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase
CSGID 2-267 -105.000 28  IDP90810 gene: folD; folD bifunctional protein [Campylobacter jejuni subsp. jejuni NCTC 11168] Cj0855 [Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819]
H.sapiens 2-268 -101.000 28  sp|P11586|C1TC_HUMAN C-1-tetrahydrofolate synthase, cytoplasmic OS=Homo sapiens GN=MTHFD1 PE=1 SV=3
HGM_OVER 145-268 -3.320 16  PB012991 Q2RHT0_MOOTA/1-175 PB012991; Pfam-B_12991;
NEW_HUMAN_DOMAINS 205-252 -5.760 14  tr|B0UZT8|B0UZT8_HUMAN Chromosome 6 open reading frame 10 (Fragment) OS=Homo sapiens GN=C6orf10 PE=4 SV=1
PDB1018 2-267 -105.000 28  3p2o_A mol:protein length:285 Bifunctional protein folD
PfamA32U 2-111 -49.700 32  PF00763.23; FOLD_BACSK/6-121; Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain
121-264 -67.900 27  PF02882.19; FOLD1_ARATH/184-349; Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain
SCOP207 1-112 -50.600 33  d4b4ua1 c.58.1.0 (A:1-121) automated matches {Acinetobacter baumannii [TaxId: 575584]}
121-267 -65.600 28  d4cjxa2 c.2.1.0 (A:125-297) automated matches {Trypanosoma brucei [TaxId: 999953]}
VFDB 2-266 -102.000 29  [H] COG0190 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase
18 gi|13507757|ref|NP_109706.1|(removed signal:1-25) transport ATP-binding protein MPN018 [Mycoplasma pneumoniae M129] 598 COG1018 1-590 -122.000 24  [V] COG1132 ABC-type multidrug transport system, ATPase and permease components
CSGID 1-597 -126.000 19  IDP91071 putative ABC transporter, ATP-binding protein [Neisseria gonorrhoeae FA 1090] NGO2165 [Neisseria gonorrhoeae FA 1090]
H.sapiens 15-321 -49.600 13  sp|Q9NUT2|ABCB8_HUMAN ATP-binding cassette sub-family B member 8, mitochondrial OS=Homo sapiens GN=ABCB8 PE=1 SV=3
71-377 -57.800 17  sp|Q03518|TAP1_HUMAN Antigen peptide transporter 1 OS=Homo sapiens GN=TAP1 PE=1 SV=2
153-469 -63.400 22  sp|Q9NP78|ABCB9_HUMAN(removed signalp:1-23) ATP-binding cassette sub-family B member 9 OS=Homo sapiens GN=ABCB9 PE=1 SV=1
195-512 -71.600 26  sp|Q9NP58|ABCB6_HUMAN ATP-binding cassette sub-family B member 6, mitochondrial OS=Homo sapiens GN=ABCB6 PE=1 SV=1
245-557 -73.200 29  sp|P08183|MDR1_HUMAN Multidrug resistance protein 1 OS=Homo sapiens GN=ABCB1 PE=1 SV=3
311-598 -82.600 31  sp|Q9NP78|ABCB9_HUMAN(removed signalp:1-23) ATP-binding cassette sub-family B member 9 OS=Homo sapiens GN=ABCB9 PE=1 SV=1
HGM_OVER 412-595 -4.000 11  HGC00374 gi|162831834|dbj|BABA01012875.1|1.0 TMP00304;
NEW_HUMAN_DOMAINS 338-549 -4.670 11  sp|Q8IVG5|SAM9L_HUMAN Sterile alpha motif domain-containing protein 9-like OS=Homo sapiens GN=SAMD9L PE=1 SV=2
PDB1018 1-596 -123.000 30  4q4j_A mol:protein length:587 ABC transporter
PfamA32U 14-296 -11.000 15  PF00664.23; ABCC8_CRICR/318-590; ABC transporter transmembrane region
306-577 -18.900 12  PF09818.9; Q10V01_TRIEI/4-493; Predicted ATPase of the ABC class
358-517 -29.200 24  PF00005.27; YTFR_ECOLI/25-174; ABC transporter
SCOP207 1-325 -53.300 15  d5mkka1 f.37.1.0 (A:11-336) automated matches {Thermus thermophilus [TaxId: 262724]}
340-591 -82.900 31  d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}
VFDB 1-590 -122.000 24  [V] COG1132 ABC-type multidrug transport system, ATPase and permease components
19 gi|13507758|ref|NP_109707.1| transport ATP-binding protein MPN019 [Mycoplasma pneumoniae M129] 634 COG1018 28-634 -133.000 27  [V] COG1132 ABC-type multidrug transport system, ATPase and permease components
CSGID 30-634 -145.000 33  IDP91081 ABC transporter, ATP-binding/permease protein [Clostridium difficile 630] CD2817 [Peptoclostridium difficile 630]
H.sapiens 57-376 -54.600 17  sp|Q9NUT2|ABCB8_HUMAN ATP-binding cassette sub-family B member 8, mitochondrial OS=Homo sapiens GN=ABCB8 PE=1 SV=3
128-432 -62.500 17  sp|Q03518|TAP1_HUMAN Antigen peptide transporter 1 OS=Homo sapiens GN=TAP1 PE=1 SV=2
210-514 -67.800 23  sp|Q9NP78|ABCB9_HUMAN(removed signalp:1-23) ATP-binding cassette sub-family B member 9 OS=Homo sapiens GN=ABCB9 PE=1 SV=1
252-557 -79.300 29  sp|Q9NP58|ABCB6_HUMAN ATP-binding cassette sub-family B member 6, mitochondrial OS=Homo sapiens GN=ABCB6 PE=1 SV=1
358-632 -84.500 39  sp|Q9NRK6|ABCBA_HUMAN ATP-binding cassette sub-family B member 10, mitochondrial OS=Homo sapiens GN=ABCB10 PE=1 SV=2
392-634 -89.200 39  sp|O75027|ABCB7_HUMAN(removed signalp:1-16) ATP-binding cassette sub-family B member 7, mitochondrial OS=Homo sapiens GN=ABCB7 PE=1 SV=2
HGM_OVER 505-613 -4.420 11  PB202086 Q8G498_BIFLO/2-200 PB202086; Pfam-B_202086;
NEW_HUMAN_DOMAINS 505-613 -4.380 17  sp|Q86UK5|LBN_HUMAN Limbin OS=Homo sapiens GN=EVC2 PE=1 SV=1
PDB1018 25-634 -146.000 33  3qf4_B mol:protein length:598 Uncharacterized ABC transporter ATP-binding protein TM_0288
PfamA32U 54-352 -10.900 16  PF00664.23; ABCC8_CRICR/318-590; ABC transporter transmembrane region
354-622 -20.000 12  PF09818.9; Q10V01_TRIEI/4-493; Predicted ATPase of the ABC class
413-562 -29.100 29  PF00005.27; YTFR_ECOLI/25-174; ABC transporter
SCOP207 35-381 -62.200 19  d5mkka1 f.37.1.0 (A:11-336) automated matches {Thermus thermophilus [TaxId: 262724]}
397-634 -88.300 38  d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}
VFDB 28-634 -133.000 27  [V] COG1132 ABC-type multidrug transport system, ATPase and permease components
20 gi|13507759|ref|NP_109708.1| helicases MPN020 [Mycoplasma pneumoniae M129] 1030 COG1018 1-1030 -162.000 23  [KL] COG0553 Superfamily II DNA/RNA helicases, SNF2 family
CSGID 276-1028 -10.300 8  IDP06368 gene: ORF64; ORF64 [Human herpesvirus 8] YP_001129421 [Human herpesvirus 8]
418-1029 -11.200 14  CPX_91688_91668 Complex of B1AP14_HUMAN with Q914E0_9ENTO [Undefined organism]
469-1026 -13.000 13  IDP93842 ATP-dependent DNA helicase RecG [Yersinia enterocolitica subsp. palearctica Y11] YP_006006418 [Yersinia enterocolitica subsp. palearctica Y11]
567-1030 -64.200 16  IDP06471 gene: E11L; E11L [Monkeypox virus Zaire-96-I-16] NP_536535 [Monkeypox virus Zaire-96-I-16]
H.sapiens 513-783 -59.300 27  sp|O14981|BTAF1_HUMAN TATA-binding protein-associated factor 172 OS=Homo sapiens GN=BTAF1 PE=1 SV=2
696-990 -65.500 22  sp|Q5FWF4|ZRAB3_HUMAN Zinc finger Ran-binding domain-containing protein 3 OS=Homo sapiens GN=ZRANB3 PE=2 SV=2
788-1030 -56.900 25  sp|Q9UNY4|TTF2_HUMAN Transcription termination factor 2 OS=Homo sapiens GN=TTF2 PE=1 SV=2
HGM_OVER 893-1030 -2.810 9  PB014033 A5ZI39_9BACE/1-158 PB014033; Pfam-B_14033;
NEW_HUMAN_DOMAINS 11-109 -13.600 19  sp|Q9HCJ5|ZSWM6_HUMAN Zinc finger SWIM domain-containing protein 6 OS=Homo sapiens GN=ZSWIM6 PE=2 SV=2
PDB1018 378-1023 -19.700 12  4xqk_A mol:protein length:1578 LlaBIII
449-1030 -59.400 14  4s20_K mol:protein length:974 RNA polymerase-associated protein RapA
500-1030 -93.500 28  5vvr_M mol:protein length:1085 DNA repair and recombination protein RAD26
549-1030 -100.000 36  1z63_A mol:protein length:500 Helicase of the snf2/rad54 family
PfamA32U 198-571 -14.300 9  PF08455.10; R4KHE0_9FIRM/244-621; Bacterial SNF2 helicase associated
581-854 -48.800 29  PF00176.23; RAD54_SCHPO/267-575; SNF2 family N-terminal domain
826-1030 -31.700 15  PF16203.5; Q0UAJ3_PHANO/498-753; ERCC3/RAD25/XPB C-terminal helicase
SCOP207 464-1023 -10.300 11  d1twfa_ e.29.1.2 (A:) RBP1 {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
567-796 -65.800 38  d1z63a1 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 hamily {Sulfolobus solfataricus [TaxId: 2287]}
798-1030 -61.500 36  d1z5za1 c.37.1.19 (A:663-906) Helicase of the SNF2/Rad54 hamily {Sulfolobus solfataricus [TaxId: 2287]}
VFDB 1-1030 -162.000 23  [KL] COG0553 Superfamily II DNA/RNA helicases, SNF2 family

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;