YRC Public Data Repository - Protein Structure Prediction

Protein:	HOLA_ECOLI
Organism:	Escherichia coli
Length:	343 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 HOLA_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|77458032, gi\|... - gi\|77458032\|ref\|YP_347537.1\| DNA polymerase III subunits gamma and tau [Pseudomonas fluorescens Pf0-...	238.0	[0..9]	[340..29]
gi\|109701054, gi... - gi\|109898773\|ref\|YP_662028.1\| recombination factor protein RarA [Pseudoalteromonas atlantica T6c], g...	237.0	[0..6]	[333..40]
gi\|68343585, gi\|... - gi\|70729286\|ref\|YP_259023.1\| DNA polymerase III subunits gamma and tau [Pseudomonas fluorescens Pf-5...	237.0	[0..9]	[340..29]
gi\|71734194, gi\|... - gi\|71734194\|ref\|YP_274019.1\| DNA polymerase III subunits gamma and tau [Pseudomonas syringae pv. pha...	237.0	[0..9]	[338..29]
gi\|110599872, gi... - gi\|222056545\|ref\|YP_002538907.1\| AAA ATPase central domain protein [Geobacter sp. FRC-32], gi\|221565...	236.0	[0..6]	[333..40]
gi\|28870802, gi\|... - gi\|28870802\|ref\|NP_793421.1\| DNA polymerase III subunits gamma and tau [Pseudomonas syringae pv. tom... tr\|Q87YZ3\|Q87YZ3... - DNA polymerase III, subunits gamma and tau OS=Pseudomonas syringae pv. tomato (strain DC3000) GN=dna...	236.0	[0..9]	[339..29]
gi\|63255776, gi\|... - gi\|66045069\|ref\|YP_234910.1\| DNA polymerase III subunits gamma and tau [Pseudomonas syringae pv. syr...	235.0	[0..9]	[339..29]
gi\|86148367, gi\|... - gi\|86148367\|ref\|ZP_01066660.1\| DNA polymerase III subunits gamma and tau [Vibrio sp. MED222], gi\|858...	235.0	[0..10]	[341..30]
gi\|95109926, gi\|... - gi\|95109926\|emb\|CAK14631.1\| DNA polymerase III, tau and gamma subunits [Pseudomonas entomophila L48]... gi\|95109926 - gi\|95109926\|emb\|CAK14631.1\| DNA polymerase III, tau and gamma subunits [Pseudomonas entomophila L48]	235.0	[0..9]	[339..29]
gi\|90415910\|ref\|... - hypothetical protein GB2207_01717 [marine gamma proteobacterium HTCC2207] gi\|90332284, gi\|... - gi\|90415910\|ref\|ZP_01223843.1\| hypothetical protein GB2207_01717 [marine gamma proteobacterium HTCC2...	235.0	[0..6]	[333..36]

Back

Predicted Domain #1

Region A:
Residues: [1-343]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MIRLYPEQLR AQLNEGLRAA YLLLGNDPLL LQESQDAVRQ VAAAQGFEEH HTFSIDPNTD  60
   61 WNAIFSLCQA MSLFASRQTL LLLLPENGPN AAINEQLLTL TGLLHDDLLL IVRGNKLSKA 120
  121 QENAAWFTAL ANRSVQVTCQ TPEQAQLPRW VAARAKQLNL ELDDAANQVL CYCYEGNLLA 180
  181 LAQALERLSL LWPDGKLTLP RVEQAVNDAA HFTPFHWVDA LLMGKSKRAL HILQQLRLEG 240
  241 SEPVILLRTL QRELLLLVNL KRQSAHTPLR ALFDKHRVWQ NRRGMMGEAL NRLSQTQLRQ 300
  301 AVQLLTRTEL TLKQDYGQSV WAELEGLSLL LCHKPLADVF IDG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	50.0
Match:	1jqjC
Description:	delta subunit; delta subunit of DNA polymerase III, N-domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
DNA-directed DNA polymerase activity	6.09279996112705	bayes_pls_golite062009
DNA polymerase activity	6.04865791514294	bayes_pls_golite062009
nucleotidyltransferase activity	3.99580940620614	bayes_pls_golite062009
DNA clamp loader activity	3.94645534451735	bayes_pls_golite062009
protein-DNA loading ATPase activity	3.91355858456767	bayes_pls_golite062009
DNA-dependent ATPase activity	2.72462789867829	bayes_pls_golite062009
DNA helicase activity	2.2817164193758	bayes_pls_golite062009
pyrophosphatase activity	2.13284212711072	bayes_pls_golite062009
binding	2.05253348982328	bayes_pls_golite062009
ATP-dependent DNA helicase activity	1.88455339138556	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	1.77451606086272	bayes_pls_golite062009
helicase activity	1.70242731830224	bayes_pls_golite062009
nucleic acid binding	1.49633029954726	bayes_pls_golite062009
transferase activity	1.23626141560528	bayes_pls_golite062009
ATP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
purine NTP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
DNA binding	0.967303417236485	bayes_pls_golite062009
structure-specific DNA binding	0.782430219754236	bayes_pls_golite062009
transcription regulator activity	0.748437190903548	bayes_pls_golite062009
double-stranded DNA binding	0.6071273686445	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.147579541298736	bayes_pls_golite062009
nucleotide binding	0.114848452385726	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	0.113504049290503	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	0.111293884322157	bayes_pls_golite062009
purine nucleotide binding	0.10713474095071	bayes_pls_golite062009
purine ribonucleotide binding	0.0916519414118148	bayes_pls_golite062009
ribonucleotide binding	0.0915913646217636	bayes_pls_golite062009
structural constituent of ribosome	0.089234257580272	bayes_pls_golite062009
3'-5' DNA helicase activity	0.0769112340058804	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: