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anford Burnham Prebys Medical Discovery Institute
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Shows best template from each database, and all templates with significant scores covering different query fragments

Results: 1-20 of 2876next page >

# Query Length Result vs. Range Score %id Covered by template(s)
1 gi|15922991|ref|NP_370525.1| chromosomal replication initiation protein (SAV0001) [Staphylococcus aureus subsp. aureus Mu50] 453 SCOP206 114-329 -99.700 37  d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}
346-452 -45.700 34  d1l8qa1 a.4.12.2 (A:290-399) Chromosomal replication initiation factor DnaA C-terminal domain IV {Aquifex aeolicus [TaxId: 63363]}
2 gi|15922992|ref|NP_370526.1| DNA polymerase III subunit beta (SAV0002) [Staphylococcus aureus subsp. aureus Mu50] 377 SCOP206 2-128 -45.100 23  d1vpka1 d.131.1.1 (A:1-120) DNA polymerase III, beta subunit {Thermotoga maritima [TaxId: 2336]}
131-252 -52.800 27  d4k3la2 d.131.1.1 (A:123-244) DNA polymerase III, beta subunit {Escherichia coli [TaxId: 562]}
253-376 -47.000 30  d1vpka3 d.131.1.1 (A:244-366) DNA polymerase III, beta subunit {Thermotoga maritima [TaxId: 2336]}
3 gi|15922993|ref|NP_370527.1| hypothetical protein (SAV0003) [Staphylococcus aureus subsp. aureus Mu50] 81 SCOP206 7-70 -38.000 26  d1o09a1 d.66.1.6 (A:3-79) Hypothetical protein YbcJ {Escherichia coli [TaxId: 562]}
4 gi|15922994|ref|NP_370528.1| recombination protein F (SAV0004) [Staphylococcus aureus subsp. aureus Mu50] 370 SCOP206 1-360 -27.200 18  g1f2t.1 c.37.1.12 (A:,B:) Rad50 {Pyrococcus furiosus [TaxId: 2261]}
5 gi|15922995|ref|NP_370529.1| DNA gyrase subunit B (SAV0005) [Staphylococcus aureus subsp. aureus Mu50] 644 SCOP206 24-231 -91.600 65  d4k4oa1 d.122.1.0 (A:18-224) automated matches {Enterococcus faecalis [TaxId: 226185]}
232-403 -86.400 40  d1kija1 d.14.1.3 (A:221-392) DNA gyrase B {Thermus thermophilus [TaxId: 274]}
424-624 -97.500 60  d3m4ia_ e.78.1.1 (A:) DNA gyrase beta-prime domain {Mycobacterium tuberculosis [TaxId: 1773]}
6 gi|15922996|ref|NP_370530.1| DNA gyrase subunit A (SAV0006) [Staphylococcus aureus subsp. aureus Mu50] 889 SCOP206 31-489 -133.000 56  d3ilwa_ e.11.1.0 (A:) automated matches {Mycobacterium tuberculosis [TaxId: 1773]}
503-812 -66.000 35  d4g3na_ b.68.10.0 (A:) automated matches {Mycobacterium tuberculosis [TaxId: 83332]}
7 gi|15922997|ref|NP_370531.1| hypothetical protein (SAV0007) [Staphylococcus aureus subsp. aureus Mu50] 276 SCOP206 5-276 -104.000 45  d2r3ba1 c.72.1.0 (A:1-276) automated matches {Enterococcus faecalis [TaxId: 226185]}
8 gi|161375866|ref|NP_370532.2| histidine ammonia-lyase (SAV0008) [Staphylococcus aureus subsp. aureus Mu50] 504 SCOP206 2-503 -138.000 38  d1gkma_ a.127.1.2 (A:) Histidine ammonia-lyase (HAL) {Pseudomonas putida [TaxId: 303]}
9 gi|15922999|ref|NP_370533.1| seryl-tRNA synthetase (SAV0009) [Staphylococcus aureus subsp. aureus Mu50] 428 SCOP206 1-113 -40.200 23  d1seta1 a.2.7.1 (A:1-110) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}
117-427 -111.000 39  d1seta2 d.104.1.1 (A:111-421) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}
10 gi|15923000|ref|NP_370534.1| hypothetical protein (SAV0010) [Staphylococcus aureus subsp. aureus Mu50] 231 SCOP206 25-95 -6.600 d2a06g_ f.23.13.1 (G:) Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) {Cow (Bos taurus) [TaxId: 9913]}
11 gi|15923001|ref|NP_370535.1|(removed signalp:1-29) hypothetical protein (SAV0011) [Staphylococcus aureus subsp. aureus Mu50] 80 SCOP206 1-26 -5.360 19  d1p8ba_ g.3.6.4 (A:) Pab1, subunit b {Pea (Pisum sativum) [TaxId: 3888]}
12 gi|15923002|ref|NP_370536.1| putative homoserine-o-acetyltransferase (SAV0012) [Staphylococcus aureus subsp. aureus Mu50] 329 SCOP206 5-323 -106.000 29  d2vata1 c.69.1.40 (A:7-382) Acetyl-CoA:deacetylcephalosporin C acetyltransferase CefG {Acremonium chrysogenum [TaxId: 5044]}
13 gi|15923003|ref|NP_370537.1| hypothetical protein (SAV0013) [Staphylococcus aureus subsp. aureus Mu50] 331 SCOP206 136-194 -3.670 d2wbma2 a.5.8.0 (A:88-162) automated matches {Methanothermobacter thermautotrophicus [TaxId: 187420]}
14 gi|15923004|ref|NP_370538.1|(removed signalp:1-32) hypothetical protein (SAV0014) [Staphylococcus aureus subsp. aureus Mu50] 623 SCOP206 293-621 -11.200 13  d1ir6a_ c.107.1.2 (A:) Exonuclease RecJ {Thermus thermophilus [TaxId: 274]}
304-505 -19.800 21  d1wpna_ c.107.1.1 (A:) Manganese-dependent inorganic pyrophosphatase (family II) {Bacillus subtilis [TaxId: 1423]}
15 gi|15923005|ref|NP_370539.1| 50S ribosomal protein L9 (SAV0015) [Staphylococcus aureus subsp. aureus Mu50] 148 SCOP206 1-52 -33.700 69  d2hbaa1 d.100.1.1 (A:1-52) Ribosomal protein L9 N-domain {Bacillus stearothermophilus [TaxId: 1422]}
56-148 -52.600 54  d1diva1 d.99.1.1 (A:56-149) Ribosomal protein L9 C-domain {Bacillus stearothermophilus [TaxId: 1422]}
16 gi|15923006|ref|NP_370540.1| replicative DNA helicase (SAV0016) [Staphylococcus aureus subsp. aureus Mu50] 466 SCOP206 10-111 -49.800 43  d1b79a_ a.81.1.1 (A:) N-terminal domain of DnaB helicase {Escherichia coli [TaxId: 562]}
169-460 -57.600 16  d1cr1a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}
17 gi|15923007|ref|NP_370541.1| adenylosuccinate synthetase (SAV0017) [Staphylococcus aureus subsp. aureus Mu50] 427 SCOP206 2-427 -146.000 46  d3hida_ c.37.1.10 (A:) automated matches {Yersinia pestis [TaxId: 214092]}
18 gi|15923008|ref|NP_370542.1| response regulator (SAV0018) [Staphylococcus aureus subsp. aureus Mu50] 235 SCOP206 4-124 -70.300 30  d2qzja_ c.23.1.0 (A:) automated matches {Clostridium difficile [TaxId: 272563]}
137-235 -57.900 78  d2hwva1 a.4.6.0 (A:134-232) automated matches {Enterococcus faecalis [TaxId: 226185]}
19 gi|15923009|ref|NP_370543.1| two-component sensor histidine kinase (SAV0019) [Staphylococcus aureus subsp. aureus Mu50] 608 SCOP206 205-255 -11.200 33  d2y0ta_ a.274.1.1 (A:) automated matches {Archaeoglobus fulgidus [TaxId: 2234]}
248-367 -14.100 14  d1ew0a_ d.110.3.2 (A:) Histidine kinase FixL heme domain {Rhizobium meliloti [TaxId: 382]}
358-444 -45.100 29  d2c2aa1 a.30.2.1 (A:232-320) Sensor histidine kinase TM0853 {Thermotoga maritima [TaxId: 2336]}
445-600 -58.900 37  d2c2aa2 d.122.1.3 (A:321-481) Sensor histidine kinase TM0853 {Thermotoga maritima [TaxId: 2336]}
20 gi|15923010|ref|NP_370544.1| hypothetical protein (SAV0020) [Staphylococcus aureus subsp. aureus Mu50] 453 SCOP206 1-31 -6.360 29  d3dind_ f.23.28.1 (D:) Preprotein translocase SecE subunit {Thermotoga maritima MSB8 [TaxId: 243274]}


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, Pio F, Pawlowski K, Godzik A. Saturated BLAST: an automated multiple intermediate sequence search used to detect distant homology. Bioinformatics. 2000 Dec;16(12):1105-10.