YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|218769943, gi...
Organism:	Pseudomonas aeruginosa LESB58
Length:	386 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|218769943, gi....

Description	E-value	Query Range	Subject Range
gi\|148549880, gi... - gi\|82738224\|ref\|ZP_00901061.1\| D-alanyl-D-alanine carboxypeptidase [Pseudomonas putida F1], gi\|82714...	0.0	[1..386]	[18..403]
gi\|24986562, gi\|... - gi\|26991483\|ref\|NP_746908.1\| Serine-type D-Ala-D-Ala carboxypeptidase [Pseudomonas putida KT2440], g...	0.0	[1..386]	[1..386]
gi\|104783763, gi... - gi\|95112750\|emb\|CAK17478.1\| D-ala-D-ala-carboxypeptidase; penicillin-binding protein 5 (precursor) [... gi\|95112750 - gi\|95112750\|emb\|CAK17478.1\| D-ala-D-ala-carboxypeptidase; penicillin-binding protein 5 (precursor) [...	0.0	[1..386]	[1..386]
tr\|Q87VW4\|Q87VW4... - D-alanyl-D-alanine carboxypeptidase OS=Pseudomonas syringae pv. tomato (strain DC3000) GN=PSPTO_4821... gi\|28871936, gi\|... - gi\|28871936\|ref\|NP_794555.1\| D-alanyl-D-alanine carboxypeptidase [Pseudomonas syringae pv. tomato st... gi\|213927387, gi... - gi\|213968044\|ref\|ZP_03396190.1\| D-alanyl-D-alanine carboxypeptidase [Pseudomonas syringae pv. tomato...	0.0	[1..386]	[1..386]
gi\|71557111, gi\|... - gi\|71736558\|ref\|YP_276518.1\| D-alanyl-D-alanine carboxypeptidase [Pseudomonas syringae pv. phaseolic...	0.0	[1..386]	[10..395]
gi\|66047588, gi\|... - gi\|66047588\|ref\|YP_237429.1\| Serine-type D-Ala-D-Ala carboxypeptidase [Pseudomonas syringae pv. syri...	0.0	[1..386]	[10..395]
gi\|68347052, gi\|... - gi\|70732753\|ref\|YP_262516.1\| D-alanyl-D-alanine carboxypeptidase [Pseudomonas fluorescens Pf-5], gi\|...	0.0	[1..386]	[1..385]
gi\|84319218 - gi\|84319218\|ref\|ZP_00967619.1\| COG1686: D-alanyl-D-alanine carboxypeptidase [Pseudomonas aeruginosa ... gi\|46164608 - gi\|46164608\|ref\|ZP_00137438.2\| COG1686: D-alanyl-D-alanine carboxypeptidase [Pseudomonas aeruginosa ... gi\|84325131 - gi\|84325131\|ref\|ZP_00973171.1\| COG1686: D-alanyl-D-alanine carboxypeptidase [Pseudomonas aeruginosa ... gi\|107103514 - gi\|107103514\|ref\|ZP_01367432.1\| hypothetical protein PaerPA_01004584 [Pseudomonas aeruginosa PACS2]	0.0	[28..386]	[1..359]
gi\|94417068 - gi\|94417068\|ref\|ZP_01296890.1\| hypothetical protein PaerP_01001264 [Pseudomonas aeruginosa PA7]	0.0	[28..386]	[1..359]
gi\|77461187, gi\|... - gi\|77461187\|ref\|YP_350694.1\| penicillin-binding protein 6 [Pseudomonas fluorescens Pf0-1], gi\|773851...	0.0	[1..386]	[1..385]

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Predicted Domain #1

Region A:
Residues: [1-386]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNITTIAKRL SLLVLFIAPT AGWAAESMVP APPQLAAKSY VLMDGESGQV LVENNGDQRL  60
   61 PPASLTKLMT AYIATKEIEA GRIGENDLVT VSEHAWRTGG SRMFIKVGSQ VSVSDLLHGI 120
  121 IIQSGNDASV ALAEHIAGSE DAFADMMNTT AQKLGLTNSH FMDATGLPNP DHYSSARDMA 180
  181 VLARAIIYGE PSHYAIYAQK EFLWNNIKQP NRNLLLWRDK TVDGLKTGHT DEAGYCLVAS 240
  241 AVRDGQRMIA VVFGTNSEQA RAAETQKLLT YGFRFFESRN FYKKGTELTK GLVWKGSEHE 300
  301 VKAGLAEDLT MTLPRGQMQK LQASMVLEPQ LMAPIQQGQV IGKVEVKLDD KVIRSADLVA 360
  361 LNAVEEGGFF RRLWDSIRLF FYGLFN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	97.69897
Match:	1nzoA
Description:	The crystal structure of wild type penicillin-binding protein 5 from E. coli
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
drug binding	3.43867028493374	bayes_pls_golite062009
peptidase activity	3.14503902416546	bayes_pls_golite062009
serine-type D-Ala-D-Ala carboxypeptidase activity	3.12650314537616	bayes_pls_golite062009
penicillin binding	2.89507018520983	bayes_pls_golite062009
hydrolase activity	2.80171403488139	bayes_pls_golite062009
peptidase activity, acting on L-amino acid peptides	2.78480589579188	bayes_pls_golite062009
serine-type carboxypeptidase activity	2.70174066798582	bayes_pls_golite062009
serine-type exopeptidase activity	2.69091897402517	bayes_pls_golite062009
carboxypeptidase activity	1.96547160092829	bayes_pls_golite062009
catalytic activity	1.85492008367309	bayes_pls_golite062009
serine hydrolase activity	1.69122379434116	bayes_pls_golite062009
serine-type peptidase activity	1.6885532900392	bayes_pls_golite062009
exopeptidase activity	1.24775184094433	bayes_pls_golite062009
binding	1.11566650386305	bayes_pls_golite062009
protein binding	0.0666688846338231	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: