YRC Public Data Repository - Protein Structure Prediction

Protein:	MURD_ECOLI
Organism:	Escherichia coli
Length:	438 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 MURD_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|42046 - gi\|42046\|emb\|CAA35611.1\| unnamed protein product [Escherichia coli]	372.0	[0..1]	[438..1]
gi\|77976102, gi\|... - gi\|77976102\|ref\|ZP_00831635.1\| COG0771: UDP-N-acetylmuramoylalanine-D-glutamate ligase [Yersinia fre...	368.0	[0..1]	[438..1]
gi\|238797708, gi... - gi\|77962096\|ref\|ZP_00825921.1\| COG0771: UDP-N-acetylmuramoylalanine-D-glutamate ligase [Yersinia mol...	366.0	[0..1]	[438..1]
gi\|75175645, gi\|... - gi\|75175645\|ref\|ZP_00695853.1\| COG0771: UDP-N-acetylmuramoylalanine-D-glutamate ligase [Shigella boy...	364.0	[0..1]	[438..1]
gi\|218350289, gi... - gi\|218693557\|ref\|YP_002401224.1\| UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase [Escherichia c... gi\|192926458, gi... - gi\|75256040\|ref\|ZP_00727753.1\| COG0771: UDP-N-acetylmuramoylalanine-D-glutamate ligase [Escherichia ... MURD_SHIBS - UDP-N-acetylmuramoylalanine--D-glutamate ligase OS=Shigella boydii serotype 4 (strain Sb227) GN=murD... gi\|194412594, gi... - gi\|75209391\|ref\|ZP_00709623.1\| COG0771: UDP-N-acetylmuramoylalanine-D-glutamate ligase [Escherichia ... gi\|75234325, gi\|... - gi\|75234325\|ref\|ZP_00718703.1\| COG0771: UDP-N-acetylmuramoylalanine-D-glutamate ligase [Escherichia ...	364.0	[0..1]	[438..1]
gi\|110613700, gi... - gi\|110804152\|ref\|YP_687672.1\| UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase [Shigella flexner...	364.0	[0..1]	[438..1]
gi\|191167754, gi... - gi\|75229063\|ref\|ZP_00715643.1\| COG0771: UDP-N-acetylmuramoylalanine-D-glutamate ligase [Escherichia ...	363.0	[0..1]	[438..1]
MURD_SHIFL - UDP-N-acetylmuramoylalanine--D-glutamate ligase OS=Shigella flexneri GN=murD PE=3 SV=1 gi\|24050291, gi\|... - gi\|24111533\|ref\|NP_706043.1\| UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase [Shigella flexneri...	363.0	[0..1]	[438..1]
gi\|218687965, gi... - gi\|218687965\|ref\|YP_002396177.1\| UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase [Escherichia c... MURD_ECOL6 - UDP-N-acetylmuramoylalanine--D-glutamate ligase OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 7009... gi\|227885007, gi... - gi\|227885007\|ref\|ZP_04002812.1\| UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase [Escherichia co... MURD_ECOL6 - UDP-N-acetylmuramoylalanine--D-glutamate ligase OS=Escherichia coli O6 GN=murD PE=3 SV=3	363.0	[0..1]	[438..1]
gi\|117622374, gi... - gi\|117622374\|ref\|YP_851287.1\| UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase [Escherichia coli... MURD_ECOUT - UDP-N-acetylmuramoylalanine--D-glutamate ligase OS=Escherichia coli (strain UTI89 / UPEC) GN=murD PE... MURD_ECOL5 - UDP-N-acetylmuramoylalanine--D-glutamate ligase OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) G... gi\|218363797, gi... - gi\|218557028\|ref\|YP_002389941.1\| UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase [Escherichia c... gi\|191174589, gi... - gi\|75236006\|ref\|ZP_00720142.1\| COG0771: UDP-N-acetylmuramoylalanine-D-glutamate ligase [Escherichia ... gi\|226902149, gi... - gi\|237704237\|ref\|ZP_04534718.1\| UDP-N-acetylmuramoylalanine-D-glutamate ligase [Escherichia sp. 3_2_...	363.0	[0..1]	[438..1]

Back

Predicted Domain #1

Region A:
Residues: [1-438]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MADYQGKNVV IIGLGLTGLS CVDFFLARGV TPRVMDTRMT PPGLDKLPEA VERHTGSLND  60
   61 EWLMAADLIV ASPGIALAHP SLSAAADAGI EIVGDIELFC REAQAPIVAI TGSNGKSTVT 120
  121 TLVGEMAKAA GVNVGVGGNI GLPALMLLDD ECELYVLELS SFQLETTSSL QAVAATILNV 180
  181 TEDHMDRYPF GLQQYRAAKL RIYENAKVCV VNADDALTMP IRGADERCVS FGVNMGDYHL 240
  241 NHQQGETWLR VKGEKVLNVK EMKLSGQHNY TNALAALALA DAAGLPRASS LKALTTFTGL 300
  301 PHRFEVVLEH NGVRWINDSK ATNVGSTEAA LNGLHVDGTL HLLLGGDGKS ADFSPLARYL 360
  361 NGDNVRLYCF GRDGAQLAAL RPEVAEQTET MEQAMRLLAP RVQPGDMVLL SPACASLDQF 420
  421 KNFEQRGNEF ARLAKELG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	101.0
Match:	2jffA
Description:	No description for 2jffA was found.

Predicted functions:

Term	Confidence	Notes
acid-amino acid ligase activity	4.86493054281191	bayes_pls_golite062009
catalytic activity	3.03081854683329	bayes_pls_golite062009
UDP-N-acetylmuramate-L-alanine ligase activity	2.62956763198067	bayes_pls_golite062009
UDP-N-acetylmuramoylalanyl-D-glutamate-2,6-diaminopimelate ligase activity	2.38541436302257	bayes_pls_golite062009
ligase activity	2.2556848409907	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	2.19206014001612	bayes_pls_golite062009
UDP-N-acetylmuramoylalanine-D-glutamate ligase activity	1.471039191151	bayes_pls_golite062009
UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity	1.15437935952018	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: