YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|30040983, gi\|...
Organism:	Shigella flexneri 2a str. 2457T
Length:	360 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|30040983, gi|....

Description	E-value	Query Range	Subject Range
gi\|32033818 - gi\|32033818\|ref\|ZP_00134103.1\| COG0216: Protein chain release factor A [Actinobacillus pleuropneumon...	456.0	[0..1]	[359..1]
RF1_PASMU - Peptide chain release factor 1 OS=Pasteurella multocida (strain Pm70) GN=prfA PE=3 SV=1 RF1_PASMU - Peptide chain release factor 1 OS=Pasteurella multocida GN=prfA PE=3 SV=1	454.0	[0..1]	[359..1]
gi\|68058123, gi\|... - gi\|68249924\|ref\|YP_249036.1\| peptide chain release factor 1 [Haemophilus influenzae 86-028NP], gi\|68...	453.0	[0..1]	[359..2]
RF1_HAES1 - Peptide chain release factor 1 OS=Haemophilus somnus (strain 129Pt) GN=prfA PE=3 SV=1	453.0	[0..1]	[359..1]
RF1_HAEIN - Peptide chain release factor 1 OS=Haemophilus influenzae GN=prfA PE=3 SV=2 RF1_HAEIN - Peptide chain release factor 1 OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)...	453.0	[0..1]	[359..1]
RF1_HAEIN - (P43917) Peptide chain release factor 1 (RF-1) gi\|148716243, gi... - gi\|148826083\|ref\|YP_001290836.1\| peptide chain release factor 1 [Haemophilus influenzae PittEE], gi\|... gi\|144982593, gi... - gi\|145642039\|ref\|ZP_01797610.1\| peptide chain release factor 1 [Haemophilus influenzae R3021], gi\|14... gi\|145637543, gi... - gi\|145637543\|ref\|ZP_01793200.1\| peptide chain release factor 1 [Haemophilus influenzae PittHH], gi\|1... gi\|145631803, gi... - gi\|145642039\|ref\|ZP_01797610.1\| peptide chain release factor 1 [Haemophilus influenzae R3021], gi\|14... gi\|16273461, gi\|... - gi\|16273461\|ref\|NP_439710.1\| peptide chain release factor 1 [Haemophilus influenzae Rd KW20], gi\|157... gi\|229809952, gi... - gi\|229847123\|ref\|ZP_04467228.1\| peptide chain release factor 1 [Haemophilus influenzae 7P49H1], gi\|2... gi\|229844233, gi... - gi\|229844233\|ref\|ZP_04464374.1\| peptide chain release factor 1 [Haemophilus influenzae 6P18H1], gi\|2...	453.0	[0..1]	[359..2]
gi\|53732835 - gi\|53732835\|ref\|ZP_00155134.2\| COG0216: Protein chain release factor A [Haemophilus influenzae R2846...	451.0	[0..1]	[359..2]
RF1_HISS2 - Peptide chain release factor 1 OS=Histophilus somni (strain 2336) GN=prfA PE=3 SV=1	449.0	[0..1]	[359..1]
RF1_MANSM - Peptide chain release factor 1 OS=Mannheimia succiniciproducens (strain MBEL55E) GN=prfA PE=3 SV=1	449.0	[0..1]	[359..1]
gi\|46133404 - gi\|46133404\|ref\|ZP_00157143.2\| COG0216: Protein chain release factor A [Haemophilus influenzae R2866...	448.0	[0..1]	[359..1]

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Predicted Domain #1

Region A:
Residues: [1-360]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKPSIVAKLE ALHERHEEVQ ALLGDAQTIA DQERFRALSR EYAQLSDVSR CFTDWQQVQE  60
   61 DIETAQMMLD DPEMREMAQD ELREAKEKSE QLEQQLQVLL LPKDPDDERN AFLEVRAGTG 120
  121 GDEAALFAGD LFRMYSRYAE ARRWRVEIMS ASEGEHGGYK EIIAKISGDG VYGRLKFESG 180
  181 GHRVQRVPAT ESQGRIHTSA CTVAVMPELP DAELPDINPA DLRIDTFRSS GAGGQHVNTT 240
  241 DSAIRITHLP TGIVVECQDE RSQHKNKAKA LSVLGARIHA AEMAKRQQAE ASTRRNLLGS 300
  301 GDRSDRNRTY NFPQGRVTDH RINLTLYRLD EVMEGKLDML IEPIIQEHQA DQLAALSEQE 360
  361

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	122.0
Match:	2b3tB
Description:	Molecular basis for bacterial class 1 release factor methylation by PrmC
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
translation release factor activity	8.81340749100602	bayes_pls_golite062009
translation termination factor activity	8.79662142368955	bayes_pls_golite062009
translation regulator activity	4.37724037539958	bayes_pls_golite062009
translation factor activity, nucleic acid binding	4.37180094464794	bayes_pls_golite062009
nucleic acid binding	3.32397225745616	bayes_pls_golite062009
binding	2.93072278766889	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: