YRC Public Data Repository - Protein Structure Prediction

Protein:	top3
Organism:	Schizosaccharomyces pombe
Length:	622 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for top3.

Description	E-value	Query Range	Subject Range
gi\|148548809, gi... - gi\|148548809\|ref\|YP_001268911.1\| DNA topoisomerase I [Pseudomonas putida F1], gi\|148512867\|gb\|ABQ797... gi\|26988863, gi\|... - gi\|26988863\|ref\|NP_744288.1\| DNA topoisomerase I [Pseudomonas putida KT2440], gi\|24983669\|gb\|AAN6775...	650.0	[0..2]	[620..3]
gi\|53611027, gi\|... - gi\|67154498\|ref\|ZP_00416243.1\| DNA topoisomerase I [Azotobacter vinelandii AvOP], ref\|ZP_00089705.2\|... gi\|226718492, gi... - gi\|67154498\|ref\|ZP_00416243.1\| DNA topoisomerase I [Azotobacter vinelandii AvOP], gi\|67088631\|gb\|EAM...	646.0	[0..2]	[620..3]
gi\|104782734, gi... - gi\|95111721\|emb\|CAK16445.1\| DNA topoisomerase type I, omega protein [Pseudomonas entomophila L48], g... gi\|95111721 - gi\|95111721\|emb\|CAK16445.1\| DNA topoisomerase type I, omega protein [Pseudomonas entomophila L48]	646.0	[0..2]	[620..3]
gi\|70729324, gi\|... - gi\|70729324\|ref\|YP_259061.1\| DNA topoisomerase I [Pseudomonas fluorescens Pf-5], gi\|68343623\|gb\|AAY9...	646.0	[0..2]	[620..3]
gi\|77460097, gi\|... - gi\|77460097\|ref\|YP_349604.1\| DNA topoisomerase I [Pseudomonas fluorescens Pf0-1], gi\|77384100\|gb\|ABA...	643.0	[0..2]	[620..3]
gi\|107102561 - gi\|107102561\|ref\|ZP_01366479.1\| hypothetical protein PaerPA_01003625 [Pseudomonas aeruginosa PACS2] gi\|218771013, gi... - gi\|218890790\|ref\|YP_002439654.1\| DNA topoisomerase I [Pseudomonas aeruginosa LESB58], gi\|218771013\|e... gi\|46163975, gi\|... - gi\|46163975\|ref\|ZP_00136359.2\| COG0550: Topoisomerase IA [Pseudomonas aeruginosa UCBPP-PA14], gi\|116... TOP1_PSEAE - DNA topoisomerase 1 OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228) ... TOP1_PSEAE - DNA topoisomerase 1 OS=Pseudomonas aeruginosa GN=topA PE=3 SV=1 gi\|126195092, gi... - gi\|84326258\|ref\|ZP_00974286.1\| COG0550: Topoisomerase IA [Pseudomonas aeruginosa 2192], gi\|254241714... gi\|194546969, gi... - gi\|84320177\|ref\|ZP_00968561.1\| COG0550: Topoisomerase IA [Pseudomonas aeruginosa C3719], gi\|25423598...	643.0	[0..2]	[620..3]
gi\|94416725, gi\|... - gi\|94416725\|ref\|ZP_01296549.1\| hypothetical protein PaerP_01001563 [Pseudomonas aeruginosa PA7], gi\|...	642.0	[0..2]	[620..3]
gi\|66046516, gi\|... - gi\|66046516\|ref\|YP_236357.1\| DNA topoisomerase I [Pseudomonas syringae pv. syringae B728a], gi\|63257...	642.0	[0..2]	[620..3]
gi\|28806009 - gi\|28806009\|dbj\|BAC59285.1\| DNA topoisomerase I [Vibrio parahaemolyticus RIMD 2210633] gi\|153838518, gi... - gi\|153838518\|ref\|ZP_01991185.1\| DNA topoisomerase I [Vibrio parahaemolyticus AQ3810], gi\|149748085\|g... gi\|28897796, gi\|... - gi\|28897796\|ref\|NP_797401.1\| DNA topoisomerase I [Vibrio parahaemolyticus RIMD 2210633], gi\|28806009...	639.0	[0..2]	[620..3]
gi\|71558463, gi\|... - gi\|71737910\|ref\|YP_275367.1\| DNA topoisomerase I [Pseudomonas syringae pv. phaseolicola 1448A], gi\|7...	638.0	[0..2]	[620..3]

Back

Predicted Domain #1

Region A:
Residues: [1-622]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRVLCVAEKN SIAKSVASIL GGGHVRRRDT RSKYVKNYDF SFNFGGNVGS SDVTMTSVSG  60
   61 HLTEASFPSE YSSWSSVPQD VLFDAQIITS VSKNAEVLAD NIKKEARNAQ YLYIWTDCDR 120
  121 EGEHIGVEIS NVARASNPSI QVIRADFNNL ERSHIISAAK RPRDVSKNAA DAVDARIELD 180
  181 FRLGAIFTRL QTIQLQKSFD ILQNKIISYG PCQFPTLGFV VDRWQRVEDF VPETYWHLRF 240
  241 VDKRQGKTIQ FNWERAKVFD RLTTMIILEN CLECKTAKVV NITQKPKTKY KPLPLSTVEL 300
  301 TKLGPKHLRI SAKKTLELAE NLYTNGFVSY PRTETDQFDS SMNLHAIIQK LTGAQEWDSY 360
  361 AEGLLAGDYR PPRKGKHNDR AHPPIHPVQM VHRSALPSQD HWKVYELITR RFLACCSDNA 420
  421 KGAETLVQVK MEEELFSKKG LLVTEKNYLE VYPYEKWESS DQLPEYRLHE EFQPHILDMM 480
  481 DSSTSSPSYI TEPELIALMD ANGIGTDATM AEHIEKVQER EYVIKRKKRG QGVTEFVPSS 540
  541 LGVALAKGYD EIGLEWSLTK PFLRKEMEVQ LKNIENGQLN RNVLVHMILT QFRDVFHLTK 600
  601 QRFDCLKNSC RVYLMSHNEP QT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	179.0
Match:	1cy0A
Description:	DNA topoisomerase I, 67K N-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
DNA topoisomerase activity	10.2798831210729	bayes_pls_golite062009
DNA topoisomerase type I activity	8.04585827786358	bayes_pls_golite062009
isomerase activity	5.61256457337998	bayes_pls_golite062009
DNA binding	5.20730175008144	bayes_pls_golite062009
nucleic acid binding	4.95671919332271	bayes_pls_golite062009
binding	4.3089127577748	bayes_pls_golite062009
catalytic activity	1.50449367975676	bayes_pls_golite062009
protein binding	0.377429709958808	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: