YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|25288577, gi\|...
Organism:	Salmonella enterica subsp. enterica serovar Typhi
Length:	642 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|25288577, gi|....

Description	E-value	Query Range	Subject Range
gi\|56128618, gi\|... - gi\|56414361\|ref\|YP_151436.1\| DNA polymerase III subunits gamma and tau [Salmonella enterica subsp. e... gi\|197363281, gi... - gi\|197363281\|ref\|YP_002142918.1\| DNA polymerase III subunits gamma and tau [Salmonella enterica subs...	0.0	[1..642]	[1..642]
lcl\|NC_016856.1_... - [gene=dnaX] [protein=DNA polymerase III subunits gamma and tau] [protein_id=YP_005236182.1] [locatio... gi\|195631598, gi... - gi\|195631598\|gb\|EDX50118.1\| DNA polymerase III, tau subunit [Salmonella enterica subsp. enterica ser... gi\|167990471, gi... - gi\|205330903\|gb\|EDZ17667.1\| DNA polymerase III, tau subunit [Salmonella enterica subsp. enterica ser... DPO3X_SALTY, DP3... - DNA polymerase III subunit tau OS=Salmonella typhimurium GN=dnaX PE=3 SV=2, (P74876) DNA polymerase ... DPO3X_SALTY - DNA polymerase III subunit tau OS=Salmonella typhimurium GN=dnaX PE=3 SV=2 DPO3X_SALTY - DNA polymerase III subunit tau OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=dn...	0.0	[1..642]	[1..642]
gi\|62179095, gi\|... - gi\|62179095\|ref\|YP_215512.1\| DNA polymerase III subunits gamma and tau [Salmonella enterica subsp. e...	0.0	[1..642]	[1..642]
gi\|1527143 - gi\|1527143\|gb\|AAC97559.1\| DNA polymerase III tau subunit [Salmonella typhimurium] gi\|1527143\|gb\|AA... - DNA polymerase III tau subunit [Salmonella typhimurium]	0.0	[1..642]	[1..642]
gi\|24050648, gi\|... - gi\|24111853\|ref\|NP_706363.1\| DNA polymerase III subunits gamma and tau [Shigella flexneri 2a str. 30... gi\|110614045, gi... - gi\|110804497\|ref\|YP_688017.1\| DNA polymerase III subunits gamma and tau [Shigella flexneri 5 str. 84... gi\|30061970, gi\|... - gi\|30061970\|ref\|NP_836141.1\| DNA polymerase III subunits gamma and tau [Shigella flexneri 2a str. 24...	0.0	[1..642]	[1..641]
gi\|168786323, gi... - gi\|189373554\|gb\|EDU91970.1\| DNA polymerase III, tau subunit [Escherichia coli O157:H7 str. EC869], g... gi\|189379409, gi... - gi\|189379409\|gb\|EDU97825.1\| DNA polymerase III, tau subunit [Escherichia coli O157:H7 str. EC508], g... gi\|195936033 - gi\|195936033\|ref\|ZP_03081415.1\| DNA polymerase III subunits gamma and tau [Escherichia coli O157:H7 ... gi\|15829777, gi\|... - gi\|15829777\|ref\|NP_308550.1\| DNA polymerase III subunits gamma and tau [Escherichia coli O157:H7 str... gi\|208725803, gi... - gi\|208806002\|ref\|ZP_03248339.1\| DNA polymerase III, tau subunit [Escherichia coli O157:H7 str. EC420... gi\|168760373, gi... - gi\|189369171\|gb\|EDU87587.1\| DNA polymerase III, tau subunit [Escherichia coli O157:H7 str. EC4501], ... gi\|189362356, gi... - gi\|189362356\|gb\|EDU80775.1\| DNA polymerase III, tau subunit [Escherichia coli O157:H7 str. EC4486], ... gi\|187767563, gi... - gi\|187767563\|gb\|EDU31407.1\| DNA polymerase III, tau subunit [Escherichia coli O157:H7 str. EC4196], ... gi\|168778965, gi... - gi\|189002758\|gb\|EDU71744.1\| DNA polymerase III, tau subunit [Escherichia coli O157:H7 str. EC4076], ... gi\|168747852, gi... - gi\|188017706\|gb\|EDU55828.1\| DNA polymerase III, tau subunit [Escherichia coli O157:H7 str. EC4113], ... gi\|189358057, gi... - gi\|189358057\|gb\|EDU76476.1\| DNA polymerase III, tau subunit [Escherichia coli O157:H7 str. EC4401], ... gi\|15829777, gi\|... - gi\|15829777\|ref\|NP_308550.1\| DNA polymerase III subunits gamma and tau [Escherichia coli O157:H7], g... gi\|25288575, gi\|... - pir\|\|G85544 DNA polymerase III tau and gamma subunits [similarity] - Escherichia coli (strain O157:H... gi\|208815685, gi... - gi\|208815685\|ref\|ZP_03256864.1\| DNA polymerase III, tau subunit [Escherichia coli O157:H7 str. EC404... gi\|15800199, gi\|... - gi\|15800199\|ref\|NP_286211.1\| DNA polymerase III subunits gamma and tau [Escherichia coli O157:H7 EDL... gi\|208737178, gi... - gi\|208822985\|ref\|ZP_03263303.1\| DNA polymerase III, tau subunit [Escherichia coli O157:H7 str. EC404... gi\|209399465, gi... - gi\|209399465\|ref\|YP_002269120.1\| DNA polymerase III, tau subunit [Escherichia coli O157:H7 str. EC41... gi\|217322386, gi... - gi\|217326165\|ref\|ZP_03442249.1\| DNA polymerase III, tau subunit [Escherichia coli O157:H7 str. TW145... gi\|254791653, gi... - gi\|254791653\|ref\|YP_003076490.1\| DNA polymerase III/DNA elongation factor III, tau and gamma subunit...	0.0	[1..642]	[1..643]
gi\|187430488, gi... - gi\|75177585\|ref\|ZP_00697666.1\| COG2812: DNA polymerase III, gamma/tau subunits [Shigella boydii BS51...	0.0	[1..642]	[1..643]
gi\|190906046, gi... - gi\|75238222\|ref\|ZP_00722223.1\| COG2812: DNA polymerase III, gamma/tau subunits [Escherichia coli F11... gi\|110640731, gi... - gi\|110640731\|ref\|YP_668459.1\| DNA polymerase III subunits gamma and tau [Escherichia coli 536], gi\|1...	0.0	[1..642]	[1..643]
gi\|75209774, gi\|... - gi\|75209774\|ref\|ZP_00709976.1\| COG2812: DNA polymerase III, gamma/tau subunits [Escherichia coli B17... gi\|218350664, gi... - gi\|218693932\|ref\|YP_002401599.1\| DNA polymerase III subunits gamma and tau [Escherichia coli 55989],... gi\|75257885, gi\|... - gi\|75257885\|ref\|ZP_00729363.1\| COG2812: DNA polymerase III, gamma/tau subunits [Escherichia coli E22... gi\|75229369, gi\|... - gi\|75229369\|ref\|ZP_00715924.1\| COG2812: DNA polymerase III, gamma/tau subunits [Escherichia coli B7A...	0.0	[1..642]	[1..643]
gi\|73854526, gi\|... - gi\|74311049\|ref\|YP_309468.1\| DNA polymerase III subunits gamma and tau [Shigella sonnei Ss046], gi\|7...	0.0	[1..642]	[1..641]

Back

Predicted Domain #1

Region A:
Residues: [1-364]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSYQVLARKW RPQTFADVVG QEHVLTALAN GLSLGRIHHA YLFSGTRGVG KTSIARLLAK  60
   61 GLNCETGITA TPCGVCDNCR EIEQGRFVDL IEIDAASRTK VEDTRDLLDN VQYAPARGRF 120
  121 KVYLIDEVHM LSRHSFNALL KTLEEPPAHV KFLLATTDPQ KLPVTILSRC LQFHLKALDV 180
  181 EQIRHQLEHI LNEEHIAHEP RALQLLSRAA DGSLRDALSL TDQAIASGDG QVSTQAVSAM 240
  241 LGTLDDDQAL SLVEAVVDAN GERVMSLINE AAARGIEWEA LLVEMLSLLH RIAMVQLSPA 300
  301 ALGSDMAAIE QRMRELARTV PPGDLQLYYQ TLLIGRKELP WAPDRRMGVE MTLLRALAFH 360
  361 PRMP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	80.154902
Match:	1xxiB
Description:	ADP Bound E. coli Clamp Loader Complex
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
DNA clamp loader activity	6.51495346697904	bayes_pls_golite062009
protein-DNA loading ATPase activity	6.40748863504898	bayes_pls_golite062009
DNA helicase activity	2.2817164193758	bayes_pls_golite062009
pyrophosphatase activity	2.23646936731119	bayes_pls_golite062009
ATP-dependent DNA helicase activity	1.88455339138556	bayes_pls_golite062009
binding	1.82708462182661	bayes_pls_golite062009
helicase activity	1.70242731830224	bayes_pls_golite062009
nucleic acid binding	1.49633029954726	bayes_pls_golite062009
catalytic activity	1.32370671504792	bayes_pls_golite062009
structure-specific DNA binding	1.2539059700735	bayes_pls_golite062009
DNA-dependent ATPase activity	1.2537888487362	bayes_pls_golite062009
purine NTP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
ATP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
double-stranded DNA binding	1.117585097627	bayes_pls_golite062009
motor activity	1.03253378953548	bayes_pls_golite062009
DNA-directed DNA polymerase activity	0.971476020912368	bayes_pls_golite062009
DNA binding	0.967303417236485	bayes_pls_golite062009
DNA polymerase activity	0.928091843881235	bayes_pls_golite062009
microtubule motor activity	0.83915812897953	bayes_pls_golite062009
transcription regulator activity	0.748437190903548	bayes_pls_golite062009
guanyl nucleotide binding	0.656009904481476	bayes_pls_golite062009
guanyl ribonucleotide binding	0.64416740142962	bayes_pls_golite062009
GTP binding	0.643084645864898	bayes_pls_golite062009
single-stranded DNA binding	0.568457189190858	bayes_pls_golite062009
protein binding	0.424505363166733	bayes_pls_golite062009
GTPase activity	0.406399103964327	bayes_pls_golite062009
mismatched DNA binding	0.31144582840038	bayes_pls_golite062009
DNA strand annealing activity	0.283577486331079	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.248432446853676	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	0.217252531553173	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	0.215962398124297	bayes_pls_golite062009
structural constituent of ribosome	0.089234257580272	bayes_pls_golite062009
3'-5' DNA helicase activity	0.0769112340058804	bayes_pls_golite062009
ATPase activity	0.0740243885501273	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [365-441]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LPEPETPRQS FAPVAPTAVM TPPQVQQPSA PAPQTSPAPL PASTSQVLAA RNQLQRAQGV  60
   61 TKTKKSEPAA ASRARPV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	12.154902
Match:	2di4A
Description:	No description for 2di4A was found.

Predicted Domain #3

Region A:
Residues: [442-642]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NNSALERLAS VSERVQARPA PSALETTPVK KEAYRWKATT PVVQTKEVVA TPKALKKALE  60
   61 HEKTPELAAK LAAEAIERDP WAAQVSQLSL PKLVEQVALN AWKEQNGNAV CLHLRSTQRH 120
  121 LNSSGAQQKL AQALSDLTGT TVELTIVEDD NPAVRTPLEW RQAIYEEKLA QARESIIADN 180
  181 NIQTLRRFFD AELDEESIRP I

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	26.39794
Match:	2ayaA
Description:	No description for 2ayaA 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: