YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|170022509, gi...
Organism:	Yersinia pseudotuberculosis YPIII
Length:	210 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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|170022509, gi....

Description	E-value	Query Range	Subject Range
gi\|119944168, gi... - gi\|119944168\|ref\|YP_941848.1\| cAMP-regulatory protein [Psychromonas ingrahamii 37], gi\|119862772\|gb\|...	5.0E-41	[8..210]	[8..212]
gi\|90311619, gi\|... - gi\|90407336\|ref\|ZP_01215522.1\| cAMP-regulatory protein [Psychromonas sp. CNPT3], gi\|90311619\|gb\|EAS3...	1.0E-40	[8..210]	[8..212]
gi\|83647329, gi\|... - gi\|83647329\|ref\|YP_435764.1\| cAMP-binding protein - catabolite gene activator and regulatory subunit...	2.0E-40	[1..208]	[7..210]
gi\|2190360 - gi\|2190360\|emb\|CAA61609.1\| CRP regulatory protein [Erwinia chrysanthemi]	3.0E-40	[8..210]	[8..210]
gi\|90325352, gi\|... - gi\|90413579\|ref\|ZP_01221569.1\| putative cyclic AMP receptor protein [Photobacterium profundum 3TCK],... gi\|54307514, gi\|... - gi\|54307514\|ref\|YP_128534.1\| cAMP-regulatory protein [Photobacterium profundum SS9], gi\|46911934\|emb...	5.0E-40	[8..210]	[8..210]
gi\|18144436, gi\|... - gi\|18309758\|ref\|NP_561692.1\| transcriptional regulator [Clostridium perfringens str. 13], gi\|1814443...	5.0E-40	[1..208]	[18..227]
gi\|90580842, gi\|... - gi\|90580842\|ref\|ZP_01236644.1\| putative cyclic AMP receptor protein [Vibrio angustum S14], gi\|904379... gi\|89075223, gi\|... - gi\|89075223\|ref\|ZP_01161654.1\| putative cyclic AMP receptor protein [Photobacterium sp. SKA34], gi\|8...	5.0E-40	[8..210]	[8..210]
gi\|121628687, gi... - gi\|75815099\|ref\|ZP_00745625.1\| COG0664: cAMP-binding proteins - catabolite gene activator and regula... gi\|183013030, gi... - gi\|183179619\|ref\|ZP_02957830.1\| cyclic AMP receptor protein [Vibrio cholerae MZO-3], gi\|183013030\|gb... gi\|9657203, gi\|1... - gi\|9657203\|gb\|AAF95755.1\| cyclic AMP receptor protein [Vibrio cholerae O1 biovar El Tor str. N16961]... gi\|11354846 - pir\|\|B82054 cyclic AMP receptor protein VC2614 [imported] - Vibrio cholerae (strain N16961 serogroup... gi\|75829433, gi\|... - gi\|75829433\|ref\|ZP_00758736.1\| COG0664: cAMP-binding proteins - catabolite gene activator and regula... gi\|75824031, gi\|... - gi\|75824031\|ref\|ZP_00753500.1\| COG0664: cAMP-binding proteins - catabolite gene activator and regula... gi\|125620683, gi... - gi\|75818372\|ref\|ZP_00748545.1\| COG0664: cAMP-binding proteins - catabolite gene activator and regula... gi\|254285808, gi... - gi\|254285808\|ref\|ZP_04960770.1\| cyclic AMP receptor protein [Vibrio cholerae AM-19226], gi\|197752565... gi\|148874455, gi... - gi\|153830056\|ref\|ZP_01982723.1\| cyclic AMP receptor protein [Vibrio cholerae 623-39], gi\|148874455\|g... gi\|149741293, gi... - gi\|153825147\|ref\|ZP_01977814.1\| cyclic AMP receptor protein [Vibrio cholerae MZO-2], gi\|149741293\|gb... gi\|227010618, gi... - gi\|227082730\|ref\|YP_002811281.1\| cyclic AMP receptor protein [Vibrio cholerae M66-2], gi\|227010618\|g... gi\|229507334, gi... - gi\|229507334\|ref\|ZP_04396839.1\| cyclic AMP receptor protein [Vibrio cholerae BX 330286], gi\|22935483... gi\|229513537, gi... - gi\|229513537\|ref\|ZP_04403001.1\| cyclic AMP receptor protein [Vibrio cholerae TMA 21], gi\|229349414\|g... gi\|229345930, gi... - gi\|229516867\|ref\|ZP_04406313.1\| cyclic AMP receptor protein [Vibrio cholerae RC9], gi\|229345930\|gb\|E... gi\|121588106, gi... - gi\|121588106\|ref\|ZP_01677854.1\| cyclic AMP receptor protein [Vibrio cholerae 2740-80], gi\|121547649\|... gi\|229341273, gi... - gi\|229521679\|ref\|ZP_04411097.1\| cyclic AMP receptor protein [Vibrio cholerae TM 11079-80], gi\|229341... gi\|153214888, gi... - gi\|153214888\|ref\|ZP_01949686.1\| cyclic AMP receptor protein [Vibrio cholerae 1587], gi\|124115047\|gb\|... gi\|229338171, gi... - gi\|229524590\|ref\|ZP_04413995.1\| cyclic AMP receptor protein [Vibrio cholerae bv. albensis VL426], gi... gi\|153223476, gi... - gi\|153223476\|ref\|ZP_01953899.1\| cyclic AMP receptor protein [Vibrio cholerae MAK 757], gi\|124118202\|... gi\|229335089, gi... - gi\|229527457\|ref\|ZP_04416849.1\| cyclic AMP receptor protein [Vibrio cholerae 12129(1)], gi\|229335089... gi\|126510426, gi... - gi\|153819045\|ref\|ZP_01971712.1\| cyclic AMP receptor protein [Vibrio cholerae NCTC 8457], gi\|12651042... gi\|229369495, gi... - gi\|229606840\|ref\|YP_002877488.1\| cyclic AMP receptor protein [Vibrio cholerae MJ-1236], gi\|229369495... gi\|229509742, gi... - gi\|229509742\|ref\|ZP_04399223.1\| cyclic AMP receptor protein [Vibrio cholerae B33], gi\|229353216\|gb\|E...	7.0E-40	[8..210]	[8..210]
gi\|27360862, gi\|... - gi\|27364717\|ref\|NP_760245.1\| cAMP-regulatory protein [Vibrio vulnificus CMCP6], gi\|27360862\|gb\|AAO09... gi\|37199985, gi\|... - gi\|37681234\|ref\|NP_935843.1\| cAMP-regulatory protein [Vibrio vulnificus YJ016], gi\|37199985\|dbj\|BAC9...	7.0E-40	[8..210]	[8..210]
gi\|227343661, gi... - gi\|227343661\|pdb\|2WC2\|B Chain B, Nmr Structure Of Catabolite Activator Protein In The Unliganded Sta... gi\|93278608, gi\|... - gi\|93278614\|pdb\|1ZRF\|B Chain B, 4 Crystal Structures Of Cap-Dna With All Base-Pair Substitutions At ...	7.0E-40	[8..210]	[7..209]

Back

Predicted Domain #1

Region A:
Residues: [1-210]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVLGKPQTDP TLEWFLSHCH IHKYPSKSTL IHQGEKAETL YYIVKGSVAV LIKDEEGKEM  60
   61 ILSYLNQGDF IGELGLFEEG QERSAWVRAK TACEVAEISY KKFRQLIQVN PDILMRLSSQ 120
  121 MANRLQITSE KVGNLAFLDV TGRIAQTLLN LAKQPDAMTH PDGMQIKITR QEIGQIVGCS 180
  181 RETVGRILKM LEDQNLISAH GKTIVVYGTR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	41.30103
Match:	1i5zA
Description:	Catabolite gene activator protein (CAP), C-terminal domain; Catabolite gene activator protein, N-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	1.00625548877971	bayes_pls_golite062009
binding	0.891226539481379	bayes_pls_golite062009
nucleic acid binding	0.59306579636505	bayes_pls_golite062009
sequence-specific DNA binding	0.53285802828572	bayes_pls_golite062009
DNA binding	0.47798148720399	bayes_pls_golite062009
transcription factor activity	0.159026311884013	bayes_pls_golite062009
protein binding	0.094542444184087	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: