YRC Public Data Repository - Protein Structure Prediction

Protein:	ROD1
Organism:	Saccharomyces cerevisiae
Length:	837 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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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 ROD1.

Description	E-value	Query Range	Subject Range
gi\|1117921 - gi\|1117921\|gb\|AAB03678.1\| Rod1p	0.0	[1..837]	[1..837]
CE16301 - status:Partially_confirmed UniProt:O17982 protein_id:CAB05787.1	2.0E-83	[21..539]	[1..459]
YA4C_SCHPO - Arrestin domain-containing protein C31A2.12 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) G... SPAC31A2.12 - arrestin /PY protein 1	3.0E-73	[6..622]	[5..528]
ARRB1_BOVIN - Beta-arrestin-1 OS=Bos taurus GN=ARRB1 PE=1 SV=1	4.0E-69	[139..412]	[86..373]

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Predicted Domain #1

Region A:
Residues: [1-122]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFSSSSRPSK EPLLFDIRLR NLDNDVLLIK GPPDEASSVL LSGTIVLSIT EPIQIKSLAL  60
   61 RLFGRLRLNI PTVLQTVHGP HKRYSKFERN IYSHFWDDFN IKSYFQNLYD NHNNGKITIS 120
  121 SK

[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.

Predicted Domain #2

Region A:
Residues: [123-200]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SSTNLAALPK RKRALSTASL ISSNGQTSAS KNYHTLVKGN YEFPFSAIIP GSLVESVEGL  60
   61 PNAAVTYALE ATIERPKQ

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [277-292]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ENSQYCGSYG GVINQE

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [319-363]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AADEGVDTDT GEFQDKWEVR ALLNIPASLT KCSQDCRILS NIKVR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	70.0
Match:	1jsyA_
Description:	Arrestin
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ligand-gated channel activity	1.70521304005804	bayes_pls_golite062009
ligand-gated ion channel activity	1.70521304005804	bayes_pls_golite062009
binding	1.4616591463066	bayes_pls_golite062009
cation channel activity	1.3614234284962	bayes_pls_golite062009
transporter activity	1.30471301990067	bayes_pls_golite062009
protein binding	1.2505002916716	bayes_pls_golite062009
substrate-specific channel activity	1.20151630265738	bayes_pls_golite062009
transmembrane transporter activity	1.19877351610468	bayes_pls_golite062009
gated channel activity	1.19663085813978	bayes_pls_golite062009
passive transmembrane transporter activity	0.902444701590243	bayes_pls_golite062009
channel activity	0.902444701590243	bayes_pls_golite062009
ion channel activity	0.856063376717602	bayes_pls_golite062009
potassium channel activity	0.790846874610763	bayes_pls_golite062009
voltage-gated cation channel activity	0.632546300715335	bayes_pls_golite062009
metal ion transmembrane transporter activity	0.609908998221517	bayes_pls_golite062009
voltage-gated channel activity	0.585778587023806	bayes_pls_golite062009
voltage-gated potassium channel activity	0.576753448002164	bayes_pls_golite062009
voltage-gated ion channel activity	0.538163997788255	bayes_pls_golite062009
substrate-specific transporter activity	0.349685182473293	bayes_pls_golite062009
cation transmembrane transporter activity	0.289382545119226	bayes_pls_golite062009
ion transmembrane transporter activity	0.201132556494603	bayes_pls_golite062009
inward rectifier potassium channel activity	0.0874939983339416	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [201-276]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PDLICKKHLR VIRTLAIDAV ELSETVSVDN SWPEKVDYTI SIPTKAIAIG SSTMINILIV  60
   61 PILKGLKLGP VRISLV

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [293-318]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RMVAKLKLKD PLKHVAQIKK KRSLNE

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [364-416]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HKIKFTISLL NPDGHISELR AALPVQLFIS PFVPVNVKTS DVIERTLKTF GPS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	70.0
Match:	1jsyA_
Description:	Arrestin
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [417-673]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YQVTSQHDNS FSSKNFVDDS EEDVIFQRSA SALQLSSMPT IVSGSTLNIN STDAEATAVA  60
   61 DTTMVTSLMV PPNYGNHVYD RVYGEVTNED ETSASASSSA VESQAIHNIQ NLYISDSNNS 120
  121 NNPILAPNPQ IKIEDDSLNN CDSRGDSVNN SNLNLVNSNL TISENWNNNS PSANRYNNII 180
  181 NAGLNSPSLT PSFAHLSRRN SYSRQTSSTS LKNDLELTDL SRVPSYDKAM KSDMIGEDLP 240
  241 PAYPEEELGV QENKKIE

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [724-767]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VSLQQLARNN TDSSFNLNLS FTSAKSSTGS RHFPFNMTTS FTSN

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	7.47
Match:	1k28D
Description:	Baseplate structural protein gp27
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [674-723]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LERPQILHHK STSSLLPLPG SSKSSNNLKR SSSRTHLSHS PLPRNNSGSS

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [768-837]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SSSKNNSHFD KTDSTSDANK PREEENYTSA THNRRSRSSS VRSNNSNSPL RQGTGSFANL  60
   61 MEMFTKRDRS

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	7.47
Match:	1k28D
Description:	Baseplate structural protein gp27
Matching Structure (courtesy of the PDB):

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: