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 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 #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: