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 are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

Found no 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: