YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|109019461
Organism:	Macaca mulatta
Length:	245 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|109019461.

Description	E-value	Query Range	Subject Range
PRRX1_RAT - Paired mesoderm homeobox protein 1 OS=Rattus norvegicus GN=Prrx1 PE=1 SV=1 ENSOCUP00000010561 - pep:novel chromosome:oryCun2:13:22831174:22910984:1 gene:ENSOCUG00000012272 transcript:ENSOCUT000000... gi\|73960640 - gi\|73960640\|ref\|XP_850725.1\| PREDICTED: similar to paired related homeobox 1 isoform 2 [Canis famili... PRRX1_MOUSE - Paired mesoderm homeobox protein 1 OS=Mus musculus GN=Prrx1 PE=1 SV=1 gi\|1836044 - gi\|1836044\|gb\|AAB46839.1\| rHox protein [Rattus sp.] gi\|194036769 - gi\|194036769\|ref\|XP_001927494.1\| PREDICTED: similar to DNA-binding protein [Sus scrofa]	3.0E-36	[1..245]	[1..245]
gi\|126165288, gi... - gi\|76637309\|ref\|XP_871943.1\| PREDICTED: similar to paired related homeobox 1 isoform 2 [Bos taurus],...	8.0E-36	[1..245]	[1..245]
gi\|786328 - gi\|786328\|gb\|AAB32671.1\| Pax-6 [Rattus sp.] gi\|480038, gi\|446399 - gi\|480038\|pir\|\|S36166 paired box transcription factor Pax-6 - rat (fragment), gi\|446399\|prf\|\|1911405...	6.0E-34	[3..182]	[28..205]
PRRX1_CHICK - Paired mesoderm homeobox protein 1 OS=Gallus gallus GN=PRRX1 PE=1 SV=2	9.0E-34	[1..245]	[1..245]
gi\|2696969 - gi\|2696969\|dbj\|BAA24022.1\| PAX6 LS [Cynops pyrrhogaster]	5.0E-33	[3..231]	[152..378]
gi\|3402201 - gi\|3402201\|emb\|CAA16493.1\| PAX6 [Takifugu rubripes]	2.0E-32	[3..245]	[141..380]
gi\|5758937 - gi\|5758937\|gb\|AAD50902.1\|AF169413_1 paired-box transcription factor +- isoform [Ambystoma mexicanum]	3.0E-32	[3..231]	[133..359]

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Predicted Domain #1

Region A:
Residues: [1-159]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTSSYGHVLE RQPALGGRLD SPGNLDTLQA KKNFSVSHLL DLEEAGDMVA AQADENVGEA  60
   61 GRSLLESPGL TSGSDTPQQD NDQLNSEEKK KRKQRRNRTT FNSSQLQALE RVFERTHYPD 120
  121 AFVREDLARR VNLTEARVQV WFQNRRAKFR RNERAMLAN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	24.69897
Match:	1fjlA
Description:	Paired protein
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
transcription repressor activity	3.55154985983449	bayes_pls_golite062009
RNA polymerase II transcription factor activity	3.16896789933192	bayes_pls_golite062009
binding	3.02779747447702	bayes_pls_golite062009
sequence-specific DNA binding	2.41271657675151	bayes_pls_golite062009
protein binding	1.88087411289001	bayes_pls_golite062009
transcription activator activity	1.77700860354597	bayes_pls_golite062009
specific RNA polymerase II transcription factor activity	1.73068440195944	bayes_pls_golite062009
chromatin binding	1.68956710349366	bayes_pls_golite062009
transcription corepressor activity	1.49423102874486	bayes_pls_golite062009
transcription factor binding	1.40653841901929	bayes_pls_golite062009
transcription cofactor activity	0.84983974758882	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	0.529774583092406	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [160-245]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KNASLLKSYS GDVTAVEQPI VPRPAPRPTD YLSWGTASPY SAMATYSATC ANNSPAQGIN  60
   61 MANSIANLRL KAKEYSLQRN QVPTVN

[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: