YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|209863018, gi...
Organism:	Rattus norvegicus
Length:	347 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|209863018, gi....

Description	E-value	Query Range	Subject Range
gi\|30584839 - gi\|30584839\|gb\|AAP36672.1\| Homo sapiens pre-B-cell leukemia transcription factor 1 [synthetic constr...	2.0E-53	[1..347]	[1..347]
PBX1_XENLA - Pre-B-cell leukemia transcription factor 1 OS=Xenopus laevis GN=pbx1 PE=1 SV=1	4.0E-53	[1..347]	[1..347]
gi\|8096557 - gi\|8096557\|dbj\|BAA96136.1\| PBX1B [Gallus gallus]	8.0E-52	[1..347]	[1..347]
gi\|7160794, gi\|2... - gi\|7160794\|emb\|CAB76455.1\| Pbx1b homeodomain protein [Danio rerio], gi\|24158445\|ref\|NP_571690.1\| pre...	1.0E-50	[1..347]	[1..346]
gi\|109498930 - gi\|109498930\|ref\|XP_001072172.1\| PREDICTED: similar to pre B-cell leukemia transcription factor 1 is...	9.0E-50	[1..336]	[1..336]
gi\|74006106, gi\|... - gi\|74006108\|ref\|XP_859730.1\| PREDICTED: similar to pre B-cell leukemia transcription factor 1 isofor...	2.0E-48	[16..347]	[1..332]
gi\|119889514 - gi\|119889514\|ref\|XP_612645.3\| PREDICTED: similar to pre-B-cell leukemia homeobox 1 [Bos taurus] gi\|114561075, gi... - gi\|114561077\|ref\|XP_001174529.1\| PREDICTED: pre-B-cell leukemia transcription factor 1 isoform 3 [Pa... PBX1 - pre-B-cell leukemia homeobox 1 gi\|109498926, gi... - gi\|34880908\|ref\|XP_222911.2\| PREDICTED: similar to Pre-B-cell leukemia transcription factor 1 (Homeo... PBX1_MOUSE - Pre-B-cell leukemia transcription factor 1 OS=Mus musculus GN=Pbx1 PE=1 SV=2 gi\|168277526 - gi\|168277526\|dbj\|BAG10741.1\| pre-B-cell leukemia transcription factor 1 [synthetic construct] gi\|194036843 - gi\|194036843\|ref\|XP_001927921.1\| PREDICTED: pre-B-cell leukemia homeobox 1 [Sus scrofa]	2.0E-45	[1..333]	[1..333]

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Predicted Domain #1

Region A:
Residues: [1-93]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDEQPRLMHS HAGVGMAGHP GLSQHLQDGA GGTEGEGGRK QDIGDILQQI MTITDQSLDE  60
   61 AQARKHALNC HRMKPALFNV LCEIKEKTVL SIR

[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: [94-235]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GAQEEEPTDP QLMRLDNMLL AEGVAGPEKG GGSAAAAAAA AASGGAGSDN SVEHSDYRAK  60
   61 LSQIRQIYHT ELEKYEQACN EFTTHVMNLL REQSRTRPIS PKEIERMVSI IHRKFSSIQM 120
  121 QLKQSTCEAV MILRSRFLDA RR

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	0.975
Match:	2h8rA
Description:	No description for 2h8rA was found.

Predicted Domain #3

Region A:
Residues: [236-347]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KRRNFNKQAT EILNEYFYSH LSNPYPSEEA KEELAKKCGI TVSQVSNWFG NKRIRYKKNI  60
   61 GKFQEEANIY AAKTAVTATN VSAHGSQANS PSTPNSAGGY PSPCYQPDRR IQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	21.522879
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

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: