YRC Public Data Repository - Protein Structure Prediction

Protein:	DDPX_ECOLI
Organism:	Escherichia coli
Length:	193 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 DDPX_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|168788452, gi... - gi\|189371733\|gb\|EDU90149.1\| D-alanyl-D-alanine dipeptidase [Escherichia coli O157:H7 str. EC869], gi... gi\|195936981 - gi\|195936981\|ref\|ZP_03082363.1\| D-alanyl-D-alanine dipeptidase [Escherichia coli O157:H7 str. EC4024... gi\|25349844, gi\|... - pir\|\|E85727 hypothetical protein Z2222 [imported] - Escherichia coli (strain O157:H7, substrain EDL... gi\|208724526, gi... - gi\|208811020\|ref\|ZP_03252853.1\| D-alanyl-D-alanine dipeptidase [Escherichia coli O157:H7 str. EC4206... gi\|254793035, gi... - gi\|254793035\|ref\|YP_003077872.1\| D-ala-D-ala dipeptidase, Zn-dependent [Escherichia coli O157:H7 str... gi\|208732352, gi... - gi\|208815704\|ref\|ZP_03256883.1\| D-alanyl-D-alanine dipeptidase [Escherichia coli O157:H7 str. EC4045... gi\|15801649, gi\|... - gi\|15801649\|ref\|NP_287667.1\| D-alanyl-D-alanine dipeptidase [Escherichia coli O157:H7 EDL933], gi\|12... gi\|208741832, gi... - gi\|208821709\|ref\|ZP_03262029.1\| D-alanyl-D-alanine dipeptidase [Escherichia coli O157:H7 str. EC4042... gi\|13361558, gi\|... - gi\|15831346\|ref\|NP_310119.1\| hypothetical protein ECs2092 [Escherichia coli O157:H7], gi\|13361558\|db... gi\|209161969, gi... - gi\|209400569\|ref\|YP_002270490.1\| D-alanyl-D-alanine dipeptidase [Escherichia coli O157:H7 str. EC411... gi\|217317501, gi... - gi\|217329062\|ref\|ZP_03445142.1\| D-alanyl-D-alanine dipeptidase [Escherichia coli O157:H7 str. TW1458... gi\|157156046, gi... - gi\|75190537\|ref\|ZP_00703804.1\| COG2173: D-alanyl-D-alanine dipeptidase [Escherichia coli E24377A], g... gi\|75212859, gi\|... - gi\|75212859\|ref\|ZP_00712857.1\| COG2173: D-alanyl-D-alanine dipeptidase [Escherichia coli B171], gi\|1... gi\|168748906, gi... - gi\|188016689\|gb\|EDU54811.1\| D-alanyl-D-alanine dipeptidase [Escherichia coli O157:H7 str. EC4113], g... gi\|75257754, gi\|... - gi\|75257754\|ref\|ZP_00729239.1\| COG2173: D-alanyl-D-alanine dipeptidase [Escherichia coli E22], gi\|19... gi\|189356691, gi... - gi\|189356691\|gb\|EDU75110.1\| D-alanyl-D-alanine dipeptidase [Escherichia coli O157:H7 str. EC4401], g... gi\|82544062, gi\|... - gi\|82544062\|ref\|YP_408009.1\| D-alanyl-D-alanine dipeptidase [Shigella boydii Sb227], gi\|81245473\|gb\|... gi\|168761415, gi... - gi\|189368191\|gb\|EDU86607.1\| D-alanyl-D-alanine dipeptidase [Escherichia coli O157:H7 str. EC4501], g... gi\|189361984, gi... - gi\|189361984\|gb\|EDU80403.1\| D-alanyl-D-alanine dipeptidase [Escherichia coli O157:H7 str. EC4486], g... gi\|187770134, gi... - gi\|187770134\|gb\|EDU33978.1\| D-alanyl-D-alanine dipeptidase [Escherichia coli O157:H7 str. EC4196], g... gi\|189000891, gi... - gi\|189000891\|gb\|EDU69877.1\| D-alanyl-D-alanine dipeptidase [Escherichia coli O157:H7 str. EC4076], g... gi\|13361558, gi\|... - gi\|15831346\|ref\|NP_310119.1\| D-alanyl-D-alanine dipeptidase [Escherichia coli O157:H7 str. Sakai], g...	217.0	[0..1]	[193..1]
gi\|192959669, gi... - gi\|75239893\|ref\|ZP_00723854.1\| COG2173: D-alanyl-D-alanine dipeptidase [Escherichia coli E110019], g...	216.0	[0..1]	[193..1]
gi\|157160964, gi... - gi\|75195589\|ref\|ZP_00705659.1\| COG2173: D-alanyl-D-alanine dipeptidase [Escherichia coli HS], gi\|157...	215.0	[0..1]	[193..1]
gi\|75178538, gi\|... - gi\|75178538\|ref\|ZP_00698584.1\| COG2173: D-alanyl-D-alanine dipeptidase [Shigella boydii BS512], gi\|1...	215.0	[0..1]	[193..1]
gi\|67784728, gi\|... - gi\|67917699\|ref\|ZP_00511304.1\| Peptidase M15D, vanX D-ala-D-ala dipeptidase [Chlorobium limicola DSM...	191.0	[0..2]	[182..29]
gi\|98661551 - gi\|98661551\|dbj\|GAA01402.1\| unnamed protein product [Pelotomaculum thermopropionicum SI]	191.0	[0..13]	[186..1]
gi\|83570871 - gi\|83570871\|ref\|ZP_00922313.1\| COG2173: D-alanyl-D-alanine dipeptidase [Shigella dysenteriae 1012]	188.0	[0..1]	[169..1]
gi\|67929497, gi\|... - gi\|67929497\|ref\|ZP_00522678.1\| Peptidase M15D, vanX D-ala-D-ala dipeptidase [Solibacter usitatus Ell...	183.0	[0..4]	[184..53]
gi\|134136950, gi... - gi\|67544644\|ref\|ZP_00422571.1\| Peptidase M15D, vanX D-ala-D-ala dipeptidase [Burkholderia vietnamien...	183.0	[0..3]	[182..2]
gi\|83718107, gi\|... - gi\|83718107\|ref\|YP_439637.1\| D-alanyl-D-alanine dipeptidase [Burkholderia thailandensis E264], gi\|83...	182.0	[0..1]	[182..1]

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Predicted Domain #1

Region A:
Residues: [1-193]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSDTTELVDL AVIFPDLEIE LKYACADNIT GKAIYQQARC LLHKDAITAL AKSISIAQLS  60
   61 GLQLVIYDAY RPQQAQAMLW QACPDPQYVV DVTVGSNHSR GTAIDLTLRD EHGNILDMGA 120
  121 GFDEMHERSH AYHPSVPPAA QRNRLLLNAI MTGGGFVGIS SEWWHFELPQ AASYPLLADQ 180
  181 FSCFISPGTQ HVS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	41.39794
Match:	1r44A
Description:	Crystal Structure of VanX
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
peptidase activity	1.20283356643652	bayes_pls_golite062009
peptidase activity, acting on L-amino acid peptides	0.99355902385308	bayes_pls_golite062009
catalytic activity	0.579809417316389	bayes_pls_golite062009
hydrolase activity	0.485676192452447	bayes_pls_golite062009
endopeptidase activity	0.272484728564512	bayes_pls_golite062009
binding	0.093442243900028	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: