YRC Public Data Repository - Protein Structure Prediction

Protein:	CSPD_ECOLI
Organism:	Escherichia coli
Length:	74 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 CSPD_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|116651857, gi... - gi\|67661612\|ref\|ZP_00458904.1\| Cold-shock protein, DNA-binding [Burkholderia cenocepacia HI2424], gi...	116.0	[0..1]	[66..104]
gi\|34498661, gi\|... - gi\|34498661\|ref\|NP_902876.1\| cold shock transcription regulator protein [Chromobacterium violaceum A...	116.0	[0..1]	[67..44]
gi\|114332012, gi... - gi\|114332012\|ref\|YP_748234.1\| cold-shock DNA-binding domain-containing protein [Nitrosomonas eutroph...	115.0	[0..1]	[67..1]
gi\|23004357 - gi\|23004357\|ref\|ZP_00047730.1\| COG1278: Cold shock proteins [Magnetospirillum magnetotacticum MS-1]	115.0	[0..1]	[67..1]
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...	115.0	[0..1]	[67..1]
gi\|30249291, gi\|... - gi\|30249291\|ref\|NP_841361.1\| cold shock DNA-binding domain-containing protein [Nitrosomonas europaea...	114.0	[0..1]	[67..1]
CSPA_STIAU - Cold shock-like protein cspA OS=Stigmatella aurantiaca GN=cspA PE=3 SV=1 CSPA_STIAD - Cold shock-like protein CspA OS=Stigmatella aurantiaca (strain DW4/3-1) GN=cspA PE=3 SV=1	114.0	[0..1]	[68..1]
gi\|82703364, gi\|... - gi\|82703364\|ref\|YP_412930.1\| cold-shock DNA-binding domain-containing protein [Nitrosospira multifor...	114.0	[0..1]	[66..1]
gi\|116609147, gi... - gi\|66963407\|ref\|ZP_00410979.1\| Cold-shock protein, DNA-binding [Arthrobacter sp. FB24], gi\|66871067\|...	114.0	[0..1]	[67..1]
gi\|58581493, gi\|... - gi\|58581493\|ref\|YP_200509.1\| cold shock protein [Xanthomonas oryzae pv. oryzae KACC10331], gi\|584260...	114.0	[0..1]	[68..8]

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Predicted Domain #1

Region A:
Residues: [1-74]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEKGTVKWFN NAKGFGFICP EGGGEDIFAH YSTIQMDGYR TLKAGQSVQF DVHQGPKGNH  60
   61 ASVIVPVEVE AAVA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	23.045757
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: