YRC Public Data Repository - Protein Structure Prediction

Protein:	DNAA_YERP3
Organism:	Yersinia pseudotuberculosis IP 31758
Length:	462 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 DNAA_YERP3.

Description	E-value	Query Range	Subject Range
gi\|117675552 - gi\|117675552\|ref\|ZP_01498610.1\| hypothetical protein YpseI_02003789 [Yersinia pseudotuberculosis IP ... gi\|21961126, gi\|... - gi\|22127981\|ref\|NP_671404.1\| chromosomal replication initiation protein [Yersinia pestis KIM], gi\|21...	6.0E-80	[2..462]	[6..466]
gi\|77973772 - gi\|77973772\|ref\|ZP_00829317.1\| COG0593: ATPase involved in DNA replication initiation [Yersinia fred...	7.0E-80	[2..462]	[6..466]
DNAA_PHOLL - Chromosomal replication initiator protein DnaA OS=Photorhabdus luminescens subsp. laumondii (strain ... DNAA_PHOLL - Chromosomal replication initiator protein dnaA OS=Photorhabdus luminescens subsp. laumondii GN=dnaA ...	2.0E-79	[1..462]	[1..462]
gi\|77958161 - gi\|77958161\|ref\|ZP_00822199.1\| COG0593: ATPase involved in DNA replication initiation [Yersinia berc...	9.0E-79	[2..462]	[6..467]
DNAA_PECAS - Chromosomal replication initiator protein DnaA OS=Pectobacterium atrosepticum (strain SCRI 1043 / AT... DNAA_ERWCT - Chromosomal replication initiator protein DnaA OS=Erwinia carotovora subsp. atroseptica GN=dnaA PE=3...	5.0E-78	[1..462]	[1..465]
gi\|153948 - gi\|153948\|gb\|AAA02815.1\| dnaA protein gi\|153948\|gb\|AAA... - dnaA protein	1.0E-77	[1..462]	[1..466]
gi\|197243524, gi... - gi\|197265269\|ref\|ZP_03165343.1\| chromosomal replication initiator protein DnaA [Salmonella enterica ... DNAA_SALTI - Chromosomal replication initiator protein dnaA OS=Salmonella typhi GN=dnaA PE=3 SV=1 gi\|213424952 - gi\|213424952\|ref\|ZP_03357702.1\| chromosomal replication initiation protein [Salmonella enterica subs... gi\|213052696 - gi\|213052696\|ref\|ZP_03345574.1\| chromosomal replication initiation protein [Salmonella enterica subs... gi\|213021809 - gi\|213021809\|ref\|ZP_03336256.1\| chromosomal replication initiation protein [Salmonella enterica subs... DNAA_SALEP - Chromosomal replication initiator protein DnaA OS=Salmonella enteritidis PT4 (strain P125109) GN=dna... gi\|214001466 - gi\|214001466\|ref\|ZP_03412201.1\| chromosomal replication initiation protein [Salmonella enterica subs... gi\|213648784 - gi\|213648784\|ref\|ZP_03378837.1\| chromosomal replication initiation protein [Salmonella enterica subs... gi\|213581270 - gi\|213581270\|ref\|ZP_03363096.1\| chromosomal replication initiation protein [Salmonella enterica subs... gi\|29143975, gi\|... - gi\|29143975\|ref\|NP_807317.1\| chromosomal replication initiation protein [Salmonella enterica subsp. ... gi\|16762487 - gi\|16762487\|ref\|NP_458104.1\| chromosomal replication initiation protein [Salmonella enterica subsp. ... DNAA_SALTI - Chromosomal replication initiator protein DnaA OS=Salmonella typhi GN=dnaA PE=3 SV=1	2.0E-77	[1..462]	[1..466]
DNAA_SALPA - Chromosomal replication initiator protein DnaA OS=Salmonella paratyphi A GN=dnaA PE=3 SV=1 DNAA_SALPA - Chromosomal replication initiator protein DnaA OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42)... gi\|238913091 - gi\|238913091\|ref\|ZP_04656928.1\| chromosomal replication initiation protein [Salmonella enterica subs... gi\|204928789, gi... - gi\|204928789\|ref\|ZP_03219988.1\| chromosomal replication initiator protein DnaA [Salmonella enterica ... DNAA_SALPB - Chromosomal replication initiator protein dnaA OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB... DNAA_SALSV - Chromosomal replication initiator protein DnaA OS=Salmonella schwarzengrund (strain CVM19633) GN=dna... DNAA_SALTY - Chromosomal replication initiator protein dnaA OS=Salmonella typhimurium GN=dnaA PE=3 SV=2 DNAA_SALA4 - Chromosomal replication initiator protein DnaA OS=Salmonella agona (strain SL483) GN=dnaA PE=3 SV=1 DNAA_SALPK - Chromosomal replication initiator protein DnaA OS=Salmonella paratyphi A (strain AKU_12601) GN=dnaA ... DNAA_SALTY - Chromosomal replication initiator protein DnaA OS=Salmonella typhimurium (strain LT2 / SGSC1412 / AT... gi\|200388152, gi... - gi\|200388152\|ref\|ZP_03214764.1\| chromosomal replication initiator protein DnaA [Salmonella enterica ... DNAA_SALPB - Chromosomal replication initiator protein DnaA OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB... gi\|168818302, gi... - gi\|205344670\|gb\|EDZ31434.1\| chromosomal replication initiator protein DnaA [Salmonella enterica subs... DNAA_SALNS - Chromosomal replication initiator protein DnaA OS=Salmonella newport (strain SL254) GN=dnaA PE=3 SV=... DNAA_SALHS - Chromosomal replication initiator protein DnaA OS=Salmonella heidelberg (strain SL476) GN=dnaA PE=3 ... gi\|194470761, gi... - gi\|194470761\|ref\|ZP_03076745.1\| chromosomal replication initiator protein DnaA [Salmonella enterica ... lcl\|NC_016856.1_... - [gene=dnaA] [protein=chromosomal replication initiation protein] [protein_id=YP_005240105.1] [locati... gi\|205332569, gi... - gi\|205332569\|gb\|EDZ19333.1\| chromosomal replication initiator protein DnaA [Salmonella enterica subs... DNAA_SALTY - Chromosomal replication initiator protein DnaA OS=Salmonella typhimurium GN=dnaA PE=3 SV=2 gi\|168235478, gi... - gi\|197291232\|gb\|EDY30584.1\| chromosomal replication initiator protein DnaA [Salmonella enterica subs... gi\|168260377, gi... - gi\|205350503\|gb\|EDZ37134.1\| chromosomal replication initiator protein DnaA [Salmonella enterica subs... gi\|168464831, gi... - gi\|195632396\|gb\|EDX50880.1\| chromosomal replication initiator protein DnaA [Salmonella enterica subs... gi\|167548872, gi... - gi\|205325509\|gb\|EDZ13348.1\| chromosomal replication initiator protein DnaA [Salmonella enterica subs... gi\|167992432, gi... - gi\|205329368\|gb\|EDZ16132.1\| chromosomal replication initiator protein DnaA [Salmonella enterica subs...	2.0E-77	[1..462]	[1..466]
gi\|30043271, gi\|... - gi\|30065010\|ref\|NP_839181.1\| chromosomal replication initiation protein [Shigella flexneri 2a str. 2...	2.0E-77	[1..462]	[1..467]
DNAA_SHIDS - Chromosomal replication initiator protein DnaA OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=...	2.0E-77	[1..462]	[1..467]

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Predicted Domain #1

Region A:
Residues: [1-68]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSLSLWQQCL ARLQDELPAT EFSMWIRPLQ AELSDNTLAL YAPNRFVLDW VRDKYLNNIN  60
   61 GLLNDFCG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	11.0
Match:	2e0gA
Description:	No description for 2e0gA was found.

Predicted Domain #2

Region A:
Residues: [69-348]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TEVPLLRFEV GSKPAARAHN NPVTASVSAP VAPVTRSAPM RPSWDNSPAQ PELSYRSNVN  60
   61 PKHTFDNFVE GKSNQLARAA ARQVADNPGG AYNPLFLYGG TGLGKTHLLH AVGNGIMARK 120
  121 ANAKVVYMHS ERFVQDMVKA LQNNAIEEFK RYYRSVDALL IDDIQFFANK ERSQEEFFHT 180
  181 FNALLEGNQQ IILTSDRYPK EINGVEDRLK SRFGWGLTVA IEPPELETRV AILMKKADEN 240
  241 DIRLPGEVAF FIAKRLRSNV RELEGALNRV IANANFTGRA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	15.69897
Match:	1ny5A
Description:	Crystal structure of sigm54 activator (AAA+ ATPase) in the inactive state
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	1.37148167194523	bayes_pls_golite062009
binding	1.30574971150356	bayes_pls_golite062009
pyrophosphatase activity	1.16998111465319	bayes_pls_golite062009
nucleic acid binding	0.595576734443569	bayes_pls_golite062009
DNA binding	0.278289439071945	bayes_pls_golite062009
transcription regulator activity	0.272450877010668	bayes_pls_golite062009
helicase activity	0.00674361801283974	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [349-462]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ITIDFVREAL RDLLALQEKL VTIDNIQKTV AEYYKIKVAD LLSKRRSRSV ARPRQMAMAL  60
   61 AKELTNHSLP EIGDAFGGRD HTTVLHACRK IEQLREESHD IKEDFSNLIR TLSS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	32.0
Match:	2hcbA
Description:	No description for 2hcbA was found.

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: