YRC Public Data Repository - Protein Structure Prediction

Protein:	PITX2
Organism:	Homo sapiens
Length:	317 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 PITX2.

Description	E-value	Query Range	Subject Range
gi\|109075374, gi... - gi\|109075374\|ref\|XP_001091045.1\| PREDICTED: similar to paired-like homeodomain transcription factor ...	8.0E-47	[1..317]	[1..317]
gi\|76619484 - gi\|76619484\|ref\|XP_870617.1\| PREDICTED: similar to ALL1 responsive protein ARP1c isoform 2 [Bos taur...	2.0E-46	[1..317]	[1..317]
PITX2_MOUSE - Pituitary homeobox 2 OS=Mus musculus GN=Pitx2 PE=1 SV=2	3.0E-46	[1..317]	[1..317]
gi\|74002160 - gi\|74002160\|ref\|XP_863661.1\| PREDICTED: similar to paired-like homeodomain transcription factor 2 is...	3.0E-46	[1..317]	[1..317]
gi\|147898431, gi... - gi\|3955071\|emb\|CAA06697.1\| XPtx2b [Xenopus laevis], gi\|147898431\|ref\|NP_001079055.1\| paired-like hom...	3.0E-44	[1..317]	[1..316]
gi\|149025926, gi... - gi\|9506975\|ref\|NP_062207.1\| paired-like homeodomain transcription factor 2 isoform 2 [Rattus norvegi... gi\|1724116, gi\|1... - gi\|3078013\|gb\|AAC40086.1\| ALL1 responsive protein ARP1a [Mus musculus], gi\|1724116\|gb\|AAB38505.1\| or... gi\|109075378 - gi\|109075378\|ref\|XP_001091165.1\| PREDICTED: similar to paired-like homeodomain transcription factor ...	4.0E-40	[62..317]	[16..271]
gi\|119893565 - gi\|119893565\|ref\|XP_001251312.1\| PREDICTED: similar to ALL1 responsive protein ARP1c [Bos taurus] gi\|114595682, gi... - gi\|114595682\|ref\|XP_001141403.1\| PREDICTED: paired-like homeodomain transcription factor 2 isoform 5... gi\|24234711, gi\|... - gi\|76780065\|gb\|AAI06011.1\| Paired-like homeodomain 2 [Homo sapiens], gi\|3078007\|gb\|AAC39716.1\| ALL1 ...	1.0E-39	[62..317]	[16..271]

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Predicted Domain #1

Region A:
Residues: [1-82]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 METNCRKLVS ACVQLGVQPA AVECLFSKDS EIKKVEFTDS PESRKEAASS KFFPRQHPGA  60
   61 NEKDKSQQGK NEDVGAEDPS KK

[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: [83-157]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KRQRRQRTHF TSQQLQELEA TFQRNRYPDM STREEIAVWT NLTEARVRVW FKNRRAKWRK  60
   61 RERNQQAELC KNGFG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	18.0
Match:	1yz8P
Description:	Solution structure of the k50 class homeodomain pitx2 bound to dna and implications for mutations that cause rieger syndrome
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 #3

Region A:
Residues: [158-317]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PQFNGLMQPY DDMYPGYSYN NWAAKGLTSA SLSTKSFPFF NSMNVNPLSS QSMFSPPNSI  60
   61 SSMSMSSSMV PSAVTGVPGS SLNSLNNLNN LSSPSLNSAV PTPACPYAPP TPPYVYRDTC 120
  121 NSSLASLRLK AKQHSSFGYA SVQNPASNLS ACQYAVDRPV

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.250	0.158	anatomical structure morphogenesis	a.45.1	Glutathione S-transferase (GST), C-terminal domain
View	Download	0.319	0.137	transcription factor activity	a.118.8	TPR-like

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: