YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|253972166, gi...
Organism:	Escherichia coli B str. REL606
Length:	151 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 gi|253972166, gi....

Description	E-value	Query Range	Subject Range
gi\|167423764, gi... - gi\|167423764\|ref\|ZP_02315517.1\| RNA polymerase-binding protein DksA [Yersinia pestis biovar Mediaeva... gi\|166214121, gi... - gi\|166214121\|ref\|ZP_02240156.1\| RNA polymerase-binding protein DksA [Yersinia pestis biovar Antiqua ... gi\|167420477, gi... - gi\|167420477\|ref\|ZP_02312230.1\| RNA polymerase-binding protein DksA [Yersinia pestis biovar Oriental... gi\|165925870, gi... - gi\|165925870\|ref\|ZP_02221702.1\| RNA polymerase-binding protein DksA [Yersinia pestis biovar Oriental... gi\|22124704, gi\|... - gi\|22124704\|ref\|NP_668127.1\| dnaK suppressor protein [Yersinia pestis KIM], gi\|21957518\|gb\|AAM84378.... gi\|165991085, gi... - gi\|166010178\|ref\|ZP_02231076.1\| RNA polymerase-binding protein DksA [Yersinia pestis biovar Antiqua ... gi\|45440147, gi\|... - gi\|45440147\|ref\|NP_991686.1\| DnaK suppressor protein homologue [Yersinia pestis biovar Microtus str.... gi\|162352709, gi... - gi\|162419894\|ref\|YP_001605566.1\| DnaK transcriptional regulator DksA [Yersinia pestis Angola], gi\|16...	183.0	[0..1]	[151..32]
gi\|50122239, gi\|... - gi\|50122239\|ref\|YP_051406.1\| DnaK transcriptional regulator DksA [Pectobacterium atrosepticum SCRI10... gi\|227327659 - gi\|227327659\|ref\|ZP_03831683.1\| DnaK transcriptional regulator DksA [Pectobacterium carotovorum subs... gi\|255055906, gi... - gi\|255055906\|ref\|ZP_05308131.1\| transcriptional regulator, TraR/DksA family [Pectobacterium wasabiae...	172.0	[0..1]	[151..1]
gi\|253988291, gi... - gi\|253988291\|ref\|YP_003039647.1\| dnak suppressor protein [Photorhabdus asymbiotica], gi\|253779741\|em... gi\|36784296, gi\|... - gi\|37524871\|ref\|NP_928215.1\| DnaK transcriptional regulator DksA [Photorhabdus luminescens subsp. la...	170.0	[0..1]	[151..1]
gi\|85058470, gi\|... - gi\|85058470\|ref\|YP_454172.1\| DnaK transcriptional regulator DksA [Sodalis glossinidius str. 'morsita...	169.0	[0..1]	[151..1]
gi\|167051119, gi... - gi\|167398615\|ref\|ZP_02304139.1\| RNA polymerase-binding protein DksA [Yersinia pestis biovar Antiqua ... gi\|161511460 - gi\|161511460\|ref\|NP_991686.2\| DnaK transcriptional regulator DksA [Yersinia pestis biovar Microtus s... gi\|186697120, gi... - gi\|186894094\|ref\|YP_001871206.1\| DnaK transcriptional regulator DksA [Yersinia pseudotuberculosis PB... gi\|169752217, gi... - gi\|170025683\|ref\|YP_001722188.1\| DnaK transcriptional regulator DksA [Yersinia pseudotuberculosis YP... gi\|229901066, gi... - gi\|229901066\|ref\|ZP_04516189.1\| C4-type zinc finger protein, DksA/TraR family [Yersinia pestis Nepal... gi\|165915423, gi... - gi\|89102553\|ref\|ZP_01175178.1\| COG1734: DnaK suppressor protein [Yersinia pestis biovar Orientalis s... gi\|161484864 - gi\|161484864\|ref\|NP_668127.2\| DnaK transcriptional regulator DksA [Yersinia pestis KIM] gi\|229695401, gi... - gi\|229839035\|ref\|ZP_04459194.1\| C4-type zinc finger protein, DksA/TraR family [Yersinia pestis biova... gi\|108780802, gi... - gi\|108808889\|ref\|YP_652805.1\| DnaK transcriptional regulator DksA [Yersinia pestis Antiqua], gi\|1087... gi\|229896514, gi... - gi\|229896514\|ref\|ZP_04511682.1\| C4-type zinc finger protein, DksA/TraR family [Yersinia pestis Pesto... gi\|229687092, gi... - gi\|229899600\|ref\|ZP_04514741.1\| C4-type zinc finger protein, DksA/TraR family [Yersinia pestis biova... gi\|153997560, gi... - gi\|153997560\|ref\|ZP_02022660.1\| RNAP-binding protein modulating ppGpp and iNTP regulation [Yersinia ... gi\|238754485, gi... - gi\|238754485\|ref\|ZP_04615840.1\| DnaK suppressor protein [Yersinia ruckeri ATCC 29473], gi\|238707314\|... gi\|145600218, gi... - gi\|145600218\|ref\|YP_001164294.1\| DnaK transcriptional regulator DksA [Yersinia pestis Pestoides F], ... gi\|77979588, gi\|... - gi\|77979588\|ref\|ZP_00835005.1\| COG1734: DnaK suppressor protein [Yersinia intermedia ATCC 29909], gi... gi\|238786775, gi... - gi\|77976050\|ref\|ZP_00831583.1\| COG1734: DnaK suppressor protein [Yersinia frederiksenii ATCC 33641],... gi\|77634838 - gi\|77634838\|ref\|ZP_00796931.1\| COG1734: DnaK suppressor protein [Yersinia pestis Angola] gi\|77631712, gi\|... - gi\|77631712\|ref\|ZP_00794298.1\| COG1734: DnaK suppressor protein [Yersinia pseudotuberculosis IP 3175... gi\|51595084, gi\|... - gi\|51595084\|ref\|YP_069275.1\| DnaK transcriptional regulator DksA [Yersinia pseudotuberculosis IP 329... gi\|25332015 - pir\|\|AG0412 DnaK suppressor protein homolog [imported] - Yersinia pestis (strain CO92) Q66EF9\|Q66EF9_YERPS - DnaK suppressor protein - Yersinia pseudotuberculosis gi\|115349025, gi... - gi\|218930414\|ref\|YP_002348289.1\| DnaK transcriptional regulator DksA [Yersinia pestis CO92], gi\|1612...	169.0	[0..1]	[151..1]
gi\|117622432, gi... - gi\|117622432\|ref\|YP_851345.1\| DnaK transcriptional regulator DksA [Escherichia coli APEC O1], gi\|115... gi\|226840669, gi... - gi\|254037563\|ref\|ZP_04871640.1\| dnaK suppressor protein [Escherichia sp. 1_1_43], gi\|226840669\|gb\|EE... gi\|237704304, gi... - gi\|237704304\|ref\|ZP_04534785.1\| dnaK suppressor protein [Escherichia sp. 3_2_53FAA], gi\|226902216\|gb... gi\|91209214, gi\|... - gi\|91209214\|ref\|YP_539200.1\| DnaK suppressor protein [Escherichia coli UTI89], gi\|91070788\|gb\|ABE056... gi\|24111583, gi\|... - ref\|NP_706093.1\| dnaK suppressor protein [Shigella flexneri 2a str. 301], gb\|AAN41800.1\| dnaK suppr... gi\|26106486, gi\|... - gi\|26246089\|ref\|NP_752128.1\| DnaK suppressor protein [Escherichia coli CFT073], gi\|26106486\|gb\|AAN78...	169.0	[0..1]	[151..7]
gi\|145751 - gi\|145751\|gb\|AAA23687.1\| dnaK suppressor (dksA) [Escherichia coli]	168.0	[0..1]	[151..1]
gi\|194470269, gi... - gi\|194470269\|ref\|ZP_03076253.1\| RNA polymerase-binding protein DksA [Salmonella enterica subsp. ente... gi\|194407061, gi... - gi\|194448757\|ref\|YP_002044171.1\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. ent... gi\|194403617, gi... - gi\|194444954\|ref\|YP_002039422.1\| RNA polymerase-binding protein DksA [Salmonella enterica subsp. ent... gi\|205342403, gi... - gi\|205342403\|gb\|EDZ29167.1\| RNA polymerase-binding protein DksA [Salmonella enterica subsp. enterica... gi\|197092873, gi... - gi\|197361398\|ref\|YP_002141033.1\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. ent... gi\|197264369, gi... - gi\|197264369\|ref\|ZP_03164443.1\| RNA polymerase-binding protein DksA [Salmonella enterica subsp. ente... gi\|197248103, gi... - gi\|197248103\|ref\|YP_002145187.1\| RNA polymerase-binding protein DksA [Salmonella enterica subsp. ent... gi\|194709980, gi... - gi\|194734478\|ref\|YP_002113214.1\| RNA polymerase-binding protein DksA [Salmonella enterica subsp. ent... gi\|168230488, gi... - gi\|205334944\|gb\|EDZ21708.1\| RNA polymerase-binding protein DksA [Salmonella enterica subsp. enterica... gi\|205331487, gi... - gi\|205331487\|gb\|EDZ18251.1\| RNA polymerase-binding protein DksA [Salmonella enterica subsp. enterica... gi\|162139618 - gi\|162139618\|ref\|YP_215173.2\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. enteri... gi\|161612547, gi... - gi\|161612547\|ref\|YP_001586512.1\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. ent... gi\|168464257, gi... - gi\|195632921\|gb\|EDX51375.1\| RNA polymerase-binding protein DksA [Salmonella enterica subsp. enterica... gi\|168263953, gi... - gi\|205347429\|gb\|EDZ34060.1\| RNA polymerase-binding protein DksA [Salmonella enterica subsp. enterica... gi\|168243380, gi... - gi\|205337537\|gb\|EDZ24301.1\| RNA polymerase-binding protein DksA [Salmonella enterica subsp. enterica... gi\|168234966, gi... - gi\|197291844\|gb\|EDY31194.1\| RNA polymerase-binding protein DksA [Salmonella enterica subsp. enterica... gi\|213648434 - gi\|213648434\|ref\|ZP_03378487.1\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. ente... gi\|213622842 - gi\|213622842\|ref\|ZP_03375625.1\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. ente... gi\|213581749 - gi\|213581749\|ref\|ZP_03363575.1\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. ente... gi\|213425921 - gi\|213425921\|ref\|ZP_03358671.1\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. ente... gi\|224466560, gi... - gi\|224582033\|ref\|YP_002635831.1\| dosage-dependent dnaK suppressor protein [Salmonella enterica subsp... gi\|214000859 - gi\|214000859\|ref\|ZP_03411594.1\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. ente... gi\|213975591 - gi\|213975591\|ref\|ZP_03402850.1\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. ente... gi\|206707505, gi... - gi\|207855702\|ref\|YP_002242353.1\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. ent... gi\|204927296, gi... - gi\|204927296\|ref\|ZP_03218498.1\| RNA polymerase-binding protein DksA [Salmonella enterica subsp. ente... gi\|199604429, gi... - gi\|200387331\|ref\|ZP_03213943.1\| RNA polymerase-binding protein DksA [Salmonella enterica subsp. ente... gi\|198244547, gi... - gi\|198244547\|ref\|YP_002214143.1\| RNA polymerase-binding protein DksA [Salmonella enterica subsp. ent... gi\|213419928 - gi\|213419928\|ref\|ZP_03352994.1\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. ente... gi\|213052339 - gi\|213052339\|ref\|ZP_03345217.1\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. ente... gi\|213021714 - gi\|213021714\|ref\|ZP_03336161.1\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. ente... gi\|209906242, gi... - gi\|209906242\|ref\|ZP_03280726.1\| hypothetical protein ENTCAN_00471 [Enterobacter cancerogenus ATCC 35... DKSA_SALTY - DnaK suppressor protein OS=Salmonella typhimurium GN=dksA PE=3 SV=1 DKSA_SALTY - DnaK suppressor protein OS=Salmonella typhimurium GN=dksA PE=3 SV=1 gi\|157147425, gi... - gi\|157147425\|ref\|YP_001454744.1\| DnaK transcriptional regulator DksA [Citrobacter koseri ATCC BAA-89... gi\|56126719, gi\|... - gi\|56412462\|ref\|YP_149537.1\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. enteric... gi\|161504689, gi... - gi\|161504689\|ref\|YP_001571801.1\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. ari... DKSA_SALTI - DnaK suppressor protein OS=Salmonella typhi GN=dksA PE=3 SV=1 gi\|238911253 - gi\|238911253\|ref\|ZP_04655090.1\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. ente... lcl\|NC_016856.1_... - [gene=dksA] [protein=DnaK transcriptional regulator DksA] [protein_id=YP_005235851.1] [location=comp... gi\|29136359, gi\|... - gi\|29140735\|ref\|NP_804077.1\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. enteric... gi\|16759185 - gi\|16759185\|ref\|NP_454802.1\| DnaK transcriptional regulator DksA [Salmonella enterica subsp. enteric... DKSA_SALTI - RNA polymerase-binding transcription factor DksA OS=Salmonella typhi GN=dksA PE=3 SV=1 DKSA_SALTY - RNA polymerase-binding transcription factor DksA OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ...	168.0	[0..1]	[151..1]
gi\|62178756, gi\|... - gi\|62178756\|ref\|YP_215173.1\| dnaK suppressor protein [Salmonella enterica subsp. enterica serovar Ch...	168.0	[0..1]	[151..7]
gi\|77957534 - gi\|77957534\|ref\|ZP_00821587.1\| COG1734: DnaK suppressor protein [Yersinia bercovieri ATCC 43970] gi\|238719027, gi... - gi\|77962799\|ref\|ZP_00826615.1\| COG1734: DnaK suppressor protein [Yersinia mollaretii ATCC 43969], gi...	168.0	[0..1]	[151..1]

Back

Predicted Domain #1

Region A:
Residues: [1-151]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MQEGQNRKTS SLSILAIAGV EPYQEKPGEE YMNEAQLAHF RRILEAWRNQ LRDEVDRTVT  60
   61 HMQDEAANFP DPVDRAAQEE EFSLELRNRD RERKLIKKIE KTLKKVEDED FGYCESCGVE 120
  121 IGIRRLEARP TADLCIDCKT LAEIREKQMA G

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	42.522879
Match:	1tjlA
Description:	Crystal structure of transcription factor DksA from E. coli
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
nucleic acid binding	2.38506871722072	bayes_pls_golite062009
DNA binding	2.34325587943534	bayes_pls_golite062009
binding	2.28273695562039	bayes_pls_golite062009
transcription regulator activity	1.45127726072385	bayes_pls_golite062009
protein binding	0.934392022502148	bayes_pls_golite062009
sequence-specific DNA binding	0.71958532653437	bayes_pls_golite062009
transcription activator activity	0.715538962910453	bayes_pls_golite062009
enzyme binding	0.70023506088536	bayes_pls_golite062009
ligand-dependent nuclear receptor activity	0.613774016982502	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.57454737035174	bayes_pls_golite062009
transcription factor activity	0.559047816554475	bayes_pls_golite062009
transcription factor binding	0.52161600305754	bayes_pls_golite062009
transition metal ion binding	0.300699898963653	bayes_pls_golite062009
catalytic activity	0.101795606736461	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: