YRC Public Data Repository - Protein Structure Prediction

Protein:	alp-1
Organism:	Caenorhabditis elegans
Length:	645 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 alp-1.

Description	E-value	Query Range	Subject Range
gi\|76651068 - gi\|76651068\|ref\|XP_887912.1\| PREDICTED: similar to zinc finger protein 192 isoform 5 [Bos taurus]	708.0	[0..55]	[644..329]

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Predicted Domain #1

Region A:
Residues: [1-82]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MERVTVRMAR SDRRTPWGFG VTEAPDGAVL IVNVIGGSLA DRAGLRNGDV VDRLEDLDNL  60
   61 DINAVDRLLV TAHEKIELIV TR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	15.0
Match:	2uzcA
Description:	No description for 2uzcA was found.

Predicted Domain #2

Region A:
Residues: [83-146]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QPSGAATRIW RPEVTENTGP GQDQTPYRVN LQHSSDTRPP QGFNNSALPF ETDQRVKHMQ  60
   61 YNSP

[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 #3

Region A:
Residues: [147-302]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LGIYSDKSAA EQYVQQTQGL GDNSGARAAA QRQDEPAYLR SETLRLLKEQ EHGSAGGAGT  60
   61 TLSNHPNPSG LPVCFMCTRP ILGVMARAAG KNLHGDCLSC ATCGNSLRNV GHHFIEDKFY 120
  121 CDIHGTQRKH GGRPGMDPNI FVKSSPTAAQ PVHIQD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	15.69897
Match:	1tf6A
Description:	Transcription factor IIIA, TFIIIA
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.90895627801407	bayes_pls_golite062009
DNA binding	2.69897474879997	bayes_pls_golite062009
transcription regulator activity	2.66654367524547	bayes_pls_golite062009
nucleic acid binding	2.64459048886659	bayes_pls_golite062009
cytoskeletal protein binding	2.22104591928521	bayes_pls_golite062009
transcription factor activity	1.78340377434481	bayes_pls_golite062009
RNA polymerase II transcription factor activity	1.51308363851862	bayes_pls_golite062009
chromatin binding	1.04070653186107	bayes_pls_golite062009
transcription activator activity	0.91635578222038	bayes_pls_golite062009
protein binding	0.905022998164426	bayes_pls_golite062009
tubulin binding	0.744315484113484	bayes_pls_golite062009
microtubule binding	0.576452165256057	bayes_pls_golite062009
specific RNA polymerase II transcription factor activity	0.47431986827149	bayes_pls_golite062009
transcription repressor activity	0.394719390279559	bayes_pls_golite062009
sequence-specific DNA binding	0.27893970640609	bayes_pls_golite062009
transcription factor binding	0.26289228626913	bayes_pls_golite062009
signal transducer activity	0.0590340677124848	bayes_pls_golite062009
molecular transducer activity	0.0590340677124848	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [303-508]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SPRAAYHPQV NTARPVSVSP APSAGSKTVT THYHTPKTQG ILSPGQRGVP TAAFGADLSK  60
   61 SVTYGGGVGP GGTHYDSNRL SPAPSQYSTQ SRNQSQQHYQ QHVVQAPPPV PSNPPPSNGS 120
  121 SYTKTSFERT TTETRPQQNT GAPRAGDFRG TGHLTTTTTT QQNGGRAPFC ESCKQQIRGA 180
  181 FVLATGKSWC PEHFVCANSS CRRRLL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	53.69897
Match:	2i13A
Description:	No description for 2i13A was found.

Predicted Domain #5

Region A:
Residues: [509-549]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ECGFVEEDGQ KFCESCFEQH IAPRCNKCSK PIISDCLNAL Q

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	8.0
Match:	1x6hA
Description:	Solution structures of the C2H2 type zinc finger domain of human Transcriptional repressor CTCF
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.90895627801407	bayes_pls_golite062009
DNA binding	2.69897474879997	bayes_pls_golite062009
transcription regulator activity	2.66654367524547	bayes_pls_golite062009
nucleic acid binding	2.64459048886659	bayes_pls_golite062009
cytoskeletal protein binding	2.22104591928521	bayes_pls_golite062009
transcription factor activity	1.78340377434481	bayes_pls_golite062009
RNA polymerase II transcription factor activity	1.51308363851862	bayes_pls_golite062009
chromatin binding	1.04070653186107	bayes_pls_golite062009
transcription activator activity	0.91635578222038	bayes_pls_golite062009
protein binding	0.905022998164426	bayes_pls_golite062009
tubulin binding	0.744315484113484	bayes_pls_golite062009
microtubule binding	0.576452165256057	bayes_pls_golite062009
specific RNA polymerase II transcription factor activity	0.47431986827149	bayes_pls_golite062009
transcription repressor activity	0.394719390279559	bayes_pls_golite062009
sequence-specific DNA binding	0.27893970640609	bayes_pls_golite062009
transcription factor binding	0.26289228626913	bayes_pls_golite062009
signal transducer activity	0.0590340677124848	bayes_pls_golite062009
molecular transducer activity	0.0590340677124848	bayes_pls_golite062009

Predicted Domain #6

Region A:
Residues: [550-645]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KKWHPTCFTC AHCQKPFGNS AFYLEQGLPY CEQDWNALFT TKCVSCRYPI EAGDRWVEAL  60
   61 GNAFHSNCFT CARCNHNLEG ESFFAKNGQP FCRLHA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	15.0
Match:	1x6eA
Description:	Solution structures of the C2H2 type zinc finger domain of human Zinc finger protein 24
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.90895627801407	bayes_pls_golite062009
DNA binding	2.69897474879997	bayes_pls_golite062009
transcription regulator activity	2.66654367524547	bayes_pls_golite062009
nucleic acid binding	2.64459048886659	bayes_pls_golite062009
cytoskeletal protein binding	2.22104591928521	bayes_pls_golite062009
transcription factor activity	1.78340377434481	bayes_pls_golite062009
RNA polymerase II transcription factor activity	1.51308363851862	bayes_pls_golite062009
chromatin binding	1.04070653186107	bayes_pls_golite062009
transcription activator activity	0.91635578222038	bayes_pls_golite062009
protein binding	0.905022998164426	bayes_pls_golite062009
tubulin binding	0.744315484113484	bayes_pls_golite062009
microtubule binding	0.576452165256057	bayes_pls_golite062009
specific RNA polymerase II transcription factor activity	0.47431986827149	bayes_pls_golite062009
transcription repressor activity	0.394719390279559	bayes_pls_golite062009
sequence-specific DNA binding	0.27893970640609	bayes_pls_golite062009
transcription factor binding	0.26289228626913	bayes_pls_golite062009
signal transducer activity	0.0590340677124848	bayes_pls_golite062009
molecular transducer activity	0.0590340677124848	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:

Predicted functions:

Predicted functions: