YRC Public Data Repository - Protein Structure Prediction

Protein:	PBP4_ECOLI
Organism:	Escherichia coli
Length:	477 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 PBP4_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|49610168, gi\|... - gi\|50119642\|ref\|YP_048809.1\| D-alanyl-D-alanine carboxypeptidase/endopeptidase [Pectobacterium atros...	351.0	[0..1]	[477..1]
gi\|227970 - gi\|227970\|prf\|\|1714241A penicillin-binding protein 4	347.0	[0..1]	[477..1]
gi\|75187988, gi\|... - gi\|75187988\|ref\|ZP_00701255.1\| COG2027: D-alanyl-D-alanine carboxypeptidase (penicillin-binding prot...	347.0	[0..1]	[477..1]
gi\|75254890 - gi\|75254890\|ref\|ZP_00726860.1\| COG2027: D-alanyl-D-alanine carboxypeptidase (penicillin-binding prot... gi\|187427587, gi... - gi\|187730595\|ref\|YP_001881903.1\| D-alanyl-D-alanine carboxypeptidase/D-alanyl-D-alanine-endopeptidas... gi\|218696887, gi... - gi\|218696887\|ref\|YP_002404554.1\| D-alanyl-D-alanine carboxypeptidase/endopeptidase [Escherichia coli... gi\|209913916, gi... - gi\|209920657\|ref\|YP_002294741.1\| D-alanyl-D-alanine carboxypeptidase/endopeptidase [Escherichia coli... gi\|218362520, gi... - gi\|218555752\|ref\|YP_002388665.1\| D-alanyl-D-alanine carboxypeptidase/endopeptidase [Escherichia coli...	347.0	[0..1]	[477..1]
gi\|191174485, gi... - gi\|191174485\|ref\|ZP_03035985.1\| D-alanyl-D-alanine carboxypeptidase/D-alanyl-D-alanine-endopeptidase... gi\|110345014, gi... - gi\|110643422\|ref\|YP_671152.1\| D-alanyl-D-alanine carboxypeptidase/endopeptidase [Escherichia coli 53...	347.0	[0..1]	[477..1]
gi\|82545580, gi\|... - gi\|82545580\|ref\|YP_409527.1\| D-alanyl-D-alanine carboxypeptidase/endopeptidase [Shigella boydii Sb22...	347.0	[0..1]	[477..1]
gi\|157162665, gi... - gi\|157162665\|ref\|YP_001459983.1\| D-alanyl-D-alanine carboxypeptidase/endopeptidase [Escherichia coli... gi\|73857196, gi\|... - gi\|74313719\|ref\|YP_312138.1\| D-alanyl-D-alanine carboxypeptidase/endopeptidase [Shigella sonnei Ss04... gi\|170018568, gi... - gi\|170018568\|ref\|YP_001723522.1\| D-alanyl-D-alanine carboxypeptidase/endopeptidase [Escherichia coli... gi\|124528461, gi... - gi\|124528461\|ref\|ZP_01699750.1\| D-alanyl-D-alanine carboxypeptidase/D-alanyl-D-alanine-endopeptidase...	347.0	[0..1]	[477..1]
gi\|194430222, gi... - gi\|75208506\|ref\|ZP_00708826.1\| COG2027: D-alanyl-D-alanine carboxypeptidase (penicillin-binding prot...	346.0	[0..1]	[477..1]
gi\|227887903, gi... - gi\|227887903\|ref\|ZP_04005708.1\| D-alanyl-D-alanine carboxypeptidase/endopeptidase [Escherichia coli ... gi\|26249765, gi\|... - gi\|26249765\|ref\|NP_755805.1\| D-alanyl-D-alanine carboxypeptidase/endopeptidase [Escherichia coli CFT...	346.0	[0..1]	[477..1]
gi\|24053654, gi\|... - gi\|24114471\|ref\|NP_708981.1\| D-alanyl-D-alanine carboxypeptidase/endopeptidase [Shigella flexneri 2a... gi\|30064520, gi\|... - gi\|30064520\|ref\|NP_838691.1\| D-alanyl-D-alanine carboxypeptidase/endopeptidase [Shigella flexneri 2a... gi\|110616596, gi... - gi\|110807048\|ref\|YP_690568.1\| D-alanyl-D-alanine carboxypeptidase/endopeptidase [Shigella flexneri 5...	346.0	[0..1]	[477..1]

Back

Predicted Domain #1

Region A:
Residues: [1-477]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRFSRFIIGL TSCIAFSVQA ANVDEYITQL PAGANLALMV QKVGASAPAI DYHSQQMALP  60
   61 ASTQKVITAL AALIQLGPDF RFTTTLETKG NVENGVLKGD LVARFGADPT LKRQDIRNMV 120
  121 ATLKKSGVNQ IDGNVLIDTS IFASHDKAPG WPWNDMTQCF SAPPAAAIVD RNCFSVSLYS 180
  181 APKPGDMAFI RVASYYPVTM FSQVRTLPRG SAEAQYCELD VVPGDLNRFT LTGCLPQRSE 240
  241 PLPLAFAVQD GASYAGAILK DELKQAGITW SGTLLRQTQV NEPGTVVASK QSAPLHDLLK 300
  301 IMLKKSDNMI ADTVFRMIGH ARFNVPGTWR AGSDAVRQIL RQQAGVDIGN TIIADGSGLS 360
  361 RHNLIAPATM MQVLQYIAQH DNELNFISML PLAGYDGSLQ YRAGLHQAGV DGKVSAKTGS 420
  421 LQGVYNLAGF ITTASGQRMA FVQYLSGYAV EPADQRNRRI PLVRFESRLY KDIYQNN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	88.522879
Match:	2ex2A
Description:	No description for 2ex2A was found.

Predicted functions:

Term	Confidence	Notes
hydrolase activity	3.49880252911035	bayes_pls_golite062009
serine-type D-Ala-D-Ala carboxypeptidase activity	3.12650314537616	bayes_pls_golite062009
penicillin binding	2.89507018520983	bayes_pls_golite062009
serine-type carboxypeptidase activity	2.70174066798582	bayes_pls_golite062009
serine-type exopeptidase activity	2.69091897402517	bayes_pls_golite062009
drug binding	2.27792716125407	bayes_pls_golite062009
peptidase activity	2.02492099567377	bayes_pls_golite062009
carboxypeptidase activity	1.96547160092829	bayes_pls_golite062009
catalytic activity	1.85492008367309	bayes_pls_golite062009
peptidase activity, acting on L-amino acid peptides	1.82206884632324	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides	1.13698125224034	bayes_pls_golite062009
binding	1.11566650386305	bayes_pls_golite062009
serine hydrolase activity	0.402878339821269	bayes_pls_golite062009
serine-type peptidase activity	0.392678049813626	bayes_pls_golite062009
exopeptidase activity	0.150639262435765	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: