YRC Public Data Repository - Protein Structure Prediction

Protein:	lgg-1
Organism:	Caenorhabditis elegans
Length:	123 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 lgg-1.

Description	E-value	Query Range	Subject Range
gi\|25989541 - gi\|25989541\|gb\|AAM77034.1\| polyprotein [Bovine viral diarrhea virus-1]	240.0	[0..1]	[117..185]
gi\|109129278 - gi\|109129278\|ref\|XP_001104154.1\| PREDICTED: similar to GABA(A) receptor-associated protein like 2 [M...	236.0	[0..1]	[116..151]
gi\|114663750 - gi\|114663750\|ref\|XP_511114.2\| PREDICTED: similar to GABARAPL2 protein [Pan troglodytes]	236.0	[0..1]	[116..108]
gi\|73587001 - gi\|73587001\|gb\|AAI02903.1\| GABARAPL2 protein [Bos taurus]	229.0	[0..1]	[116..34]
gi\|156717938, gi... - gi\|156717938\|ref\|NP_001096511.1\| hypothetical protein LOC100125141 [Xenopus (Silurana) tropicalis], ... gi\|147903998, gi... - gi\|77748214\|gb\|AAI06475.1\| MGC131197 protein [Xenopus laevis], gi\|147903998\|ref\|NP_001089750.1\| hypo...	224.0	[0..1]	[116..1]
GABARAPL2 - GABA(A) receptor-associated protein-like 2 GBRL2_BOVIN - Gamma-aminobutyric acid receptor-associated protein-like 2 OS=Bos taurus GN=GABARAPL2 PE=1 SV=1 ENSCJAT00000027704 - null gi\|149699371 - gi\|149699371\|ref\|XP_001501591.1\| PREDICTED: similar to Gamma-aminobutyric acid receptor-associated p... GBRL2_MOUSE - Gamma-aminobutyric acid receptor-associated protein-like 2 OS=Mus musculus GN=Gabarapl2 PE=1 SV=1 ENSPTRT00000015417 - null tr\|M3W9J5\|M3W9J5... - GABA type A receptor associated protein like 2 OS=Felis catus GN=GABARAPL2 PE=3 SV=1 gi\|73957378 - gi\|73957378\|ref\|XP_536778.2\| PREDICTED: similar to GABA(A) receptor-associated protein like 2 [Canis... gi\|90085046 - gi\|90085046\|dbj\|BAE91264.1\| unnamed protein product [Macaca fascicularis] GBRL2_RAT - Gamma-aminobutyric acid receptor-associated protein-like 2 OS=Rattus norvegicus GN=Gabarapl2 PE=3 SV... ENSOCUP000000142... - pep:novel chromosome:oryCun2:5:30199237:30210711:1 gene:ENSOCUG00000016600 transcript:ENSOCUT0000001... CCDS10921.1_1 - null gi\|123992850, gi... - gi\|60822710\|gb\|AAX36618.1\| GABA(A) receptor-associated protein-like 2 [synthetic construct], gi\|2089... tr\|G3I4N5\|G3I4N5... - Gamma-aminobutyric acid receptor-associated protein-like 2 OS=Cricetulus griseus GN=I79_018418 PE=3 ... ENSMMUT000000080... - null, null	223.0	[0..1]	[116..1]
gi\|60821791 - gi\|60821791\|gb\|AAX36587.1\| GABA(A) receptor-associated protein-like 2 [synthetic construct]	223.0	[0..1]	[116..1]
gi\|12832696 - gi\|12832696\|dbj\|BAB22217.1\| unnamed protein product [Mus musculus]	222.0	[0..1]	[116..1]
gi\|47221926 - gi\|47221926\|emb\|CAF98938.1\| unnamed protein product [Tetraodon nigroviridis]	222.0	[0..1]	[116..1]

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Predicted Domain #1

Region A:
Residues: [1-123]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKWAYKEENN FEKRRAEGDK IRRKYPDRIP VIVEKAPKSK LHDLDKKKYL VPSDLTVGQF  60
   61 YFLIRKRIQL RPEDALFFFV NNVIPQTMTT MGQLYQDHHE EDLFLYIAYS DESVYGGEVE 120
  121 KKE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	53.045757
Match:	1kotA
Description:	GABA(A) receptor associated protein GABARAP
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
tubulin binding	3.8719684227967	bayes_pls_golite062009
small conjugating protein ligase activity	3.71144418714309	bayes_pls_golite062009
microtubule binding	3.61517229466799	bayes_pls_golite062009
ubiquitin-protein ligase activity	3.30801071565148	bayes_pls_golite062009
cytoskeletal protein binding	3.11253399564789	bayes_pls_golite062009
beta-tubulin binding	2.878827078106	bayes_pls_golite062009
binding	2.786655943372	bayes_pls_golite062009
acid-amino acid ligase activity	2.72499875710239	bayes_pls_golite062009
GABA receptor binding	2.41579236188889	bayes_pls_golite062009
protein tag	2.15059229834935	bayes_pls_golite062009
protein binding	1.86841453215444	bayes_pls_golite062009
transcription regulator activity	1.42747465816672	bayes_pls_golite062009
nucleic acid binding	1.32707653701567	bayes_pls_golite062009
DNA binding	1.22622447288034	bayes_pls_golite062009
molecular transducer activity	0.87452559909702	bayes_pls_golite062009
signal transducer activity	0.87452559909702	bayes_pls_golite062009
SUMO ligase activity	0.80391127659342	bayes_pls_golite062009
hydrolase activity	0.79940718386175	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	0.753885975469065	bayes_pls_golite062009
structural constituent of ribosome	0.599634454232833	bayes_pls_golite062009
structural molecule activity	0.576819726104993	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	0.536856055841234	bayes_pls_golite062009
kinase activity	0.506057697290914	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.410719674374641	bayes_pls_golite062009
protein kinase activity	0.325253662829604	bayes_pls_golite062009
enzyme binding	0.240262781026149	bayes_pls_golite062009
transferase activity	0.236208643697075	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: