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# Query Length Result vs. Range Score %id Covered by template(s)
1 gi|108885075|ref|NP_072661.2| DNA polymerase III, beta subunit (MG_001) [Mycoplasma genitalium G37] 380 COG0614 1-380 -82.000 18  [L] COG0592 DNA polymerase sliding clamp subunit (PCNA homolog)
H.sapiens 128-378 -8.650 12  sp|P12004|PCNA_HUMAN Proliferating cell nuclear antigen OS=Homo sapiens GN=PCNA PE=1 SV=1
HGM_OVER 64-380 -1.630 PB013946 A7ABR4_9PORP/121-442 PB013946; Pfam-B_13946;
NEW_HUMAN_DOMAINS 34-192 -4.770 11  tr|F8VUB1|F8VUB1_HUMAN Uncharacterized protein OS=Homo sapiens GN=PMEL PE=4 SV=1 (Range: 27-221)
PDB0614 1-380 -100.000 19  2avt_A mol:protein length:378 DNA polymerase III beta subunit
PfamA27U 1-121 -50.500 20  PF00712.14; DPO3B_BACSU/1-127; DNA polymerase III beta subunit, N-terminal domain
135-256 -33.900 15  PF02767.11; DPO3B_PROMI/129-244; DNA polymerase III beta subunit, central domain
258-380 -55.400 29  PF02768.10; DPO3B_BACSU/253-376; DNA polymerase III beta subunit, C-terminal domain
SCOP175 1-121 -45.800 21  d1vpka1 d.131.1.1 (A:1-120) DNA polymerase III, beta subunit {Thermotoga maritima [TaxId: 2336]}
133-257 -39.000 19  d1vpka2 d.131.1.1 (A:121-243) DNA polymerase III, beta subunit {Thermotoga maritima [TaxId: 2336]}
258-380 -49.100 23  d1vpka3 d.131.1.1 (A:244-366) DNA polymerase III, beta subunit {Thermotoga maritima [TaxId: 2336]}
VFDB 246-333 -3.830 VFG1878 (gi:52842095) lspL - general secretion pathway protein L [Legionella pneumophila Philadelphia 1] (VF0154)
2 gi|108885076|ref|NP_072662.2| DnaJ domain-containing protein (MG_002) [Mycoplasma genitalium G37] 310 COG0614 2-309 -99.800 17  [O] COG0484 DnaJ-class molecular chaperone with C-terminal Zn finger domain
H.sapiens 2-309 -92.800 15  sp|Q96EY1|DNJA3_HUMAN(removed signalp:1-21) DnaJ homolog subfamily A member 3, mitochondrial OS=Homo sapiens GN=DNAJA3 PE=1 SV=2
HGM_OVER 9-63 -4.900 21  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 -7.640 13  sp|Q9UBC1|IKBL1_HUMAN NF-kappa-B inhibitor-like protein 1 OS=Homo sapiens GN=NFKBIL1 PE=1 SV=1 (Range: 294-381)
PDB0614 2-309 -72.600 16  3lz8_A mol:protein length:329 Putative chaperone DnaJ
PfamA27U 2-61 -39.000 46  PF00226.26; Q22028_CAEEL/17-79; DnaJ domain
7-99 -19.200 12  PF14687.1; A7RRF5_NEMVE/89-191; Domain of unknown function (DUF4460 topsan)
150-218 -20.600 PF00684.14; DNAJ1_CORGL/147-211; DnaJ central domain
SCOP175 2-70 -43.400 39  d1xbla_ a.2.3.1 (A:) DnaJ chaperone, N-terminal (J) domain {Escherichia coli [TaxId: 562]}
5-227 -9.810 d2cvca1 a.138.1.1 (A:40-544) 16-heme cytochrome c HmcA {Desulfovibrio vulgaris [TaxId: 881]}
135-223 -26.100 13  d1exka_ g.54.1.1 (A:) Cysteine-rich domain of the chaperone protein DnaJ {Escherichia coli [TaxId: 562]}
187-266 -15.300 13  d1nlta1 b.4.1.1 (A:110-138,A:213-257) Mitochondrial protein import protein mas5 (Hsp40, Ydj1), C-terminal domain {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
VFDB 11-60 -4.710 22  VFG2034 (gi:13508191) hmw3 - cytadherence accessory protein HMW3 [Mycoplasma pneumoniae M129] (VF0330)
3 gi|12044853|ref|NP_072663.1| DNA gyrase subunit B (MG_003) [Mycoplasma genitalium G37] 650 COG0614 3-650 -150.000 47  [L] COG0187 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit
H.sapiens 2-247 -53.900 24  sp|P11388|TOP2A_HUMAN DNA topoisomerase 2-alpha OS=Homo sapiens GN=TOP2A PE=1 SV=3 (Range: 1-300)
87-408 -63.300 19  sp|Q02880|TOP2B_HUMAN DNA topoisomerase 2-beta OS=Homo sapiens GN=TOP2B PE=1 SV=3 (Range: 151-450)
275-573 -75.100 26  sp|P11388|TOP2A_HUMAN DNA topoisomerase 2-alpha OS=Homo sapiens GN=TOP2A PE=1 SV=3 (Range: 301-600)
411-650 -59.300 27  sp|Q02880|TOP2B_HUMAN DNA topoisomerase 2-beta OS=Homo sapiens GN=TOP2B PE=1 SV=3 (Range: 451-750)
HGM_OVER 472-639 -4.050 20  HGC00522 gi|163636101|dbj|BABG01000172.1|3.0 TMP00580;
NEW_HUMAN_DOMAINS 512-584 -6.110 27  sp|Q9H799|CE042_HUMAN Uncharacterized protein C5orf42 OS=Homo sapiens GN=C5orf42 PE=2 SV=3 (Range: 1-96)
PDB0614 2-649 -187.000 46  4juo_C mol:protein length:670 DNA topoisomerase 4 subunit B
PfamA27U 228-408 -77.400 38  PF00204.20; Q9R3E4_ACISP/115-285; DNA gyrase B
548-645 -26.000 21  PF16898; F5HDJ4.1/657-784; C-terminal associated domain of TOPRIM
576-639 -45.300 57  PF00986.16; Q6MRR8_BDEBA/731-795; DNA gyrase B subunit, carboxyl terminus
SCOP175 7-227 -86.400 46  d1ei1a2 d.122.1.2 (A:2-220) DNA gyrase B {Escherichia coli [TaxId: 562]}
228-409 -78.100 34  d1ei1a1 d.14.1.3 (A:221-392) DNA gyrase B {Escherichia coli [TaxId: 562]}
423-640 -26.000 28  d1bjta_ e.11.1.1 (A:) DNA topoisomerase II, C-terminal fragment (residues 410-1202) {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
VFDB 24-547 -10.200 11  VFG1568 (gi:23954252) orf34 - hypothetical protein [Escherichia coli 536]
4 gi|12044854|ref|NP_072664.1| DNA gyrase subunit A (MG_004) [Mycoplasma genitalium G37] 836 COG0614 16-836 -197.000 39  [L] COG0188 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), A subunit
H.sapiens 2-209 -41.700 25  sp|Q02880|TOP2B_HUMAN DNA topoisomerase 2-beta OS=Homo sapiens GN=TOP2B PE=1 SV=3 (Range: 601-900)
86-392 -58.800 23  sp|P11388|TOP2A_HUMAN DNA topoisomerase 2-alpha OS=Homo sapiens GN=TOP2A PE=1 SV=3 (Range: 751-1050)
237-510 -31.800 12  sp|Q02880|TOP2B_HUMAN DNA topoisomerase 2-beta OS=Homo sapiens GN=TOP2B PE=1 SV=3 (Range: 901-1200)
HGM_OVER 127-302 -2.190 14  HGC00164 gi|163636082|dbj|BABG01000191.1|4.0 TMP00833;
NEW_HUMAN_DOMAINS 49-195 -5.480 20  sp|Q9H1B7|I2BPL_HUMAN Interferon regulatory factor 2-binding protein-like OS=Homo sapiens GN=IRF2BPL PE=1 SV=1 (Range: 373-516)
PDB0614 13-512 -145.000 52  4ddq_A mol:protein length:502 DNA gyrase subunit A
42-748 -130.000 32  1zvu_A mol:protein length:716 Topoisomerase IV subunit A
512-833 -65.900 32  3uc1_A mol:protein length:327 DNA gyrase subunit A
PfamA27U 44-470 -73.800 29  PF00521.15; A1ZXC5_9BACT/29-447; DNA gyrase/topoisomerase IV, subunit A
620-665 -13.400 37  PF03989.8; GYRA_HAEIN/641-686; DNA gyrase C-terminal domain, beta-propeller
SCOP175 9-493 -67.000 19  d1bjta_ e.11.1.1 (A:) DNA topoisomerase II, C-terminal fragment (residues 410-1202) {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
42-498 -130.000 52  d1ab4a_ e.11.1.1 (A:) DNA Gyrase A {Escherichia coli [TaxId: 562]}
514-815 -62.300 27  d1suua_ b.68.10.1 (A:) DNA gyrase A C-terminal domain {Lyme disease spirochete (Borrelia burgdorferi) [TaxId: 139]}
VFDB 52-629 -7.050 13  VFG0079 (gi:16802278) clpC - endopeptidase Clp ATP-binding chain C [Listeria monocytogenes (serovar 1/2a) EGD-e] (VF0072)
5 gi|12044855|ref|NP_072665.1| seryl-tRNA synthetase (MG_005) [Mycoplasma genitalium G37] 417 COG0614 1-413 -129.000 42  [J] COG0172 Seryl-tRNA synthetase
H.sapiens 1-416 -117.000 27  sp|Q9NP81|SYSM_HUMAN Seryl-tRNA synthetase, mitochondrial OS=Homo sapiens GN=SARS2 PE=1 SV=1
HGM_OVER 224-373 -3.120 12  PB004718 Q5LIA4_BACFN/1-189 PB004718; Pfam-B_4718;
NEW_HUMAN_DOMAINS 26-104 -5.140 tr|B5MDG7|B5MDG7_HUMAN Uncharacterized protein OS=Homo sapiens GN=HMG20B PE=4 SV=2 (Range: 199-286)
PDB0614 1-417 -133.000 43  2dq3_A mol:protein length:425 Seryl-tRNA synthetase
PfamA27U 1-104 -36.100 24  PF02403.17; Q8GE42_HELMO/1-107; Seryl-tRNA synthetase N-terminal domain
169-338 -95.300 48  PF00587.20; SYS_BACSU/173-344; tRNA synthetase class II core domain (G, H, P, S and T)
SCOP175 1-109 -37.600 22  d1seta1 a.2.7.1 (A:1-110) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}
113-417 -116.000 37  d1seta2 d.104.1.1 (A:111-421) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}
VFDB 1-106 -5.640 14  VFG1777 (gi:15088619) orf8 - unknown [Yersinia enterocolitica A127]
6 gi|12044856|ref|NP_072666.1| thymidylate kinase (MG_006) [Mycoplasma genitalium G37] 210 COG0614 3-209 -92.000 31  [F] COG0125 Thymidylate kinase
H.sapiens 1-207 -66.400 20  sp|P23919|KTHY_HUMAN Thymidylate kinase OS=Homo sapiens GN=DTYMK PE=1 SV=4
HGM_OVER 2-121 -4.910 10  PB013946 A7ABR4_9PORP/121-442 PB013946; Pfam-B_13946;
NEW_HUMAN_DOMAINS 44-123 -5.990 sp|Q4ZG55|GREB1_HUMAN Protein GREB1 OS=Homo sapiens GN=GREB1 PE=2 SV=1 (Range: 72-212)
PDB0614 1-207 -90.800 27  2ccg_A mol:protein length:225 THYMIDYLATE KINASE
PfamA27U 9-197 -88.700 33  PF02223.12; KTHY_BACSU/8-199; Thymidylate kinase
SCOP175 3-207 -85.000 30  d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}
VFDB 2-202 -10.100 14  VFG1988 (gi:15792733) Cj1415c - possible adenylylsulfate kinase [Campylobacter jejuni NCTC 11168] (VF0323)
7 gi|12044857|ref|NP_072667.1| DNA polymerase III subunit delta' (MG_007) [Mycoplasma genitalium G37] 254 COG0614 2-254 -75.200 16  [L] COG2812 DNA polymerase III, gamma/tau subunits
H.sapiens 2-245 -30.700 10  sp|Q9Y230|RUVB2_HUMAN RuvB-like 2 OS=Homo sapiens GN=RUVBL2 PE=1 SV=3
HGM_OVER 73-201 -3.720 HGC00962 gi|162759780|dbj|BAAZ01005693.1|3.0 TMP01305;
NEW_HUMAN_DOMAINS 37-120 -5.710 sp|Q6N043|Z280D_HUMAN Zinc finger protein 280D OS=Homo sapiens GN=ZNF280D PE=1 SV=3 (Range: 618-723)
PDB0614 2-205 -74.000 20  1njf_A mol:protein length:250 DNA polymerase III subunit gamma
12-238 -64.700 13  2gno_A mol:protein length:305 DNA polymerase III, gamma subunit-related pro
PfamA27U 2-144 -72.400 23  PF13177.1; B3XQR6_LACRE/12-172; DNA polymerase III, delta subunit
2-186 -28.200 13  PF06068.8; Q9GZH2_CAEEL/17-408; TIP49 C-terminus
5-251 -13.200 10  PF03215.10; RAD24_YEAST/58-575; Rad17 cell cycle checkpoint protein
SCOP175 2-205 -73.600 20  d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}
VFDB 1-238 -12.400 VFG2401 (gi:15608935) Rv1798 - hypothetical protein [Mycobacterium tuberculosis H37Rv] (VF0402)
8 gi|12044858|ref|NP_072668.1| tRNA modification GTPase TrmE (MG_008) [Mycoplasma genitalium G37] 442 COG0614 1-442 -116.000 28  [R] COG0486 Predicted GTPase
H.sapiens 1-442 -113.000 24  sp|Q969Y2|GTPB3_HUMAN tRNA modification GTPase GTPBP3, mitochondrial OS=Homo sapiens GN=GTPBP3 PE=2 SV=2
HGM_OVER 88-141 -4.250 HGC00573 gi|163306732|dbj|BABD01003960.1|2.0 TMP00669;
NEW_HUMAN_DOMAINS 191-246 -4.390 16  tr|C9JMU6|C9JMU6_HUMAN Uncharacterized protein OS=Homo sapiens GN=PPP2R3B PE=4 SV=1 (Range: 101-169)
PDB0614 1-442 -126.000 28  3geh_A mol:protein length:462 tRNA modification GTPase mnmE
PfamA27U 6-121 -46.500 27  PF10396.4; MNME_PSEA6/12-126; GTP-binding protein TrmE N-terminus
178-403 -12.700 13  PF05049.8; Q9DCE9_MOUSE/50-412; Interferon-inducible GTPase (IIGP)
219-332 -38.200 26  PF01926.18; DER_CHLCV/3-119; 50S ribosome-binding GTPase
368-439 -21.700 18  PF12631.2; B7IBI3_ACIB5/331-403; Catalytic cysteine-containing C-terminus of GTPase, MnmE
SCOP175 5-121 -61.200 42  d1xzpa3 d.250.1.2 (A:1-117) TrmE formyl-THF-binding domain {Thermotoga maritima [TaxId: 2336]}
122-442 -38.200 24  d1xzpa1 a.24.25.1 (A:118-211,A:372-450) TrmE connector domain {Thermotoga maritima [TaxId: 2336]}
217-362 -54.100 32  d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}
VFDB 188-435 -27.400 17  VFG0654 (gi:24114254) SF2990 - orf, conserved hypothetical protein [Shigella flexneri (serotype 2a) 301]
9 gi|12044859|ref|NP_072669.1| TatD family deoxyribonuclease (MG_009) [Mycoplasma genitalium G37] 262 COG0614 1-261 -102.000 27  [L] COG0084 Mg-dependent DNase
H.sapiens 1-261 -94.000 23  sp|Q17R31|TATD3_HUMAN Putative deoxyribonuclease TATDN3 OS=Homo sapiens GN=TATDN3 PE=1 SV=1
HGM_OVER 74-250 -4.520 11  HGC00374 gi|162831834|dbj|BABA01012875.1|1.0 TMP00304;
NEW_HUMAN_DOMAINS 205-254 -5.170 14  sp|O94885|SASH1_HUMAN SAM and SH3 domain-containing protein 1 OS=Homo sapiens GN=SASH1 PE=1 SV=3 (Range: 1078-1157)
PDB0614 1-261 -102.000 31  1j6o_A mol:protein length:268 TatD-related deoxyribonuclease
PfamA27U 4-260 -91.100 29  PF01026.16; Y454_HAEIN/4-256; TatD related DNase
SCOP175 1-261 -103.000 31  d1j6oa_ c.1.9.12 (A:) Hypothetical protein TM0667 {Thermotoga maritima [TaxId: 2336]}
VFDB 3-260 -7.380 10  VFG1351 (gi:22537332) cpsB - capsular polysaccharide biosynthesis protein CpsB [Streptococcus agalactiae 2603V/R] (VF0274)
10 gi|12044860|ref|NP_072670.1| DNA primase-related protein (MG_010) [Mycoplasma genitalium G37] 218 COG0614 1-217 -61.400 17  [L] COG0358 DNA primase (bacterial type)
H.sapiens 23-172 -31.500 19  sp|Q96RR1|PEO1_HUMAN(removed signalp:1-19) Twinkle protein, mitochondrial OS=Homo sapiens GN=PEO1 PE=1 SV=1 (Range: 1-300)
24-216 -28.400 16  sp|Q96RR1|PEO1_HUMAN(removed signalp:1-19) Twinkle protein, mitochondrial OS=Homo sapiens GN=PEO1 PE=1 SV=1 (Range: 151-450)
HGM_OVER 36-162 -4.550 13  PB012991 Q2RHT0_MOOTA/1-175 PB012991; Pfam-B_12991;
NEW_HUMAN_DOMAINS 25-194 -4.900 14  sp|Q9Y4D8|K0614_HUMAN Probable E3 ubiquitin-protein ligase C12orf51 OS=Homo sapiens GN=C12orf51 PE=1 SV=5 (Range: 2192-2433)
PDB0614 1-215 -71.200 18  4e2k_A mol:protein length:329 DNA primase
PfamA27U 1-107 -29.900 15  PF08275.6; Q64P92_BACFR/123-254; DNA primase catalytic core, N-terminal domain
114-201 -40.600 25  PF13155.1; C5EJG0_9FIRM/258-343; Toprim-like
SCOP175 1-217 -69.500 18  d1dd9a_ e.13.1.1 (A:) DNA primase DnaG catalytic core {Escherichia coli [TaxId: 562]}
VFDB 120-201 -5.570 12  VFG1590 (gi:23954273) orf56 - hypothetical protein [Escherichia coli 536]
11 gi|12044861|ref|NP_072671.1| hypothetical protein (MG_011) [Mycoplasma genitalium G37] 287 COG0614 1-284 -31.200 12  [HJ] COG0189 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase)
H.sapiens 8-285 -75.300 15  sp|Q8IXN7|RIMKA_HUMAN Ribosomal protein S6 modification-like protein A OS=Homo sapiens GN=RIMKLA PE=2 SV=2
HGM_OVER 181-285 -3.770 PB004996 Q5NNS6_ZYMMO/1-150 PB004996; Pfam-B_4996;
NEW_HUMAN_DOMAINS 79-199 -6.530 sp|Q66K74|MAP1S_HUMAN Microtubule-associated protein 1S OS=Homo sapiens GN=MAP1S PE=1 SV=2 (Range: 328-458)
PDB0614 9-279 -81.200 17  3vpb_A mol:protein length:282 Putative acetylornithine deacetylase
PfamA27U 1-275 -43.100 10  PF05770.6; Q9AYJ2_ORYSJ/16-320; Inositol 1, 3, 4-trisphosphate 5/6-kinase
94-273 -66.700 19  PF08443.6; RIMK_HAEIN/105-293; RimK-like ATP-grasp domain
SCOP175 13-96 -16.700 15  d1uc8a1 c.30.1.6 (A:1-88) Lysine biosynthesis enzyme LysX, N-terminal domain {Thermus thermophilus [TaxId: 274]}
97-278 -63.700 16  d1uc8a2 d.142.1.7 (A:89-280) Lysine biosynthesis enzyme LysX ATP-binding domain {Thermus thermophilus [TaxId: 274]}
VFDB 178-279 -6.770 10  VFG2249 (gi:49476210) trwN - trwN protein [Bartonella henselae Houston-1] (VF0372)
12 gi|12044862|ref|NP_072672.1| alpha-L-glutamate ligase (MG_012) [Mycoplasma genitalium G37] 287 COG0614 6-287 -29.600 20  [HJ] COG0189 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase)
H.sapiens 3-287 -78.700 22  sp|Q8IXN7|RIMKA_HUMAN Ribosomal protein S6 modification-like protein A OS=Homo sapiens GN=RIMKLA PE=2 SV=2
HGM_OVER 154-287 -5.110 PB015954 Q6WBB3_BIFBR/1-225 PB015954; Pfam-B_15954;
NEW_HUMAN_DOMAINS 188-259 -4.340 12  sp|Q96NE9|FRMD6_HUMAN FERM domain-containing protein 6 OS=Homo sapiens GN=FRMD6 PE=1 SV=1 (Range: 547-622)
PDB0614 8-287 -77.800 23  4iwx_A mol:protein length:320 Ribosomal protein S6 modification protein
PfamA27U 6-287 -38.100 PF05770.6; Q9AYJ2_ORYSJ/16-320; Inositol 1, 3, 4-trisphosphate 5/6-kinase
90-287 -69.400 23  PF08443.6; RIMK_HAEIN/105-293; RimK-like ATP-grasp domain
SCOP175 13-92 -17.700 15  d1uc8a1 c.30.1.6 (A:1-88) Lysine biosynthesis enzyme LysX, N-terminal domain {Thermus thermophilus [TaxId: 274]}
93-287 -62.100 23  d1uc8a2 d.142.1.7 (A:89-280) Lysine biosynthesis enzyme LysX ATP-binding domain {Thermus thermophilus [TaxId: 274]}
VFDB 155-275 -6.270 14  VFG0007 (gi:33592928) fimB - chaperone protein [Bordetella pertussis Tohama I] (VF0031)
13 gi|108885077|ref|NP_072673.2| methylenetetrahydrofolate dehydrogenase/methylenetetrahydrofolate cyclohydrolase (MG_013) [Mycoplasma genitalium G37] 273 COG0614 2-266 -111.000 28  [H] COG0190 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase
H.sapiens 2-270 -109.000 28  sp|P11586|C1TC_HUMAN C-1-tetrahydrofolate synthase, cytoplasmic OS=Homo sapiens GN=MTHFD1 PE=1 SV=3 (Range: 1-300)
HGM_OVER 125-207 -4.750 19  PB006154 _JGI.0331794_ 2004021056 [Human Gut Community Subject 7]
NEW_HUMAN_DOMAINS 225-272 -16.600 12  sp|Q6UB35|C1TM_HUMAN Monofunctional C1-tetrahydrofolate synthase, mitochondrial OS=Homo sapiens GN=MTHFD1L PE=1 SV=1 (Range: 298-355)
PDB0614 2-267 -121.000 30  3p2o_A mol:protein length:285 Bifunctional protein folD
PfamA27U 2-111 -55.300 32  PF00763.18; FOLD_SHIFL/4-121; Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain
114-265 -78.300 23  PF02882.14; Q9ZVI8_ARATH/182-349; Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain
SCOP175 2-112 -56.000 33  d1b0aa2 c.58.1.2 (A:2-122) Tetrahydrofolate dehydrogenase/cyclohydrolase {Escherichia coli [TaxId: 562]}
113-267 -80.500 24  d1a4ia1 c.2.1.7 (A:127-296) Methylenetetrahydrofolate dehydrogenase/cyclohydrolase {Human (Homo sapiens) [TaxId: 9606]}
VFDB 138-232 -5.350 12  VFG0934 (gi:26246575) entA - 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase [Escherichia coli CFT073] (VF0228)
14 gi|12044864|ref|NP_072674.1|(removed signalp:1-25) ABC transporter, ATP-binding/permease protein (MG_014) [Mycoplasma genitalium G37] 598 COG0614 3-587 -88.900 20  [V] COG2274 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain
H.sapiens 77-377 -46.400 17  sp|Q03518|TAP1_HUMAN Antigen peptide transporter 1 OS=Homo sapiens GN=TAP1 PE=1 SV=2 (Range: 301-600)
153-469 -60.200 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 (Range: 301-600)
194-510 -72.800 25  sp|Q03519|TAP2_HUMAN(removed signalp:1-28) Antigen peptide transporter 2 OS=Homo sapiens GN=TAP2 PE=1 SV=1 (Range: 301-600)
311-596 -80.500 33  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 (Range: 451-743)
HGM_OVER 380-593 -4.400 10  HGC00374 gi|162831834|dbj|BABA01012875.1|1.0 TMP00304;
NEW_HUMAN_DOMAINS 343-560 -4.610 10  sp|Q9P212|PLCE1_HUMAN 1-phosphatidylinositol-4,5-bisphosphate phosphodiesterase epsilon-1 OS=Homo sapiens GN=PLCE1 PE=1 SV=3 (Range: 185-483)
PDB0614 1-596 -164.000 30  3qf4_A mol:protein length:587 ABC transporter, ATP-binding protein
PfamA27U 1-253 -14.900 10  PF13748.1; B6R989_9RHOB/9-243; ABC transporter transmembrane region
55-308 -11.400 15  PF00664.18; ABCC8_CRICR/318-590; ABC transporter transmembrane region
358-517 -28.300 22  PF00005.22; YTFR_ECOLI/25-174; ABC transporter
SCOP175 2-324 -42.200 16  d2hyda2 f.37.1.1 (A:1-323) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}
309-597 -61.300 21  d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}
340-591 -79.000 31  d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}
VFDB 3-588 -90.900 23  VFG0841 (gi:3822163) hlyB - hemolysin transport protein [Escherichia coli O157:H7 EDL933] (VF0207)
15 gi|12044865|ref|NP_072675.1|(removed signalp:1-25) ABC transporter, ATP-binding/permease protein (MG_015) [Mycoplasma genitalium G37] 564 COG0614 3-562 -98.500 21  [V] COG2274 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain
37-564 -100.000 30  [V] COG1132 ABC-type multidrug transport system, ATPase and permease components
H.sapiens 2-207 -45.000 16  sp|Q03518|TAP1_HUMAN Antigen peptide transporter 1 OS=Homo sapiens GN=TAP1 PE=1 SV=2 (Range: 151-450)
58-362 -54.000 18  sp|Q03518|TAP1_HUMAN Antigen peptide transporter 1 OS=Homo sapiens GN=TAP1 PE=1 SV=2 (Range: 301-600)
140-444 -62.400 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 (Range: 301-600)
181-485 -69.600 25  sp|Q03519|TAP2_HUMAN(removed signalp:1-28) Antigen peptide transporter 2 OS=Homo sapiens GN=TAP2 PE=1 SV=1 (Range: 301-600)
238-531 -70.400 36  sp|P08183|MDR1_HUMAN Multidrug resistance protein 1 OS=Homo sapiens GN=ABCB1 PE=1 SV=3 (Range: 301-600)
297-562 -84.600 39  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 (Range: 451-743)
HGM_OVER 374-554 -4.020 14  PB060121 Q64SA7_BACFR/1-251 PB060121; Pfam-B_60121;
NEW_HUMAN_DOMAINS 398-559 -5.500 sp|Q9C0D5|TANC1_HUMAN Protein TANC1 OS=Homo sapiens GN=TANC1 PE=1 SV=3 (Range: 691-900)
PDB0614 2-564 -157.000 34  3qf4_B mol:protein length:598 Uncharacterized ABC transporter ATP-binding p
PfamA27U 2-251 -31.000 PF13748.1; B6R989_9RHOB/9-243; ABC transporter transmembrane region
343-492 -28.200 28  PF00005.22; YTFR_ECOLI/25-174; ABC transporter
351-546 -10.100 14  PF13401.1; B2UJB3_RALPJ/42-210; AAA domain
SCOP175 2-311 -62.400 15  d2hyda2 f.37.1.1 (A:1-323) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}
327-564 -86.300 36  d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}
VFDB 3-562 -99.000 26  VFG0841 (gi:3822163) hlyB - hemolysin transport protein [Escherichia coli O157:H7 EDL933] (VF0207)
16 gi|108885078|ref|NP_072678.2| SNF2 family helicase putative (MG_018) [Mycoplasma genitalium G37] (Range: 1-500) 500 COG0614 1-116 -8.640 18  [S] COG4715 Uncharacterized conserved protein
H.sapiens 1-118 -12.200 16  sp|Q9HCJ5|ZSWM6_HUMAN Zinc finger SWIM domain-containing protein 6 OS=Homo sapiens GN=ZSWIM6 PE=2 SV=2 (Range: 151-450)
HGM_OVER 82-272 -3.620 14  PB038401 Q8RFH0_FUSNN/1-210 PB038401; Pfam-B_38401;
NEW_HUMAN_DOMAINS 12-116 -13.300 18  sp|Q9HCJ5|ZSWM6_HUMAN Zinc finger SWIM domain-containing protein 6 OS=Homo sapiens GN=ZSWIM6 PE=2 SV=2 (Range: 201-338)
PDB0614 5-106 -7.450 12  4bsk_C mol:protein length:121 VASCULAR ENDOTHELIAL GROWTH FACTOR C
PfamA27U 46-85 -22.100 42  PF04434.12; Y020_MYCPN/46-86; SWIM zinc finger
SCOP175 65-149 -7.670 20  d1rfxa_ g.77.1.1 (A:) Resistin (ADSF, FIZZ3) {Mouse (Mus musculus) [TaxId: 10090]}
VFDB 35-120 -4.370 10  VFG0136 (gi:15595962) mucC - negative regulator for alginate biosynthesis MucB [Pseudomonas aeruginosa PAO1] (VF0091)
17 gi|108885078|ref|NP_072678.2| SNF2 family helicase putative (MG_018) [Mycoplasma genitalium G37] (Range: 251-750) 500 COG0614 56-500 -62.900 22  [KL] COG0553 Superfamily II DNA/RNA helicases, SNF2 family
H.sapiens 123-400 -52.100 16  sp|O14981|BTAF1_HUMAN TATA-binding protein-associated factor 172 OS=Homo sapiens GN=BTAF1 PE=1 SV=2 (Range: 1051-1350)
196-500 -60.600 20  sp|Q9NZC9|SMAL1_HUMAN SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A-like protein 1 OS=Homo sapiens GN=SMARCAL1 PE=1 SV=1 (Range: 301-600)
240-500 -67.300 26  sp|Q2NKX8|ERC6L_HUMAN DNA excision repair protein ERCC-6-like OS=Homo sapiens GN=ERCC6L PE=1 SV=1 (Range: 1-300)
279-500 -71.900 30  sp|O14981|BTAF1_HUMAN TATA-binding protein-associated factor 172 OS=Homo sapiens GN=BTAF1 PE=1 SV=2 (Range: 1201-1500)
HGM_OVER 334-500 -3.960 14  PB028090 gi|167758043|ref|ZP_02430170.1| hypothetical protein CLOSCI_00381 [Clostridium scindens ATCC 35704]gi|167663940|gb|EDS08070.1| hypothetical protein CLOSCI_00381 [Clostridium scindens ATCC 35704]
NEW_HUMAN_DOMAINS 338-498 -5.020 13  sp|Q8N9H9|CA127_HUMAN Uncharacterized protein C1orf127 OS=Homo sapiens GN=C1orf127 PE=2 SV=2 (Range: 1-200)
PDB0614 134-499 -10.800 4a2w_A mol:protein length:936 RETINOIC ACID INDUCIBLE PROTEIN I
179-500 -22.900 15  3dmq_A mol:protein length:968 RNA polymerase-associated protein rapA
300-500 -50.500 37  1z63_A mol:protein length:500 Helicase of the snf2/rad54 family
PfamA27U 26-321 -39.700 13  PF08455.5; A4J9J5_DESRM/246-626; Bacterial SNF2 helicase associated
307-500 -47.700 23  PF00176.18; RAD54_YEAST/274-621; SNF2 family N-terminal domain
SCOP175 206-500 -17.700 12  d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]}
272-483 -21.700 16  d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}
317-500 -66.700 41  d1z63a1 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 hamily {Sulfolobus solfataricus [TaxId: 2287]}
VFDB 159-500 -49.900 22  VFG1093 (gi:15641763) VC1760 - helicase, putative [Vibrio cholerae N16961]
18 gi|108885078|ref|NP_072678.2| SNF2 family helicase putative (MG_018) [Mycoplasma genitalium G37] (Range: 501-1000) 500 COG0614 1-500 -97.800 33  [KL] COG0553 Superfamily II DNA/RNA helicases, SNF2 family
H.sapiens 29-283 -78.400 30  sp|O14981|BTAF1_HUMAN TATA-binding protein-associated factor 172 OS=Homo sapiens GN=BTAF1 PE=1 SV=2 (Range: 1201-1500)
196-491 -87.700 24  sp|Q5FWF4|ZRAB3_HUMAN Zinc finger Ran-binding domain-containing protein 3 OS=Homo sapiens GN=ZRANB3 PE=2 SV=2 (Range: 151-450)
HGM_OVER 341-494 -4.970 14  PB007843 JCVI_PEP_1096682172521 /source_dna_id=JCVI_ORF_1096682172520 /offset=0 /translation_table=11 /length=152 /full_length=152
NEW_HUMAN_DOMAINS 202-281 -6.210 15  sp|P57076|CU059_HUMAN Uncharacterized protein C21orf59 OS=Homo sapiens GN=C21orf59 PE=1 SV=1 (Range: 101-187)
PDB0614 50-499 -108.000 36  1z63_A mol:protein length:500 Helicase of the snf2/rad54 family
PfamA27U 57-354 -66.900 24  PF00176.18; RAD54_YEAST/274-621; SNF2 family N-terminal domain
334-498 -30.800 16  PF16203; Q0UAJ3.1/498-753; ERCC3/RAD25/XPB C-terminal helicase
SCOP175 66-296 -79.900 39  d1z63a1 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 hamily {Sulfolobus solfataricus [TaxId: 2287]}
298-499 -61.600 36  d1z5za1 c.37.1.19 (A:663-906) Helicase of the SNF2/Rad54 hamily {Sulfolobus solfataricus [TaxId: 2287]}
VFDB 50-500 -97.900 26  VFG1093 (gi:15641763) VC1760 - helicase, putative [Vibrio cholerae N16961]
19 gi|108885078|ref|NP_072678.2| SNF2 family helicase putative (MG_018) [Mycoplasma genitalium G37] (Range: 751-1031) 281 COG0614 1-281 -70.600 34  [KL] COG0553 Superfamily II DNA/RNA helicases, SNF2 family
H.sapiens 1-281 -83.100 21  sp|Q9NZC9|SMAL1_HUMAN SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A-like protein 1 OS=Homo sapiens GN=SMARCAL1 PE=1 SV=1 (Range: 601-900)
HGM_OVER 91-266 -4.870 12  PB007843 JCVI_PEP_1096682172521 /source_dna_id=JCVI_ORF_1096682172520 /offset=0 /translation_table=11 /length=152 /full_length=152
NEW_HUMAN_DOMAINS 169-279 -6.170 10  sp|Q9NR09|BIRC6_HUMAN Baculoviral IAP repeat-containing protein 6 OS=Homo sapiens GN=BIRC6 PE=1 SV=2 (Range: 2039-2203)
PDB0614 27-281 -85.700 34  1z5z_A mol:protein length:271 Helicase of the snf2/rad54 family
PfamA27U 1-104 -17.900 28  PF00176.18; RAD54_YEAST/274-621; SNF2 family N-terminal domain
47-281 -34.000 10  PF11496.3; Q6FSK5_CANGA/26-299; Class II histone deacetylase complex subunits 2 and 3
84-281 -38.600 16  PF16203; Q0UAJ3.1/498-753; ERCC3/RAD25/XPB C-terminal helicase
SCOP175 1-46 -10.000 37  d1z63a1 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 hamily {Sulfolobus solfataricus [TaxId: 2287]}
48-281 -80.700 35  d1z5za1 c.37.1.19 (A:663-906) Helicase of the SNF2/Rad54 hamily {Sulfolobus solfataricus [TaxId: 2287]}
VFDB 1-281 -67.800 20  VFG1093 (gi:15641763) VC1760 - helicase, putative [Vibrio cholerae N16961]
20 gi|12044869|ref|NP_072679.1| chaperone protein DnaJ (MG_019) [Mycoplasma genitalium G37] 389 COG0614 3-388 -120.000 32  [O] COG0484 DnaJ-class molecular chaperone with C-terminal Zn finger domain
H.sapiens 3-389 -116.000 26  sp|Q96EY1|DNJA3_HUMAN(removed signalp:1-21) DnaJ homolog subfamily A member 3, mitochondrial OS=Homo sapiens GN=DNAJA3 PE=1 SV=2
HGM_OVER 1-82 -3.800 18  PB019388 gi|83589066|ref|YP_429075.1| Radical SAM [Moorella thermoacetica ATCC 39073]gi|83571980|gb|ABC18532.1| Radical SAM [Moorella thermoacetica ATCC 39073]
NEW_HUMAN_DOMAINS 125-225 -8.160 12  sp|Q6ZRI0|OTOG_HUMAN Otogelin OS=Homo sapiens GN=OTOG PE=2 SV=3 (Range: 2441-2829)
PDB0614 1-375 -82.600 22  3lz8_A mol:protein length:329 Putative chaperone DnaJ
PfamA27U 7-74 -39.700 52  PF00226.26; Q22028_CAEEL/17-79; DnaJ domain
164-229 -33.500 32  PF00684.14; DNAJ1_CORGL/147-211; DnaJ central domain
285-365 -20.300 18  PF01556.13; A2FIH5_TRIVA/258-337; DnaJ C terminal domain
SCOP175 4-83 -47.100 53  d1xbla_ a.2.3.1 (A:) DnaJ chaperone, N-terminal (J) domain {Escherichia coli [TaxId: 562]}
151-234 -36.300 31  d1exka_ g.54.1.1 (A:) Cysteine-rich domain of the chaperone protein DnaJ {Escherichia coli [TaxId: 562]}
203-277 -12.400 13  d1nlta1 b.4.1.1 (A:110-138,A:213-257) Mitochondrial protein import protein mas5 (Hsp40, Ydj1), C-terminal domain {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
279-367 -25.500 15  d1c3ga2 b.4.1.1 (A:260-349) Heat shock protein 40 Sis1 {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
VFDB 11-241 -4.720 14  VFG2358 (gi:123442806) flhC - flagellum biosynthesis transcription activator [Yersinia enterocolitica 8081] (VF0394)


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.

Alexey M. Eroshkin, Andrew LeBlanc, Dana Weekes, Kai Post, Zhanwen Li, Akhil Rajput, Sal T. Butera, Dennis R. Burton, Adam Godzik. bNAber: database of broadly neutralizing HIV antibodies. Nucl. Acids Res. 2013; published on November 7, 2013.

Li W, Godzik A. VISSA: a program to visualize structural features from structure sequence alignment. Bioinformatics. 2006 Apr 1;22(7):887-8. Epub 2006 Jan 24.