YRC Public Data Repository - Protein Structure Prediction

Protein:	PMBA_ECOLI
Organism:	Escherichia coli
Length:	450 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 PMBA_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|74314712, gi\|... - gi\|74314712\|ref\|YP_313131.1\| peptidase PmbA [Shigella sonnei Ss046], gi\|73858189\|gb\|AAZ90896.1\| PmbB...	523.0	[0..1]	[450..1]
gi\|253976066, gi... - gi\|254164163\|ref\|YP_003047273.1\| predicted peptidase required for the maturation and secretion of th... gi\|253775140, gi... - gi\|254290913\|ref\|YP_003056663.1\| predicted peptidase required for the maturation and secretion of th... gi\|75258337, gi\|... - gi\|75258337\|ref\|ZP_00729768.1\| COG0312: Predicted Zn-dependent proteases and their inactivated homol... gi\|75212210 - gi\|75212210\|ref\|ZP_00712250.1\| COG0312: Predicted Zn-dependent proteases and their inactivated homol... gi\|83586736 - gi\|83586736\|ref\|ZP_00925368.1\| COG0312: Predicted Zn-dependent proteases and their inactivated homol... gi\|251787484, gi... - gi\|251787484\|ref\|YP_003001788.1\| hypothetical protein B21_04067 [Escherichia coli BL21], gi\|24237975...	523.0	[0..1]	[450..1]
gi\|83569392 - gi\|83569392\|ref\|ZP_00920846.1\| COG0312: Predicted Zn-dependent proteases and their inactivated homol...	522.0	[0..1]	[450..1]
gi\|24054774, gi\|... - gi\|24115456\|ref\|NP_709966.1\| peptidase PmbA [Shigella flexneri 2a str. 301], gi\|24054774\|gb\|AAN45673...	521.0	[0..1]	[450..1]
gi\|191167268, gi... - gi\|75229606\|ref\|ZP_00716145.1\| COG0312: Predicted Zn-dependent proteases and their inactivated homol... gi\|124528297, gi... - gi\|124528297\|ref\|ZP_01699621.1\| peptidase U62, modulator of DNA gyrase [Escherichia coli B], gi\|1245... gi\|169756682, gi... - gi\|170021754\|ref\|YP_001726708.1\| peptidase PmbA [Escherichia coli ATCC 8739], gi\|169756682\|gb\|ACA793... gi\|75235456, gi\|... - gi\|75235456\|ref\|ZP_00719664.1\| COG0312: Predicted Zn-dependent proteases and their inactivated homol...	521.0	[0..1]	[450..1]
gi\|110644596, gi... - gi\|110644596\|ref\|YP_672326.1\| peptidase PmbA [Escherichia coli 536], gi\|110346188\|gb\|ABG72425.1\| Pmb... gi\|75242377 - gi\|75242377\|ref\|ZP_00726139.1\| COG0312: Predicted Zn-dependent proteases and their inactivated homol...	521.0	[0..1]	[450..1]
gi\|82779296, gi\|... - gi\|82779296\|ref\|YP_405645.1\| peptidase PmbA [Shigella dysenteriae Sd197], gi\|81243444\|gb\|ABB64154.1\|...	521.0	[0..1]	[450..1]
gi\|82546518, gi\|... - gi\|82546518\|ref\|YP_410465.1\| peptidase PmbA [Shigella boydii Sb227], gi\|81247929\|gb\|ABB68637.1\| PmbA...	521.0	[0..1]	[450..1]
gi\|30043741, gi\|... - gi\|30065477\|ref\|NP_839648.1\| peptidase PmbA [Shigella flexneri 2a str. 2457T], gi\|30043741\|gb\|AAP194...	520.0	[0..1]	[450..1]
gi\|75515472 - gi\|75515472\|ref\|ZP_00737629.1\| COG0312: Predicted Zn-dependent proteases and their inactivated homol...	520.0	[0..1]	[450..1]

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Predicted Domain #1

Region A:
Residues: [1-450]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MALAMKVISQ VEAQRKILEE AVSTALELAS GKSDGAEVAV SKTTGISVST RYGEVENVEF  60
   61 NSDGALGITV YHQNRKGSAS STDLSPQAIA RTVQAALDIA RYTSPDPCAG VADKELLAFD 120
  121 APDLDLFHPA EVSPDEAIEL AARAEQAALQ ADKRITNTEG GSFNSHYGVK VFGNSHGMLQ 180
  181 GYCSTRHSLS SCVIAEENGD MERDYAYTIG RAMSDLQTPE WVGADCARRT LSRLSPRKLS 240
  241 TMKAPVIFAN EVATGLFGHL VGAIAGGSVY RKSTFLLDSL GKQILPDWLT IEEHPHLLKG 300
  301 LASTPFDSEG VRTERRDIIK DGILTQWLLT SYSARKLGLK STGHAGGIHN WRIAGQGLSF 360
  361 EQMLKEMGTG LVVTELMGQG VSAITGDYSR GAAGFWVENG EIQYPVSEIT IAGNLKDMWR 420
  421 NIVTVGNDIE TRSNIQCGSV LLPEMKIAGQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	96.154902
Match:	1vl4A
Description:	Crystal structure of PMBA-related protein (TM0727) from Thermotoga maritima at 1.95 A resolution
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	0.844669254385544	bayes_pls_golite062009
catalytic activity	0.55839241827268	bayes_pls_golite062009
transcription repressor activity	0.0121152486203551	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: