YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|45441813, gi\|...
Organism:	Yersinia pestis biovar Microtus str. 91001
Length:	348 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 gi|45441813, gi|....

Description	E-value	Query Range	Subject Range
gi\|77972520 - gi\|77972520\|ref\|ZP_00828084.1\| COG0616: Periplasmic serine proteases (ClpP class) [Yersinia frederik...	1.0E-79	[1..348]	[1..348]
gi\|145598216, gi... - gi\|145598216\|ref\|YP_001162292.1\| putative periplasmic protease [Yersinia pestis Pestoides F], gi\|145... gi\|108811845, gi... - gi\|108811845\|ref\|YP_647612.1\| putative periplasmic protease [Yersinia pestis Nepal516], gi\|108775493... gi\|108779482, gi... - gi\|108807569\|ref\|YP_651485.1\| putative periplasmic protease [Yersinia pestis Antiqua], gi\|108779482\|...	6.0E-79	[7..348]	[2..343]
gi\|238798377, gi... - gi\|77961376\|ref\|ZP_00825215.1\| COG0616: Periplasmic serine proteases (ClpP class) [Yersinia mollaret...	1.0E-78	[1..348]	[1..348]
gi\|238794712, gi... - gi\|77977447\|ref\|ZP_00832895.1\| COG0616: Periplasmic serine proteases (ClpP class) [Yersinia intermed...	8.0E-78	[1..348]	[1..348]
gi\|82776631, gi\|... - gi\|82776631\|ref\|YP_402980.1\| putative periplasmic protease [Shigella dysenteriae Sd197], gi\|81240779...	2.0E-77	[1..348]	[1..346]
gi\|36785765, gi\|... - gi\|37526334\|ref\|NP_929678.1\| putative periplasmic protease [Photorhabdus luminescens subsp. laumondi...	4.0E-75	[1..348]	[1..348]
gi\|290470 - gi\|290470\|gb\|AAA24639.1\| sohB gi\|290470 - gi\|290470\|gb\|AAA24639.1\| sohB	3.0E-74	[1..348]	[1..349]
gi\|190903321, gi... - gi\|75230172\|ref\|ZP_00716673.1\| COG0616: Periplasmic serine proteases (ClpP class) [Escherichia coli ... gi\|193069952, gi... - gi\|75235222\|ref\|ZP_00719459.1\| COG0616: Periplasmic serine proteases (ClpP class) [Escherichia coli ... SOHB_ECOLI - Probable protease sohB (EC 3.4.21.-) - Escherichia coli gi\|83587409, gi\|... - gi\|83587409\|ref\|ZP_00926037.1\| COG0616: Periplasmic serine proteases (ClpP class) [Escherichia coli ... gi\|89108118, gi\|... - gi\|89108118\|ref\|AP_001898.1\| predicted inner membrane peptidase [Escherichia coli str. K-12 substr. ... gi\|194426078, gi... - gi\|75212709\|ref\|ZP_00712707.1\| COG0616: Periplasmic serine proteases (ClpP class) [Escherichia coli ... gi\|75259382, gi\|... - gi\|75259382\|ref\|ZP_00730701.1\| COG0616: Periplasmic serine proteases (ClpP class) [Escherichia coli ... gi\|73855836, gi\|... - gi\|74312359\|ref\|YP_310778.1\| putative periplasmic protease [Shigella sonnei Ss046], gi\|73855836\|gb\|A... EG10956 - inner membrane protein, S49 peptidase family protein / Inner membrane S49 family predicted peptidase... SOHB_SHIFL - Probable protease SohB OS=Shigella flexneri GN=sohB PE=3 SV=1 EG10956 - inner membrane protein, S49 peptidase family protein / Inner membrane S49 family predicted peptidase... gi\|24051584, gi\|... - gi\|24112669\|ref\|NP_707179.1\| putative periplasmic protease [Shigella flexneri 2a str. 301], gi\|24051... gi\|30062794, gi\|... - gi\|30062794\|ref\|NP_836965.1\| putative periplasmic protease [Shigella flexneri 2a str. 2457T], gi\|300... gi\|169888784, gi... - gi\|170080949\|ref\|YP_001730269.1\| inner membrane peptidase [Escherichia coli str. K-12 substr. DH10B]... gi\|238900505, gi... - gi\|238900505\|ref\|YP_002926301.1\| putative inner membrane peptidase [Escherichia coli BW2952], gi\|238... gi\|170520199, gi... - gi\|170682481\|ref\|YP_001743913.1\| S49 family peptidase [Escherichia coli SMS-3-5], gi\|170520199\|gb\|AC... gi\|253773731, gi... - gi\|254288160\|ref\|YP_003053908.1\| predicted inner membrane peptidase [Escherichia coli BL21(DE3)], gi... gi\|209918511, gi... - gi\|209918511\|ref\|YP_002292595.1\| putative periplasmic protease [Escherichia coli SE11], gi\|209911770... gi\|253973253, gi... - gi\|254161352\|ref\|YP_003044460.1\| predicted inner membrane peptidase [Escherichia coli B str. REL606]... gi\|218360592, gi... - gi\|218553824\|ref\|YP_002386737.1\| putative periplasmic protease [Escherichia coli IAI1], gi\|218360592... gi\|218351575, gi... - gi\|218694843\|ref\|YP_002402510.1\| putative periplasmic protease [Escherichia coli 55989], gi\|21835157...	1.0E-73	[1..348]	[1..349]
gi\|227836503, gi... - gi\|227886299\|ref\|ZP_04004104.1\| S49 family SohB endopeptidase [Escherichia coli 83972], gi\|227836503... gi\|26108003, gi\|... - gi\|26247601\|ref\|NP_753641.1\| putative periplasmic protease [Escherichia coli CFT073], gi\|26108003\|gb...	1.0E-73	[1..348]	[1..349]
gi\|189354830, gi... - gi\|189354830\|gb\|EDU73249.1\| peptidase, S49 (protease IV) family [Escherichia coli O157:H7 str. EC440... gi\|189366260, gi... - gi\|189366260\|gb\|EDU84676.1\| peptidase, S49 (protease IV) family [Escherichia coli O157:H7 str. EC450... gi\|189359971, gi... - gi\|189359971\|gb\|EDU78390.1\| peptidase, S49 (protease IV) family [Escherichia coli O157:H7 str. EC448... gi\|187769295, gi... - gi\|187769295\|gb\|EDU33139.1\| peptidase, S49 (protease IV) family [Escherichia coli O157:H7 str. EC419... gi\|188014793, gi... - gi\|188014793\|gb\|EDU52915.1\| peptidase, S49 (protease IV) family [Escherichia coli O157:H7 str. EC411... gi\|254592260, gi... - gi\|254792860\|ref\|YP_003077697.1\| predicted inner membrane peptidase [Escherichia coli O157:H7 str. T... gi\|15831098, gi\|... - gi\|15831098\|ref\|NP_309871.1\| putative protease [Escherichia coli O157:H7], gi\|13361309\|dbj\|BAB35267.... gi\|217317556, gi... - gi\|217329117\|ref\|ZP_03445197.1\| peptidase, S49 (protease IV) family [Escherichia coli O157:H7 str. T... gi\|209771988, gi... - pir\|\|C85760 probable proteinase sohB [imported] - Escherichia coli (strain O157:H7, substrain EDL93... gi\|15801907, gi\|... - gi\|15801907\|ref\|NP_287927.1\| putative periplasmic protease [Escherichia coli O157:H7 EDL933], gi\|125... gi\|15831098, gi\|... - gi\|15831098\|ref\|NP_309871.1\| putative periplasmic protease [Escherichia coli O157:H7 str. Sakai], gi... gi\|208811051, gi... - gi\|208811051\|ref\|ZP_03252884.1\| peptidase, S49 (protease IV) family [Escherichia coli O157:H7 str. E... gi\|208815761, gi... - gi\|208815761\|ref\|ZP_03256940.1\| peptidase, S49 (protease IV) family [Escherichia coli O157:H7 str. E... gi\|208739729, gi... - gi\|208819606\|ref\|ZP_03259926.1\| peptidase, S49 (protease IV) family [Escherichia coli O157:H7 str. E... gi\|209158850, gi... - gi\|209397450\|ref\|YP_002270326.1\| peptidase, S49 (protease IV) family [Escherichia coli O157:H7 str. ... gi\|188998931, gi... - gi\|188998931\|gb\|EDU67917.1\| peptidase, S49 (protease IV) family [Escherichia coli O157:H7 str. EC407... gi\|168790072, gi... - gi\|189370448\|gb\|EDU88864.1\| peptidase, S49 (protease IV) family [Escherichia coli O157:H7 str. EC869... gi\|168801619, gi... - gi\|189376289\|gb\|EDU94705.1\| peptidase, S49 (protease IV) family [Escherichia coli O157:H7 str. EC508... gi\|195939206 - gi\|195939206\|ref\|ZP_03084588.1\| putative periplasmic protease [Escherichia coli O157:H7 str. EC4024]	2.0E-73	[1..348]	[1..349]

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Predicted Domain #1

Region A:
Residues: [1-93]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MELISLYGLF LAKVVTIVVA IGAVVLLVVS QGMRRQGQRG ELNLVDLGEQ YKETQREMRL  60
   61 ARMSHAEQKA WVKEFKKQEK ADQKLKKQRA KSG

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	19.173925
Match:	PF08496.1
Description:	No description for PF08496.1 was found.

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [94-348]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AVAAVKPCLY VIDFKGSIGA QEVSSLREEI SAILAVATAQ DEVLLRLESP GGVVHGYGLA  60
   61 ASQLARLRQR GIRLTVAVDK VAASGGYMMA CVADRIICAP FAIIGSIGVV AQIPNFHRLL 120
  121 KKNDIDVELH TAGEFKRTLT LFGENTEQGR EKFREDLNET HLLFKQFVQQ QRPSLDIDAV 180
  181 ATGEHWFGTQ AKEKGLVDAI GTSDDLLIAE MDNHEVIGVR YSHRKRLIER FMGSATESVD 240
  241 SLLLRWWQRG EKPLL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	43.0
Match:	1tyfA
Description:	Clp protease, ClpP subunit
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	1.83198156728699	bayes_pls_golite062009
hydrolase activity	0.0572242329620312	bayes_pls_golite062009
peptidase activity	0.0169889411806907	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: