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# Query Length Result vs. Range Score %id Covered by template(s)
1 ACL93468.1 301 COG0113 25-296 -95.300 28  [S] COG1806 Uncharacterized protein conserved in bacteria
PDB0113 171-293 -9.480 16  2axp_A mol:protein length:173 hypothetical protein BSU20280
PfamA26U 32-287 -93.200 28  PF03618.9; Y2422_ACIAD/11-268; Kinase/pyrophosphorylase
SCOP175 171-291 -10.600 17  d2axpa1 c.37.1.1 (A:2-165) Hypothetical protein YorR {Bacillus subtilis [TaxId: 1423]}
2 ACL93469.1 199 COG0113 4-197 -97.600 45  [D] COG0424 Nucleotide-binding protein implicated in inhibition of septum formation
PDB0113 1-198 -82.800 26  4heb_A mol:protein length:210 Septum formation protein Maf
PfamA26U 4-196 -84.700 27  PF02545.9; MAF_BACSU/3-188; Maf-like protein
SCOP175 3-194 -82.800 27  d1ex2a_ c.51.4.2 (A:) Maf protein {Bacillus subtilis [TaxId: 1423]}
3 ACL93470.1 285 COG0113 5-285 -96.900 34  [E] COG0169 Shikimate 5-dehydrogenase
PDB0113 11-285 -96.100 29  3don_A mol:protein length:277 Shikimate dehydrogenase
PfamA26U 14-96 -43.900 29  PF08501.6; ARO1_EMENI/1294-1374; Shikimate dehydrogenase substrate binding domain
126-252 -19.200 22  PF01488.15; HEM1_BACHD/171-306; Shikimate / quinate 5-dehydrogenase
SCOP175 10-109 -58.700 36  d1nyta2 c.58.1.5 (A:1-101) Shikimate 5-dehydrogenase AroE {Escherichia coli [TaxId: 562]}
110-281 -63.100 27  d1vi2a1 c.2.1.7 (A:107-288) Putative shikimate dehydrogenase YdiB {Escherichia coli [TaxId: 562]}
4 ACL93471.1 199 COG0113 1-193 -89.200 38  [H] COG0237 Dephospho-CoA kinase
PDB0113 1-199 -86.700 34  2if2_A mol:protein length:204 Dephospho-CoA kinase
PfamA26U 2-181 -83.400 26  PF01121.15; COAE_HAEIN/3-181; Dephospho-CoA kinase
SCOP175 1-194 -86.800 35  d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}
5 ACL93472.1 237 COG0113 2-228 -102.000 36  [L] COG0847 DNA polymerase III, epsilon subunit and related 3`-5` exonucleases
PDB0113 1-180 -99.900 43  2gui_A mol:protein length:194 DNA polymerase III epsilon subunit
PfamA26U 3-236 -55.700 23  PF02811.14; DPO3_BACSU/335-718; PHP domain
5-164 -97.300 46  PF00929.19; DPO3E_ECOLI/9-175; Exonuclease
SCOP175 3-169 -99.800 46  d2guia1 c.55.3.5 (A:7-180) N-terminal exonuclease domain of the epsilon subunit of DNA polymerase III {Escherichia coli [TaxId: 562]}
6 ACL93473.1 262 COG0113 4-262 -107.000 49  [I] KOG1680 Enoyl-CoA hydratase
PDB0113 2-261 -109.000 57  1dub_A mol:protein length:261 2-ENOYL-COA HYDRATASE
PfamA26U 11-256 -84.900 25  PF00378.15; FADB_ECOLI/10-267; Enoyl-CoA hydratase/isomerase family
SCOP175 2-261 -109.000 57  d1mj3a_ c.14.1.3 (A:) Enoyl-CoA hydratase (crotonase) {Rat (Rattus norvegicus) [TaxId: 10116]}
7 ACL93474.1 96 COG0113 6-92 -53.900 33  [J] COG0268 Ribosomal protein S20
PDB0113 1-96 -55.400 26  1fjg_T mol:protein length:106 30S RIBOSOMAL PROTEIN S20
PfamA26U 7-90 -48.600 27  PF01649.13; RS20_SYNY3/2-92; Ribosomal protein S20
SCOP175 8-96 -52.000 27  d2uubt1 a.7.6.1 (T:8-106) Ribosomal protein S20 {Thermus thermophilus [TaxId: 274]}
8 ACL93475.1 490 COG0113 22-490 -119.000 32  [L] COG0593 ATPase involved in DNA replication initiation
PDB0113 26-490 -111.000 25  2z4r_A mol:protein length:440 Chromosomal replication initiator protein dna
PfamA26U 24-87 -18.600 27  PF11638.3; DNAA_LAWIP/5-67; DnaA N-terminal domain
149-373 -92.800 37  PF00308.13; DNAA_STRCO/317-535; Bacterial dnaA protein
398-467 -39.400 64  PF08299.6; DNAA_PSEPU/414-483; Bacterial dnaA protein helix-turn-helix
SCOP175 147-368 -86.700 29  d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}
397-490 -45.100 61  d1j1va_ a.4.12.2 (A:) Chromosomal replication initiation factor DnaA C-terminal domain IV {Escherichia coli [TaxId: 562]}
9 ACL93476.1 206 COG0113 6-206 -92.700 52  [L] COG3145 Alkylated DNA repair protein
PDB0113 5-206 -86.700 38  2fd8_A mol:protein length:211 Alkylated DNA repair protein alkB
PfamA26U 11-201 -87.600 41  PF13532.1; A3WP94_9GAMM/15-207; 2OG-Fe(II) oxygenase superfamily
SCOP175 8-204 -86.500 40  d2fdia1 b.82.2.10 (A:15-214) Alkylated DNA repair protein AlkB {Escherichia coli [TaxId: 562]}
10 ACL93477.1 631 COG0113 1-630 -184.000 59  [O] COG0443 Molecular chaperone
PDB0113 1-600 -187.000 66  2kho_A mol:protein length:605 Heat shock protein 70
1-631 -141.000 25  3d2e_A mol:protein length:675 Heat shock protein homolog SSE1
PfamA26U 4-599 -187.000 62  PF00012.15; HSP77_YEAST/32-633; Hsp70 protein
SCOP175 2-184 -85.700 58  d1bupa1 c.55.1.1 (A:4-188) Heat shock protein 70kDa, ATPase fragment {Cow (Bos taurus) [TaxId: 9913]}
184-378 -77.200 49  d1bupa2 c.55.1.1 (A:189-381) Heat shock protein 70kDa, ATPase fragment {Cow (Bos taurus) [TaxId: 9913]}
384-501 -77.100 72  d1dkza2 b.130.1.1 (A:389-506) DnaK {Escherichia coli [TaxId: 562]}
502-597 -38.200 52  d1dkza1 a.8.4.1 (A:507-603) DnaK {Escherichia coli [TaxId: 562]}
11 ACL93478.1 385 COG0113 1-380 -136.000 45  [O] COG0484 DnaJ-class molecular chaperone with C-terminal Zn finger domain
PDB0113 1-368 -98.800 35  3lz8_A mol:protein length:329 Putative chaperone DnaJ
PfamA26U 3-65 -40.900 54  PF00226.26; Q22028_CAEEL/17-79; DnaJ domain
148-208 -31.900 42  PF00684.14; DNAJ1_CORGL/147-211; DnaJ central domain
266-352 -27.700 25  PF01556.13; A2FIH5_TRIVA/258-337; DnaJ C terminal domain
SCOP175 1-74 -47.500 55  d1xbla_ a.2.3.1 (A:) DnaJ chaperone, N-terminal (J) domain {Escherichia coli [TaxId: 562]}
1-110 -38.700 18  d1gh6a_ a.2.3.1 (A:) Large T antigen, the N-terminal J domain {Simian virus 40, Sv40 [TaxId: 10633]}
135-213 -41.900 55  d1exka_ g.54.1.1 (A:) Cysteine-rich domain of the chaperone protein DnaJ {Escherichia coli [TaxId: 562]}
182-258 -21.700 23  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]}
260-354 -30.800 29  d1c3ga2 b.4.1.1 (A:260-349) Heat shock protein 40 Sis1 {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
12 ACL93479.1 903 COG0113 15-901 -211.000 34  [L] COG0249 Mismatch repair ATPase (MutS family)
PDB0113 7-887 -186.000 24  3thw_B mol:protein length:918 DNA mismatch repair protein Msh3
10-841 -210.000 37  1e3m_A mol:protein length:800 DNA MISMATCH REPAIR PROTEIN MUTS
PfamA26U 19-136 -68.500 67  PF01624.15; MUTS_AGRT5/20-137; MutS domain I
144-272 -34.200 23  PF05188.12; MUTS_SYNY3/150-289; MutS domain II
287-593 -77.400 31  PF05192.13; Q6MLQ3_BDEBA/243-530; MutS domain III
601-840 -89.300 38  PF00488.16; MSH6_SCHPO/974-1211; MutS domain V
SCOP175 10-129 -63.300 51  d1wb9a4 d.75.2.1 (A:2-116) DNA repair protein MutS, domain I {Escherichia coli [TaxId: 562]}
130-285 -40.100 23  d1wb9a3 c.55.6.1 (A:117-269) DNA repair protein MutS, domain II {Escherichia coli [TaxId: 562]}
286-600 -77.800 30  d1wb9a1 a.113.1.1 (A:270-566) DNA repair protein MutS, domain III {Escherichia coli [TaxId: 562]}
601-841 -96.400 50  d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}
13 ACL93480.1 940 COG0113 10-923 -199.000 27  [O] COG2844 UTP:GlnB (protein PII) uridylyltransferase
PDB0113 4-350 -24.000 15  1v4a_A mol:protein length:440 Glutamate-ammonia-ligase adenylyltransferase
100-664 -15.000 17  1vfg_A mol:protein length:390 poly A polymerase
482-630 -16.500 14  3s4l_A mol:protein length:244 CAS3 Metal dependent phosphohydrolase
738-919 -14.100 12  1u8s_A mol:protein length:192 glycine cleavage system transcriptional repre
PfamA26U 1-197 -15.300 19  PF03710.10; GLNE_ECOLI/552-806; Glutamate-ammonia ligase adenylyltransferase
50-201 -20.800 17  PF03445.8; Q0AAW3_ALHEH/298-473; Putative nucleotidyltransferase DUF294 topsan
210-350 -54.400 37  PF08335.6; A1K6S3_AZOSB/170-310; GlnD PII-uridylyltransferase
498-633 -11.400 14  PF13875.1; B2B536_PODAN/12-199; Domain of unknown function (DUF4202 topsan)
845-913 -10.800 18  PF13740.1; C4UDS4_YERAL/13-88; ACT domain
SCOP175 4-207 -14.200 16  d1v4aa2 d.218.1.9 (A:2-286) Glutamine synthase adenylyltransferase GlnE, N-terminal domain {Escherichia coli [TaxId: 562]}
71-201 -14.900 11  d1knya2 d.218.1.1 (A:1-125) Kanamycin nucleotidyltransferase (KNTase), N-terminal domain {Staphylococcus aureus [TaxId: 1280]}
212-350 -14.200 15  d1v4aa1 a.24.16.4 (A:287-437) Glutamine synthase adenylyltransferase GlnE, domain 2 {Escherichia coli [TaxId: 562]}
391-638 -15.300 15  d1vfga1 a.173.1.1 (A:137-351) Poly A polymerase PcnB {Aquifex aeolicus [TaxId: 63363]}
396-676 -11.500 13  d1miwa1 a.173.1.1 (A:140-404) tRNA CCA-adding enzyme, C-terminal domains {Bacillus stearothermophilus [TaxId: 1422]}
462-630 -16.200 19  d2pq7a1 a.211.1.1 (A:1-217) Predicted hydrolase mes0020 {Uncultured thermotogales bacterium [TaxId: 221214]}
842-913 -10.900 16  d1u8sa1 d.58.18.5 (A:2-87) putative transcriptional repressor VC2159 {Vibrio cholerae [TaxId: 666]}
14 ACL93481.1 158 COG0113 1-156 -102.000 60  [H] COG0315 Molybdenum cofactor biosynthesis enzyme
PDB0113 1-157 -102.000 59  1ekr_A mol:protein length:161 MOLYBDENUM COFACTOR BIOSYNTHESIS PROTEIN C
PfamA26U 15-148 -89.200 61  PF01967.16; MOAC_HAEIN/15-150; MoaC family
SCOP175 11-154 -95.500 61  d1ekra_ d.58.21.1 (A:) Molybdenum cofactor biosynthesis protein C, MoaC {Escherichia coli [TaxId: 562]}
15 ACL93482.1 183 COG0113 19-167 -66.800 22  [H] COG0521 Molybdopterin biosynthesis enzymes
PDB0113 11-179 -79.700 41  1mkz_A mol:protein length:172 Molybdenum cofactor biosynthesis protein B
PfamA26U 24-166 -21.800 23  PF00994.19; CINAL_DESPS/4-169; Probable molybdopterin binding domain
SCOP175 12-179 -80.000 41  d1mkza_ c.57.1.1 (A:) MoaB {Escherichia coli [TaxId: 562]}
16 ACL93483.1 150 COG0113 2-146 -84.000 44  [H] COG0314 Molybdopterin converting factor, large subunit
PDB0113 2-146 -84.100 45  1fm0_E mol:protein length:150 MOLYBDOPTERIN CONVERTING FACTOR, SUBUNIT 2
PfamA26U 3-118 -61.800 24  PF02391.12; MOC2B_ARATH/10-126; MoaE protein
SCOP175 1-146 -84.400 45  d1fm0e_ d.41.5.1 (E:) Molybdopterin synthase subunit MoaE {Escherichia coli [TaxId: 562]}
17 ACL93484.1 79 COG0113 2-79 -30.200 26  [H] COG1977 Molybdopterin converting factor, small subunit
PDB0113 1-79 -56.600 30  1fm0_D mol:protein length:81 MOLYBDOPTERIN CONVERTING FACTOR, SUBUNIT 1
PfamA26U 2-79 -31.000 14  PF14451.1; Q13TC6_BURXL/1-81; Ub domain fused to Mut7-C
SCOP175 1-79 -56.600 30  d1fm0d_ d.15.3.1 (D:) Molybdopterin synthase subunit MoaD {Escherichia coli [TaxId: 562]}
18 ACL93485.1 349 COG0113 9-349 -112.000 66  [H] COG2896 Molybdenum cofactor biosynthesis enzyme
PDB0113 20-349 -103.000 32  1tv7_A mol:protein length:340 Molybdenum cofactor biosynthesis protein A
PfamA26U 36-197 -12.100 14  PF04055.16; CDKAL_HUMAN/208-381; Radical SAM superfamily
39-144 -14.500 18  PF13394.1; D3ASF7_9CLOT/45-161; 4Fe-4S single cluster domain
204-331 -50.600 43  PF06463.8; MOAA_PSESM/185-315; Molybdenum Cofactor Synthesis C
SCOP175 21-342 -102.000 32  d1tv8a_ c.1.28.3 (A:) Molybdenum cofactor biosynthesis protein A MoaA {Staphylococcus aureus [TaxId: 1280]}
19 ACL93486.1 210 COG0113 1-209 -75.100 31  [R] COG2068 Uncharacterized MobA-related protein
PDB0113 5-209 -76.900 27  2waw_A mol:protein length:199 MOBA RELATE PROTEIN
PfamA26U 11-200 -73.000 34  PF12804.2; A3JCG0_9ALTE/20-204; MobA-like NTP transferase domain
SCOP175 6-204 -31.900 23  d1e5ka_ c.68.1.8 (A:) Molybdenum cofactor biosynthesis protein MobA {Escherichia coli [TaxId: 562]}
20 ACL93487.1 74 COG0113 8-66 -6.280 11  [U] COG5080 Rab GTPase interacting factor, Golgi membrane protein
PDB0113 11-64 -6.180 13  3hzp_A mol:protein length:131 NTF2-like protein of unknown function
PfamA26U 1-65 -5.970 20  PF09543.5; Q098Z5_STIAD/2-123; Protein of unknown function (DUF2379 topsan)
SCOP175 1-73 -6.820 20  d1jjcb1 a.6.1.1 (B:1-38,B:152-190) Domains B1 and B5 of PheRS-beta, PheT {Thermus thermophilus [TaxId: 274]}


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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.

Godzik A. Fold recognition methods. Methods Biochem Anal. 2003;44:525-46. Review.