YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|208967122
Organism:	synthetic construct
Length:	434 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|208967122.

Description	E-value	Query Range	Subject Range
PBX3_MOUSE - Pre-B-cell leukemia transcription factor 3 OS=Mus musculus GN=Pbx3 PE=2 SV=1 gi\|109469599, gi... - gi\|157822451\|ref\|NP_001101304.1\| pre-B-cell leukemia homeobox 3 [Rattus norvegicus], gi\|149038956\|gb...	1.0E-69	[1..434]	[1..434]
gi\|109469597 - gi\|109469597\|ref\|XP_001078726.1\| PREDICTED: similar to Pre-B-cell leukemia transcription factor 3 (H...	3.0E-68	[1..434]	[1..435]
gi\|71897289, gi\|... - gi\|71897289\|ref\|NP_001025849.1\| pre-B-cell leukemia transcription factor 3 [Gallus gallus], gi\|53129...	3.0E-68	[1..434]	[1..433]
gi\|55664587, gi\|... - gi\|57162413\|emb\|CAI40242.1\| pre-B-cell leukemia homeobox 3 [Homo sapiens], gi\|55664587\|emb\|CAH73696....	7.0E-66	[1..434]	[1..455]
gi\|74006104 - gi\|74006104\|ref\|XP_545786.2\| PREDICTED: similar to Pre-B-cell leukemia transcription factor-1 (Homeo...	6.0E-65	[1..434]	[1..430]
gi\|114626721 - gi\|114626721\|ref\|XP_520261.2\| PREDICTED: pre-B-cell leukemia transcription factor 3 isoform 3 [Pan t...	4.0E-63	[1..434]	[1..434]

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Predicted Domain #1

Region A:
Residues: [1-96]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDDQSRMLQT LAGVNLAGHS VQGGMALPPP PHGHEGADGD GRKQDIGDIL HQIMTITDQS  60
   61 LDEAQAKKHA LNCHRMKPAL FSVLCEIKEK TGLSIR

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [97-141]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GAQEEDPPDP QLMRLDNMLL AEGVSGPEKG GGSAAAAAAA AASGG

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.07
Match:	2h8rA
Description:	No description for 2h8rA was found.

Predicted Domain #3

Region A:
Residues: [142-228]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SSDNSIEHSD YRAKLTQIRQ IYHTELEKYE QACNEFTTHV MNLLREQSRT RPISPKEIER  60
   61 MVGIIHRKFS SIQMQLKQST CEAVMIL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	9.0
Match:	1pouA
Description:	THE SOLUTION STRUCTURE OF THE OCT-1 POU-SPECIFIC DOMAIN REVEALS A STRIKING SIMILARITY TO THE BACTERIOPHAGE LAMBDA REPRESSOR DNA-BINDING DOMAIN
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
DNA binding	5.51228466689923	bayes_pls_golite062009
nucleic acid binding	5.37468811865033	bayes_pls_golite062009
transcription regulator activity	5.05236457497789	bayes_pls_golite062009
transcription factor activity	3.89464979825638	bayes_pls_golite062009
binding	3.66501723413351	bayes_pls_golite062009
sequence-specific DNA binding	3.25218945600666	bayes_pls_golite062009
RNA polymerase II transcription factor activity	3.22754992035091	bayes_pls_golite062009
transcription activator activity	3.15886611325686	bayes_pls_golite062009
transcription repressor activity	1.75958281319075	bayes_pls_golite062009
protein binding	1.55649304400241	bayes_pls_golite062009
chromatin binding	1.2739759748489	bayes_pls_golite062009
transcription factor binding	1.02788976342343	bayes_pls_golite062009
specific RNA polymerase II transcription factor activity	0.92393807212912	bayes_pls_golite062009
transcription cofactor activity	0.8718993114781	bayes_pls_golite062009
transcription coactivator activity	0.81316180547536	bayes_pls_golite062009
promoter binding	0.22765608166458	bayes_pls_golite062009
catalytic activity	0.00446472034106909	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [229-312]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RSRFLDARRK RRNFSKQATE ILNEYFYSHL SNPYPSEEAK EELAKKCSIT VSQVSNWFGN  60
   61 KRIRYKKNIG KFQEEANLYA AKTA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	18.09691
Match:	1b72B
Description:	pbx1
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	5.13863038737912	bayes_pls_golite062009
DNA binding	4.66369707598026	bayes_pls_golite062009
nucleic acid binding	4.51452285155271	bayes_pls_golite062009
transcription factor activity	4.06706589695599	bayes_pls_golite062009
sequence-specific DNA binding	3.5139760613123	bayes_pls_golite062009
RNA polymerase II transcription factor activity	3.16896789933192	bayes_pls_golite062009
transcription activator activity	3.10621734076555	bayes_pls_golite062009
binding	3.02779747447702	bayes_pls_golite062009
transcription repressor activity	1.91962622287073	bayes_pls_golite062009
protein binding	1.88087411289001	bayes_pls_golite062009
specific RNA polymerase II transcription factor activity	1.73068440195944	bayes_pls_golite062009
chromatin binding	1.68956710349366	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	1.62096064323298	bayes_pls_golite062009
transcription factor binding	1.40653841901929	bayes_pls_golite062009
transcription cofactor activity	0.84983974758882	bayes_pls_golite062009
transcription coactivator activity	0.2679415219517	bayes_pls_golite062009
transcription corepressor activity	0.25931464844298	bayes_pls_golite062009

Predicted Domain #5

Region A:
Residues: [313-434]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VTAAHAVAAA VQNNQTNSPT TPNSGSSGSF NLPNSGDMFM NMQSLNGDSY QGSQVGANVQ  60
   61 SQVDTLRHVI NQTGGYSDGL GGNSLYSPHN LNANGGWQDA TTPSSVTSPT EGPGSVHSDT 120
  121 SN

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

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:

Predicted functions: