YRC Public Data Repository - Protein Structure Prediction

Protein:	cnd-1
Organism:	Caenorhabditis elegans
Length:	192 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 cnd-1.

Description	E-value	Query Range	Subject Range
gi\|4574302 - gi\|4574302\|gb\|AAD23995.1\| neurogenic differentiation factor [Eleutherodactylus coqui]	135.0	[0..2]	[190..3]
gi\|49118906, gi\|... - gi\|49118906\|gb\|AAH72996.1\| MGC82572 protein [Xenopus laevis], gi\|148229074\|ref\|NP_001085596.1\| MGC82...	135.0	[0..9]	[190..96]
gi\|68989270, gi\|... - gi\|68989270\|gb\|AAY99628.1\| neuroD1 [Xenopus tropicalis], gi\|147901450\|ref\|NP_001090868.1\| neurogenic...	134.0	[0..9]	[190..98]
gi\|66735460 - gi\|66735460\|gb\|AAY53912.1\| neurogenic differentiation 1 [Ovis aries]	132.0	[0..2]	[191..1]
NDF1_DANRE - Neurogenic differentiation factor 1 OS=Danio rerio GN=neurod1 PE=1 SV=1	129.0	[0..9]	[191..86]
gi\|6484294, gi\|1... - gi\|6484294\|dbj\|BAA87605.1\| NeuroD [Homo sapiens], gi\|4505377\|ref\|NP_002491.1\| neurogenic differentia...	128.0	[0..9]	[191..91]
gi\|54696326, gi\|... - gi\|61365856\|gb\|AAX42774.1\| neurogenic differentiation 1 [synthetic construct], gi\|54696326\|gb\|AAV385...	128.0	[0..9]	[191..91]
NEUROD1 - neurogenic differentiation 1 gi\|90080409 - gi\|90080409\|dbj\|BAE89686.1\| unnamed protein product [Macaca fascicularis] gi\|114582021, gi... - gi\|114582021\|ref\|XP_001158946.1\| PREDICTED: neurogenic differentiation 1 isoform 1 [Pan troglodytes]... gi\|123981314, gi... - gi\|168277898\|dbj\|BAG10927.1\| neurogenic differentiation factor 1 [synthetic construct], gi\|123996143... gi\|109100267, gi... - gi\|109100267\|ref\|XP_001101116.1\| PREDICTED: neurogenic differentiation 1 isoform 2 [Macaca mulatta],... ENSCJAT00000022399 - null	128.0	[0..9]	[191..91]

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Predicted Domain #1

Region A:
Residues: [1-102]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRPTDTSNFA PAEISKRKVR RVKANGRERA RMHGLNNALD MLREYIPITT QHQKLSKIET  60
   61 LRLARNYIDA LQRMLQTNEQ PTPLEYAHTL ANGLSQTTTN ML

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	17.30103
Match:	1nkpA
Description:	Myc prot-oncogene protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.33078862731285	bayes_pls_golite062009
DNA binding	1.47769879162301	bayes_pls_golite062009
transcription regulator activity	1.40297587472455	bayes_pls_golite062009
transcription factor activity	1.37196407054029	bayes_pls_golite062009
protein binding	0.90375176425983	bayes_pls_golite062009
nucleic acid binding	0.863712081656127	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [103-192]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ANLLQVQPRQ LLPPSQFDIF SDPSHHQLHP SHPPPHSSFS SSSPSSSCSP PQYYYSPTQP  60
   61 SAAPLQGSCD PQYQQMYHQH SHQNTFNYSP

[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: