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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

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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 SCOP206 1-121 -49.200 18  d1vpka1 d.131.1.1 (A:1-120) DNA polymerase III, beta subunit {Thermotoga maritima [TaxId: 2336]}
129-257 -42.600 12  d4k3la2 d.131.1.1 (A:123-244) DNA polymerase III, beta subunit {Escherichia coli [TaxId: 562]}
258-380 -51.500 22  d1vpka3 d.131.1.1 (A:244-366) DNA polymerase III, beta subunit {Thermotoga maritima [TaxId: 2336]}
2 gi|13507741|ref|NP_109690.1| DnaJ domain-containing protein MPN002 [Mycoplasma pneumoniae M129] 309 SCOP206 2-76 -37.400 29  d2o37a_ a.2.3.0 (A:) automated matches {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
134-222 -13.400 8  d1exka_ g.54.1.1 (A:) Cysteine-rich domain of the chaperone protein DnaJ {Escherichia coli [TaxId: 562]}
3 gi|13507742|ref|NP_109691.1| DNA gyrase subunit B MPN003 [Mycoplasma pneumoniae M129] 650 SCOP206 20-227 -87.700 53  d4k4oa1 d.122.1.0 (A:18-224) automated matches {Enterococcus faecalis [TaxId: 226185]}
228-409 -83.300 36  d1kija1 d.14.1.3 (A:221-392) DNA gyrase B {Thermus thermophilus [TaxId: 274]}
430-629 -97.400 56  d3m4ia_ e.78.1.1 (A:) DNA gyrase beta-prime domain {Mycobacterium tuberculosis [TaxId: 1773]}
4 gi|13507743|ref|NP_109692.1| DNA gyrase subunit A MPN004 [Mycoplasma pneumoniae M129] 839 SCOP206 42-498 -135.000 49  d3ilwa_ e.11.1.0 (A:) automated matches {Mycobacterium tuberculosis [TaxId: 1773]}
512-817 -67.500 32  d4g3na_ b.68.10.0 (A:) automated matches {Mycobacterium tuberculosis [TaxId: 83332]}
5 gi|13507744|ref|NP_109693.1| seryl-tRNA synthetase MPN005 [Mycoplasma pneumoniae M129] 420 SCOP206 1-109 -37.600 24  d1seta1 a.2.7.1 (A:1-110) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}
113-416 -114.000 35  d1seta2 d.104.1.1 (A:111-421) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}
6 gi|13507745|ref|NP_109694.1| thymidylate kinase MPN006 [Mycoplasma pneumoniae M129] 210 SCOP206 4-206 -88.900 27  d4hlca_ c.37.1.0 (A:) automated matches {Staphylococcus aureus [TaxId: 282458]}
7 gi|13507746|ref|NP_109695.1| DNA polymerase III subunit delta' MPN007 [Mycoplasma pneumoniae M129] 253 SCOP206 2-204 -72.900 20  d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}
8 gi|13507747|ref|NP_109696.1| tRNA modification GTPase TrmE MPN008 [Mycoplasma pneumoniae M129] 442 SCOP206 5-121 -59.700 42  d1xzpa3 d.250.1.2 (A:1-117) TrmE formyl-THF-binding domain {Thermotoga maritima [TaxId: 2336]}
122-442 -39.000 23  d1xzpa1 a.24.25.1 (A:118-211,A:372-450) TrmE connector domain {Thermotoga maritima [TaxId: 2336]}
217-362 -54.400 31  d2gj8a_ c.37.1.8 (A:) automated matches {Escherichia coli [TaxId: 469008]}
9 gi|13507748|ref|NP_109697.1| hydrolase MPN009 [Mycoplasma pneumoniae M129] 261 SCOP206 3-261 -106.000 29  d1j6oa1 c.1.9.12 (A:0-255) Hypothetical protein TM0667 {Thermotoga maritima [TaxId: 2336]}
10 gi|13507749|ref|NP_109698.1| hypothetical protein MPN010 [Mycoplasma pneumoniae M129] 131 SCOP206 65-128 -6.180 26  d1seta1 a.2.7.1 (A:1-110) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}
11 gi|13507750|ref|NP_109699.1|(removed signal:1-26) hypothetical protein MPN011 [Mycoplasma pneumoniae M129] 205 SCOP206 2-61 -8.900 10  d1yt3a2 a.60.8.3 (A:295-375) Ribonuclease D {Escherichia coli [TaxId: 562]}
12 gi|13507751|ref|NP_109700.1|(removed signal:1-21) hypothetical protein MPN012 [Mycoplasma pneumoniae M129] 214 SCOP206 1-65 -8.830 9  d1yt3a2 a.60.8.3 (A:295-375) Ribonuclease D {Escherichia coli [TaxId: 562]}
13 gi|13507752|ref|NP_109701.1| hypothetical protein MPN013 [Mycoplasma pneumoniae M129] 257 SCOP206 77-104 -8.060 14  d1k28a2 b.108.1.2 (A:362-576) Tail-associated lysozyme gp5, C-terminal domain {Bacteriophage T4 [TaxId: 10665]}
14 gi|13507753|ref|NP_109702.1| hypothetical protein MPN014 [Mycoplasma pneumoniae M129] 212 SCOP206 2-210 -66.700 20  d1dd9a_ e.13.1.1 (A:) DNA primase DnaG catalytic core {Escherichia coli [TaxId: 562]}
15 gi|13507754|ref|NP_109703.1| hypothetical protein MPN015 [Mycoplasma pneumoniae M129] 285 SCOP206 13-94 -16.200 12  d3vpda1 c.30.1.0 (A:1-88) automated matches {Thermus thermophilus [TaxId: 274]}
95-276 -61.600 14  d3vpda2 d.142.1.7 (A:89-281) automated matches {Thermus thermophilus [TaxId: 274]}
16 gi|13507755|ref|NP_109704.1| ribosomal S6 modification protein MPN016 [Mycoplasma pneumoniae M129] 288 SCOP206 13-92 -18.000 12  d3vpda1 c.30.1.0 (A:1-88) automated matches {Thermus thermophilus [TaxId: 274]}
93-288 -61.000 19  d3vpda2 d.142.1.7 (A:89-281) automated matches {Thermus thermophilus [TaxId: 274]}
17 gi|13507756|ref|NP_109705.1| 5,10-methylene-tetrahydrofolate dehydrogenase MPN017 [Mycoplasma pneumoniae M129] 269 SCOP206 2-112 -57.600 33  d4b4ua1 c.58.1.0 (A:1-121) automated matches {Acinetobacter baumannii [TaxId: 575584]}
120-265 -77.100 28  d4b4ua2 c.2.1.0 (A:122-282) automated matches {Acinetobacter baumannii [TaxId: 575584]}
18 gi|13507757|ref|NP_109706.1|(removed signal:1-25) transport ATP-binding protein MPN018 [Mycoplasma pneumoniae M129] 598 SCOP206 2-324 -36.800 16  d4a82a1 f.37.1.1 (A:1-323) Putative multidrug export ATP-binding/permease protein SAV1866 {Human (Homo sapiens) [TaxId: 9606]}
362-589 -94.400 37  d4q7ka_ c.37.1.0 (A:) automated matches {Thermotoga maritima [TaxId: 243274]}
19 gi|13507758|ref|NP_109707.1| transport ATP-binding protein MPN019 [Mycoplasma pneumoniae M129] 634 SCOP206 40-381 -61.400 15  d4a82a1 f.37.1.1 (A:1-323) Putative multidrug export ATP-binding/permease protein SAV1866 {Human (Homo sapiens) [TaxId: 9606]}
397-634 -80.200 38  d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}
20 gi|13507759|ref|NP_109708.1| helicases MPN020 [Mycoplasma pneumoniae M129] 1030 SCOP206 471-749 -11.300 14  d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]}
567-796 -63.400 38  d1z63a1 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 hamily {Sulfolobus solfataricus [TaxId: 2287]}
798-1030 -53.200 36  d1z5za1 c.37.1.19 (A:663-906) Helicase of the SNF2/Rad54 hamily {Sulfolobus solfataricus [TaxId: 2287]}

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.