YRC Public Data Repository - Protein Structure Prediction

Protein:	CSPB_ECOLI
Organism:	Escherichia coli
Length:	71 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 CSPB_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|116609147, gi... - gi\|66963407\|ref\|ZP_00410979.1\| Cold-shock protein, DNA-binding [Arthrobacter sp. FB24], gi\|66871067\|...	119.0	[0..4]	[70..1]
gi\|26987721, gi\|... - gi\|26987721\|ref\|NP_743146.1\| cold-shock domain-contain protein [Pseudomonas putida KT2440], gi\|24982...	118.0	[0..1]	[70..97]
gi\|23004357 - gi\|23004357\|ref\|ZP_00047730.1\| COG1278: Cold shock proteins [Magnetospirillum magnetotacticum MS-1]	117.0	[0..4]	[70..1]
gi\|88856605, gi\|... - gi\|88856605\|ref\|ZP_01131262.1\| cold shock protein [marine actinobacterium PHSC20C1], gi\|88814259\|gb\|...	117.0	[0..4]	[70..1]
gi\|34498661, gi\|... - gi\|34498661\|ref\|NP_902876.1\| cold shock transcription regulator protein [Chromobacterium violaceum A...	117.0	[0..4]	[70..44]
gi\|58581493, gi\|... - gi\|58581493\|ref\|YP_200509.1\| cold shock protein [Xanthomonas oryzae pv. oryzae KACC10331], gi\|584260...	117.0	[0..3]	[71..7]
gi\|209502114, gi... - gi\|209517460\|ref\|ZP_03266301.1\| cold-shock DNA-binding domain protein [Burkholderia sp. H160], gi\|20... gi\|91784982, gi\|... - gi\|91784982\|ref\|YP_560188.1\| cold-shock DNA-binding protein family protein [Burkholderia xenovorans ... gi\|187925141, gi... - gi\|187925141\|ref\|YP_001896783.1\| cold-shock DNA-binding domain protein [Burkholderia phytofirmans Ps...	117.0	[0..4]	[70..1]
gi\|349561 - gi\|349561\|gb\|AAB66357.1\| DNA-binding protein gi\|349561\|gb\|AAB... - DNA-binding protein	117.0	[0..1]	[70..1]
gi\|25029285, gi\|... - gi\|25029285\|ref\|NP_739339.1\| hypothetical protein CE2729 [Corynebacterium efficiens YS-314], gi\|2349...	117.0	[0..4]	[70..185]
gi\|114332012, gi... - gi\|114332012\|ref\|YP_748234.1\| cold-shock DNA-binding domain-containing protein [Nitrosomonas eutroph...	116.0	[0..4]	[70..1]

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Predicted Domain #1

Region A:
Residues: [1-71]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSNKMTGLVK WFNADKGFGF ISPVDGSKDV FVHFSAIQND NYRTLFEGQK VTFSIESGAK  60
   61 GPAAANVIIT D

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	25.221849
Match:	1mjcA
Description:	CRYSTAL STRUCTURE OF CSPA, THE MAJOR COLD SHOCK PROTEIN OF ESCHERICHIA COLI
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
nucleic acid binding	2.67999218416128	bayes_pls_golite062009
DNA binding	2.0554473444871	bayes_pls_golite062009
binding	1.49502978097244	bayes_pls_golite062009
transcription regulator activity	0.537716356194117	bayes_pls_golite062009
structural constituent of ribosome	0.0989196136046104	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: