YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|28373294\|pdb\|...
Organism:	Cryphonectria parasitica
Length:	313 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|28373294|pdb|....

Description	E-value	Query Range	Subject Range
gi\|194438640, gi... - gi\|83585946\|ref\|ZP_00924585.1\| COG0181: Porphobilinogen deaminase [Escherichia coli 101-1], gi\|19443...	481.0	[0..1]	[313..6]
gi\|75512636 - gi\|75512636\|ref\|ZP_00735148.1\| COG0181: Porphobilinogen deaminase [Escherichia coli 53638]	481.0	[0..1]	[313..6]
gi\|15833989, gi\|... - gi\|15833989\|ref\|NP_312762.1\| porphobilinogen deaminase [Escherichia coli O157:H7], gi\|13364211\|dbj\|B... gi\|209753312, gi... - gi\|25292187\|pir\|\|A86067 porphobilinogen deaminase [imported] - Escherichia coli (strain O157:H7, su... gi\|15804393, gi\|... - gi\|15804393\|ref\|NP_290433.1\| porphobilinogen deaminase [Escherichia coli O157:H7 EDL933], gi\|1251866... gi\|15833989, gi\|... - gi\|15833989\|ref\|NP_312762.1\| porphobilinogen deaminase [Escherichia coli O157:H7 str. Sakai], gi\|133...	481.0	[0..1]	[313..8]
gi\|192926638, gi... - gi\|75256271\|ref\|ZP_00727949.1\| COG0181: Porphobilinogen deaminase [Escherichia coli E22], gi\|1930656... gi\|75209568, gi\|... - gi\|75209568\|ref\|ZP_00709789.1\| COG0181: Porphobilinogen deaminase [Escherichia coli B171], gi\|194429...	481.0	[0..1]	[313..6]
gi\|194434066, gi... - gi\|83569364\|ref\|ZP_00920819.1\| COG0181: Porphobilinogen deaminase [Shigella dysenteriae 1012], gi\|19...	481.0	[0..1]	[313..6]
gi\|189376679, gi... - gi\|189376679\|gb\|EDU95095.1\| porphobilinogen deaminase [Escherichia coli O157:H7 str. EC508], gi\|1688... HEM3_ECO57 - Porphobilinogen deaminase OS=Escherichia coli O157:H7 GN=hemC PE=3 SV=2 HEM3_ECOLU - Porphobilinogen deaminase OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=hemC PE=3 SV=1 gi\|195938092 - gi\|195938092\|ref\|ZP_03083474.1\| porphobilinogen deaminase [Escherichia coli O157:H7 str. EC4024] gi\|254795801, gi... - gi\|254795801\|ref\|YP_003080638.1\| hydroxymethylbilane synthase [Escherichia coli O157:H7 str. TW14359...	480.0	[0..1]	[313..1]
gi\|81247567, gi\|... - gi\|82546156\|ref\|YP_410103.1\| porphobilinogen deaminase [Shigella boydii Sb227], gi\|81247567\|gb\|ABB68...	480.0	[0..1]	[313..8]
HEM3_ECO55 - Porphobilinogen deaminase OS=Escherichia coli (strain 55989 / EAEC) GN=hemC PE=3 SV=1 HEM3_ECO8A - Porphobilinogen deaminase OS=Escherichia coli O8 (strain IAI1) GN=hemC PE=3 SV=1 HEM3_ECOSE - Porphobilinogen deaminase OS=Escherichia coli (strain SE11) GN=hemC PE=3 SV=1 gi\|75188547 - gi\|75188547\|ref\|ZP_00701814.1\| COG0181: Porphobilinogen deaminase [Escherichia coli E24377A]	480.0	[0..1]	[313..1]
gi\|226902983, gi... - gi\|237702812\|ref\|ZP_04533293.1\| porphobilinogen deaminase [Escherichia sp. 3_2_53FAA], gi\|226902983\|... gi\|115515186, gi... - gi\|117626062\|ref\|YP_859385.1\| porphobilinogen deaminase [Escherichia coli APEC O1], gi\|115515186\|gb\|... gi\|91074900, gi\|... - gi\|91213326\|ref\|YP_543312.1\| porphobilinogen deaminase [Escherichia coli UTI89], gi\|91074900\|gb\|ABE0...	480.0	[0..1]	[313..8]
gi\|191174267, gi... - gi\|75236886\|ref\|ZP_00720955.1\| COG0181: Porphobilinogen deaminase [Escherichia coli F11], gi\|1911742...	480.0	[0..1]	[313..6]

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Predicted Domain #1

Region A:
Residues: [1-313]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLDNVLRIAT RQSPLALWQA HYVKDKLMAS HPGLVVELVP MVTRGDVILD TPLAKVGGKG  60
   61 LFVKELEVAL LENRADIAVH SMKDVPVEFP QGLGLVTICE REDPRDAFVS NNYDSLDALP 120
  121 AGSIVGTSSL RRQCQLAERR PDLIIRSLRG NVGTRLSKLD NGEYDAIILA VAGLKRLGLE 180
  181 SRIRAALPPE ISLPAVGQGA VGIECRLDDS RTRELLAALN HHETALRVTA ERAMNTRLEG 240
  241 GCQVPIGSYA ELIDGEIWLR ALVGAPDGSQ IIRGERRGAP QDAEQMGISL AEELLNNGAR 300
  301 EILAEVYNGD APA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	136.0
Match:	1ah5A
Description:	REDUCED FORM SELENOMETHIONINE-LABELLED HYDROXYMETHYLBILANE SYNTHASE DETERMINED BY MAD
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	3.22743737647397	bayes_pls_golite062009
DNA binding	2.86883926687971	bayes_pls_golite062009
transcription factor activity	2.7948293378347	bayes_pls_golite062009
nucleic acid binding	2.66637887681284	bayes_pls_golite062009
binding	2.63182502368928	bayes_pls_golite062009
hydroxymethylbilane synthase activity	2.03196514141563	bayes_pls_golite062009
catalytic activity	0.674312982669564	bayes_pls_golite062009
transcription activator activity	0.050905489018976	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: