current user: public

anford Burnham Prebys Medical Discovery Institute
Please be advised that due to the planned maintenance our websites might be temporarily unavailable on December 17-18, 2018. We apologise for the inconvenience that this may cause.

Filter & download results: Zscore <   Identity ≥(%)   Query residues aligned ≥(%)   Max number of homologs:   Template Database:

Page size:   Sort by score   Show only entries containing string:

Shows best template from each database, and all templates with significant scores covering different query fragments

Results: 1-20 of 4334next page >

# Query Length Result vs. Range Score %id Covered by template(s)
1 gi|16082692|ref|NP_395138.1| putative transposase (YPCD1.01) [Yersinia pestis CO92] 340 SCOP206 1-42 -13.000 14  d1tc3c_ a.4.1.2 (C:) Transposase tc3a1-65 {Nematode (Caenorhabditis elegans) [TaxId: 6239]}
13-98 -10.000 14  d1nr3a_ d.236.1.1 (A:) DNA-binding protein Tfx {Methanobacterium thermoautotrophicum [TaxId: 145262]}
119-244 -22.200 17  d1cxqa_ c.55.3.2 (A:) Retroviral integrase, catalytic domain {Rous sarcoma virus RSV [TaxId: 11886]}
125-292 -15.600 15  d3l3ua_ c.55.3.2 (A:) Retroviral integrase, catalytic domain {Human immunodeficiency virus type 1 [TaxId: 11676]}
2 gi|16082693|ref|NP_395139.1| transposase/IS protein (YPCD1.02) [Yersinia pestis CO92] 259 SCOP206 76-204 -18.500 21  d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}
102-241 -11.700 18  d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}
3 gi|16082696|ref|NP_395142.1| secretion chaperone (YPCD1.05c) [Yersinia pestis CO92] 130 SCOP206 2-118 -56.500 100  d1jyaa_ d.198.1.1 (A:) YopE chaperone SycE {Yersinia pestis [TaxId: 632]}
4 gi|16082697|ref|NP_395143.1| putative outer membrane virulence protein (YPCD1.06) [Yersinia pestis CO92] 219 SCOP206 22-78 -13.900 100  d1l2wi_ d.198.1.1 (I:) YopE chaperone SycE {Yersinia pestis [TaxId: 632]}
100-219 -64.200 100  d1hy5a_ a.24.11.1 (A:) YopE {Yersinia pestis [TaxId: 632]}
5 gi|16082698|ref|NP_395144.1| hypothetical protein (YPCD1.07) [Yersinia pestis CO92] 98 SCOP206 7-88 -6.730 11  d1vg0a2 d.16.1.6 (A:445-557) Rab escort protein 1 {Norway rat (Rattus norvegicus) [TaxId: 10116]}
6 gi|16082699|ref|NP_395145.1| hypothetical protein (YPCD1.08c) [Yersinia pestis CO92] 99 SCOP206 3-87 -7.900 12  d1wmia1 d.298.1.2 (A:1-88) Hypothetical protein PHS013 {Pyrococcus horikoshii [TaxId: 53953]}
7 gi|40548796|ref|NP_395146.2| hypothetical protein (YPCD1.09c) [Yersinia pestis CO92] 80 SCOP206 3-45 -13.900 32  d2hzaa1 a.43.1.3 (A:1-48) Nickel responsive regulator NikR, N-terminal domain {Escherichia coli [TaxId: 562]}
8 gi|16082702|ref|NP_395148.1| plasmid-partitioning protein (YPCD1.12c) [Yersinia pestis CO92] 320 SCOP206 72-159 -28.200 26  d1vz0a2 d.268.1.1 (A:23-115) Putative partitioning protein ParB/Spo0J {Thermus thermophilus [TaxId: 274]}
159-257 -18.700 16  d1vz0a1 a.4.14.1 (A:116-208) Putative partitioning protein ParB/Spo0J {Thermus thermophilus [TaxId: 274]}
9 gi|16082703|ref|NP_395149.1| plasmid-partitioning protein SopA (YPCD1.13c) [Yersinia pestis CO92] 388 SCOP206 105-374 -66.600 25  d1wcv1_ c.37.1.0 (1:) automated matches {Thermus thermophilus [TaxId: 262724]}
10 gi|40548797|ref|NP_954989.1| hypothetical protein (YPCD1.14n) [Yersinia pestis CO92] 65 SCOP206 1-45 -7.170 20  d1tocr1 g.8.1.2 (R:1A-56) Ornithodorin {Soft tick (Ornithodoros moubata) [TaxId: 6938]}
11 gi|16082705|ref|NP_395151.1| hypothetical protein (YPCD1.15c) [Yersinia pestis CO92] 152 SCOP206 103-152 -12.900 14  d1bcoa2 c.55.3.3 (A:258-480) mu transposase, core domain {Bacteriophage Mu [TaxId: 10677]}
12 gi|16082706|ref|NP_395152.1| hypothetical protein (YPCD1.16c) [Yersinia pestis CO92] 107 SCOP206 9-95 -37.500 18  d2jn6a1 a.4.1.19 (A:1-89) Uncharacterized protein Cgl2762 {Corynebacterium glutamicum [TaxId: 1718]}
13 gi|16082708|ref|NP_395154.1| Yop targeting protein (YPCD1.19c) [Yersinia pestis CO92] 182 SCOP206 51-169 -7.820 15  d1ee8a2 b.113.1.1 (A:1-121) DNA repair protein MutM (Fpg) {Thermus thermophilus [TaxId: 274]}
14 gi|16082709|ref|NP_395155.1| Yop targeted effector (YPCD1.20) [Yersinia pestis CO92] 322 SCOP206 122-315 -48.900 14  d1ukfa1 d.3.1.10 (A:81-267) Avirulence protein Avrpph3 {Pseudomonas syringae pv. phaseolicola [TaxId: 319]}
15 gi|16082710|ref|NP_395156.1| YopT chaperone (YPCD1.21) [Yersinia pestis CO92] 132 SCOP206 1-118 -43.000 17  d1s28a1 d.198.1.1 (A:3-130) AvrPphF ORF1, chaperone of AvrPphF ORF2 {Pseudomonas syringae pv. phaseolicola [TaxId: 319]}
16 gi|16082711|ref|NP_395157.1| hypothetical protein (YPCD1.22c) [Yersinia pestis CO92] 129 SCOP206 89-124 -5.690 16  d2pywa_ d.144.1.0 (A:) automated matches {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}
17 gi|16082712|ref|NP_395158.1| hypothetical protein (YPCD1.23) [Yersinia pestis CO92] 139 SCOP206 11-94 -9.340 16  d2rs8a1 d.58.7.1 (A:68-153) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]}
18 gi|16082715|ref|NP_395161.1| secreted effector protein (YPCD1.26c) [Yersinia pestis CO92] 409 SCOP206 34-386 -69.800 100  d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}
19 gi|16082716|ref|NP_395162.1| secreted effector protein (YPCD1.28c) [Yersinia pestis CO92] 306 SCOP206 165-300 -10.400 12  d2ap3a1 a.24.27.1 (A:12-196) Hypothetical protein MW0975 (SA0943) {Staphylococcus aureus [TaxId: 1280]}
20 gi|16082717|ref|NP_395163.1| secreted effector protein (YPCD1.29c) [Yersinia pestis CO92] 401 SCOP206 111-159 -6.990 16  d4ihje_ a.137.10.1 (E:) Stathmin 4 {Norway rat (Rattus norvegicus) [TaxId: 10116]}


FFAS is supported by the NIH grant R01-GM087218-01
1 2 0 2 9 4   jobs submitted since Jan 1, 2011
Comments and questions to: webmaster

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.