YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|165912924, gi...
Organism:	Yersinia pestis biovar Orientalis str. IP275
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|165912924, gi....

Description	E-value	Query Range	Subject Range
gi\|21957067, gi\|... - gi\|22124296\|ref\|NP_667719.1\| porphobilinogen deaminase [Yersinia pestis KIM], gi\|21957067\|gb\|AAM8397... gi\|45437816, gi\|... - gi\|45442949\|ref\|NP_994488.1\| porphobilinogen deaminase [Yersinia pestis biovar Microtus str. 91001],...	0.0	[1..313]	[57..369]
HEM3_VIBVY - Porphobilinogen deaminase OS=Vibrio vulnificus (strain YJ016) GN=hemC PE=3 SV=1 HEM3_VIBVU - Porphobilinogen deaminase OS=Vibrio vulnificus GN=hemC PE=3 SV=1 HEM3_VIBVU - Porphobilinogen deaminase OS=Vibrio vulnificus (strain CMCP6) GN=hemC PE=3 SV=1	0.0	[3..310]	[4..311]
gi\|90324688, gi\|... - gi\|90414241\|ref\|ZP_01222221.1\| porphobilinogen deaminase [Photobacterium profundum 3TCK], gi\|9032468...	0.0	[1..307]	[32..338]
gi\|32033974 - gi\|32033974\|ref\|ZP_00134230.1\| COG0181: Porphobilinogen deaminase [Actinobacillus pleuropneumoniae s...	0.0	[2..310]	[6..314]
gi\|149747840, gi... - gi\|153838754\|ref\|ZP_01991421.1\| porphobilinogen deaminase [Vibrio parahaemolyticus AQ3810], gi\|14974... HEM3_VIBPA - Porphobilinogen deaminase OS=Vibrio parahaemolyticus GN=hemC PE=3 SV=1 HEM3_VIBPA - Porphobilinogen deaminase OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633) GN=hemC PE...	0.0	[2..311]	[3..312]
HEM3_YERPB - Porphobilinogen deaminase OS=Yersinia pseudotuberculosis serotype IB (strain PB1/+) GN=hemC PE=3 SV=... HEM3_YERPS - Porphobilinogen deaminase OS=Yersinia pseudotuberculosis serotype I (strain IP32953) GN=hemC PE=3 SV... HEM3_YERPS - Porphobilinogen deaminase OS=Yersinia pseudotuberculosis GN=hemC PE=3 SV=1	0.0	[1..313]	[1..313]
HEM3_YERPG - Porphobilinogen deaminase OS=Yersinia pestis bv. Antiqua (strain Angola) GN=hemC PE=3 SV=1	0.0	[1..313]	[1..313]
gi\|194438640, gi... - gi\|83585946\|ref\|ZP_00924585.1\| COG0181: Porphobilinogen deaminase [Escherichia coli 101-1], gi\|19443...	0.0	[1..312]	[6..318]
gi\|75512636 - gi\|75512636\|ref\|ZP_00735148.1\| COG0181: Porphobilinogen deaminase [Escherichia coli 53638]	0.0	[1..312]	[6..318]
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...	0.0	[1..312]	[8..320]

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Predicted Domain #1

Region A:
Residues: [1-313]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLDKIIRIAT RQSPLALWQA HYVQHLLQAN HPGLQIELVP MVTRGDIILD TPLAKVGGKG  60
   61 LFVKELELAL LDGRADIAVH SMKDVPIAFP EGLGLVTICE REDPRDAFVS SHYAHLDDLP 120
  121 AGSVVGTSSL RRQCQLRERR PDLIIRDLRG NVGTRLAKLD NGDYQAIILA VAGLKRLGLE 180
  181 NRIRYAMSAE ESLPAVGQGA VGIECRLDDD HTRQLLAPLN HRHTELRVCA ERAMNIRLEG 240
  241 GCQVPIGSYA ELEGDTLWLR ALVGAPDGSQ MIRGERRGPA AEAEQMGIEL ADELLSRGAR 300
  301 EILAAVYLDN PAR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	133.0
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: