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# Query Length Result vs. Range Score %id Covered by template(s)
1 gi|238922433|ref|YP_002935946.1| chromosomal replication initiation protein (EUBREC_0001) [Eubacterium rectale ATCC 33656] 453 SCOP206 111-329 -98.400 38  d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}
346-453 -43.400 24  d1l8qa1 a.4.12.2 (A:290-399) Chromosomal replication initiation factor DnaA C-terminal domain IV {Aquifex aeolicus [TaxId: 63363]}
2 gi|238922434|ref|YP_002935947.1| DNA polymerase III, beta subunit (EUBREC_0002) [Eubacterium rectale ATCC 33656] 370 SCOP206 1-119 -47.400 22  d1vpka1 d.131.1.1 (A:1-120) DNA polymerase III, beta subunit {Thermotoga maritima [TaxId: 2336]}
122-244 -53.300 17  d1vpka2 d.131.1.1 (A:121-243) DNA polymerase III, beta subunit {Thermotoga maritima [TaxId: 2336]}
245-366 -45.600 26  d1vpka3 d.131.1.1 (A:244-366) DNA polymerase III, beta subunit {Thermotoga maritima [TaxId: 2336]}
3 gi|238922435|ref|YP_002935948.1| hypothetical protein (EUBREC_0003) [Eubacterium rectale ATCC 33656] 71 SCOP206 9-70 -41.700 35  d1o09a1 d.66.1.6 (A:3-79) Hypothetical protein YbcJ {Escherichia coli [TaxId: 562]}
4 gi|238922436|ref|YP_002935949.1| DNA replication and repair protein RecF (EUBREC_0004) [Eubacterium rectale ATCC 33656] 362 SCOP206 1-341 -26.700 20  g1f2t.1 c.37.1.12 (A:,B:) Rad50 {Pyrococcus furiosus [TaxId: 2261]}
5 gi|238922437|ref|YP_002935950.1| DNA gyrase, B subunit (EUBREC_0005) [Eubacterium rectale ATCC 33656] 645 SCOP206 22-229 -89.400 67  d4k4oa1 d.122.1.0 (A:18-224) automated matches {Enterococcus faecalis [TaxId: 226185]}
230-401 -85.900 44  d1kija1 d.14.1.3 (A:221-392) DNA gyrase B {Thermus thermophilus [TaxId: 274]}
422-624 -93.800 57  d3m4ia_ e.78.1.1 (A:) DNA gyrase beta-prime domain {Mycobacterium tuberculosis [TaxId: 1773]}
6 gi|238922438|ref|YP_002935951.1| DNA gyrase, A subunit (EUBREC_0006) [Eubacterium rectale ATCC 33656] 852 SCOP206 31-492 -133.000 52  d3ilwa_ e.11.1.0 (A:) automated matches {Mycobacterium tuberculosis [TaxId: 1773]}
505-811 -64.900 41  d4g3na_ b.68.10.0 (A:) automated matches {Mycobacterium tuberculosis [TaxId: 83332]}
7 gi|238922439|ref|YP_002935952.1| hydro-lyase, Fe-S type, tartrate/fumarate subfamily, alpha subunit (EUBREC_0007) [Eubacterium rectale ATCC 33656] 281 SCOP206 134-236 -7.090 13  d2ap1a2 c.55.1.10 (A:1-117) Putative regulator protein YcfX {Salmonella typhimurium [TaxId: 90371]}
8 gi|238922440|ref|YP_002935953.1| hypothetical protein (EUBREC_0008) [Eubacterium rectale ATCC 33656] 47 SCOP206 2-47 -4.680 24  d3rlff1 e.70.1.1 (F:10-260) Maltose transport system permease protein MalF {Escherichia coli [TaxId: 562]}
9 gi|238922441|ref|YP_002935954.1| fumarate hydratase subunit B (EUBREC_0009) [Eubacterium rectale ATCC 33656] 183 SCOP206 1-175 -83.000 42  d2isba2 c.8.9.1 (A:1-180) Fumarate hydratase class I beta subunit {Archaeoglobus fulgidus [TaxId: 2234]}
10 gi|238922442|ref|YP_002935955.1| putative oxidoreductase (EUBREC_0016) [Eubacterium rectale ATCC 33656] 329 SCOP206 3-185 -69.400 25  d1ydwa1 c.2.1.3 (A:6-133,A:305-360) Probable oxidoreductase At4g09670 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}
128-290 -35.600 18  d1ydwa2 d.81.1.5 (A:134-304) Probable oxidoreductase At4g09670 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}
11 gi|238922443|ref|YP_002935956.1| transcription repressor of fructose operon FruR (EUBREC_0017) [Eubacterium rectale ATCC 33656] 247 SCOP206 1-58 -15.800 17  d1sfua_ a.4.5.19 (A:) 34L {Yaba-like disease virus, YLDV [TaxId: 132475]}
79-211 -10.700 18  d1uj6a1 c.124.1.4 (A:3-131,A:206-227) D-ribose-5-phosphate isomerase (RpiA), catalytic domain {Thermus thermophilus [TaxId: 274]}
12 gi|238922444|ref|YP_002935957.1| fructose-1-phosphate kinase (EUBREC_0018) [Eubacterium rectale ATCC 33656] 305 SCOP206 1-304 -113.000 43  d2jg5a_ c.72.1.0 (A:) automated matches {Staphylococcus aureus [TaxId: 1280]}
13 gi|238922445|ref|YP_002935958.1| PTS system, fructose-specific, IIABC component (EUBREC_0019) [Eubacterium rectale ATCC 33656] 642 SCOP206 1-150 -44.900 27  d1a6ja_ d.112.1.1 (A:) Nitrogen regulatory bacterial protein IIa-ntr {Escherichia coli [TaxId: 562]}
176-278 -65.600 53  d2r4qa1 c.44.2.2 (A:171-273) Fructose-specific enzyme IIABC component FruA, middle domain {Bacillus subtilis [TaxId: 1423]}
14 gi|238922446|ref|YP_002935959.1| chaperone protein DnaK (EUBREC_0020) [Eubacterium rectale ATCC 33656] 586 SCOP206 4-156 -67.700 34  d4gnia1 c.55.1.0 (A:13-196) automated matches {Chaetomium thermophilum [TaxId: 759272]}
159-353 -64.600 42  d3i33a2 c.55.1.1 (A:190-384) automated matches {Human (Homo sapiens) [TaxId: 9606]}
366-483 -73.500 65  d4f01a1 b.130.1.1 (A:389-506) automated matches {Escherichia coli K-12 [TaxId: 83333]}
484-585 -33.200 19  d4f01a2 a.8.4.1 (A:507-602) automated matches {Escherichia coli K-12 [TaxId: 83333]}
15 gi|238922447|ref|YP_002935960.1| hypothetical protein (EUBREC_0021) [Eubacterium rectale ATCC 33656] 290 SCOP206 36-150 -7.400 10  d1eq1a_ a.63.1.1 (A:) Apolipophorin-III {Tobacco hornworm (Manduca sexta) [TaxId: 7130]}
16 gi|238922448|ref|YP_002935961.1| DNA-binding response regulator (EUBREC_0022) [Eubacterium rectale ATCC 33656] 230 SCOP206 2-120 -59.200 31  d2qzja_ c.23.1.0 (A:) automated matches {Clostridium difficile [TaxId: 272563]}
2-170 -46.400 17  d3rqia_ c.23.1.0 (A:) automated matches {Burkholderia pseudomallei [TaxId: 320372]}
126-227 -44.300 33  d2k4ja1 a.4.6.0 (A:13-115) automated matches {Helicobacter pylori [TaxId: 85963]}
17 gi|238922449|ref|YP_002935962.1|(removed signalp:1-29) hypothetical protein (EUBREC_0023) [Eubacterium rectale ATCC 33656] 428 SCOP206 192-273 -19.400 23  d2c2aa1 a.30.2.1 (A:232-320) Sensor histidine kinase TM0853 {Thermotoga maritima [TaxId: 2336]}
274-423 -25.200 24  d2c2aa2 d.122.1.3 (A:321-481) Sensor histidine kinase TM0853 {Thermotoga maritima [TaxId: 2336]}
18 gi|238922450|ref|YP_002935963.1| hypothetical protein (EUBREC_0024) [Eubacterium rectale ATCC 33656] 761 SCOP206 17-520 -111.000 23  d1acoa2 c.83.1.1 (A:2-528) Aconitase A, N-terminal domain {Cow (Bos taurus) [TaxId: 9913]}
517-761 -50.400 20  d1acoa1 c.8.2.1 (A:529-754) Aconitase A, C-terminal domain {Cow (Bos taurus) [TaxId: 9913]}
19 gi|238922451|ref|YP_002935964.1| hypothetical protein (EUBREC_0025) [Eubacterium rectale ATCC 33656] 437 SCOP206 294-430 -6.240 10  d1w7ca3 d.17.2.1 (A:170-315) Lysyl oxidase PplO, domains 1 and 2 {Yeast (Pichia pastoris) [TaxId: 4922]}
20 gi|238922452|ref|YP_002935965.1| hypothetical protein (EUBREC_0026) [Eubacterium rectale ATCC 33656] 877 SCOP206 2-190 -9.940 13  d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}
16-170 -11.500 13  d2vsna1 a.118.8.1 (A:22-192) O-GlcNAc transferase, OGT {Xanthomonas campestris [TaxId: 314565]}


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.

Friedberg I, Jaroszewski L, Ye Y, Godzik A. The interplay of fold recognition and experimental structure determination in structural genomics. Curr Opin Struct Biol. 2004 Jun;14(3):307-12.