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View Structure Prediction Details

Protein: ROM1
Organism: Saccharomyces cerevisiae
Length: 1155 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 ROM1.

Description E-value Query
Range
Subject
Range
gi|1314785 - gi|1314785|gb|AAA99813.1| protein kinase C suppressor Skc1p
0.0 [1..1155] [1..1155]
gi|50303861, gi|... - gi|50303861|ref|XP_451877.1| unnamed protein product [Kluyveromyces lactis], gi|49641009|emb|CAH0227...
gi|16611806, gi|... - gi|49641009|emb|CAH02270.1| KLLA0B07799p [Kluyveromyces lactis], gi|16611806|gb|AAL27369.1|AF421953_...
0.0 [18..1155] [64..1224]
RGF1_SCHPO - Rho1 guanine nucleotide exchange factor 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=...
rgf1 - RhoGEF for Rho1, Rgf1
0.0 [17..1146] [121..1307]
gi|21361487, gi|... - gi|21361487|ref|NP_056410.2| Src homology 3 domain-containing guanine nucleotide exchange factor [Ho...
4.0E-96 [68..877] [60..838]
VAV_RAT - Proto-oncogene vav OS=Rattus norvegicus GN=Vav1 PE=2 SV=1
3.0E-91 [366..869] [105..548]

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Predicted Domain #1
Region A:
Residues: [1-268]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNSNELDLRN KYFYEIFGKK RKSDTSTPTQ LFSGSKVQTN INEISITNDE DEDSTEDENK  60
   61 ASLKDYTLGH DTGARYRIAP DCSSHQLKAS PVLHISTNLN SSPQSFTGDQ ISPTNKKISI 120
  121 NDSTRQDKGN SCTTTSSPSQ KRSNVLLPHV RKHSSPSLLS FSKNSGSHMG DPNQLSTPPT 180
  181 PKSAGHTMEL HSSFNGKHSS SSTSSLFALE SLKTQNRRSS NSSNHSSQYR RHTNQHQRHH 240
  241 SRSKSSPVSL TEISMIKGTP LVYPALLS

[Run NCBI BLAST on this sequence.]

Detection Method: ORFEUS
Confidence: 12.1
Match: 1k83A
Description: RBP1
Matching Structure (courtesy of the PDB):

Predicted Domain #2
Region A:
Residues: [269-400]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LIAIKFKQTI KLSTHKKMGL LYRDSFTGKQ AIDTLCLIIG SLDRNLGMLI GKSLEAQKLF  60
   61 HDVLYDHGVR DSVLEIYELS SESIFMAHQS QSSTSIANTF SSSSSSVNSL RTKTEIYGVF 120
  121 VPLTHCYSST CS

[Run NCBI BLAST on this sequence.]

Detection Method: Pfam
Confidence: 16.721246
Match: PF00610
Description: Domain found in Dishevelled, Egl-10, and Pleckstrin

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 #3
Region A:
Residues: [401-455]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LEKLCYSISC PNRLQQQANL HLKLGGGLKR NISLALDKED DERISWTNSV PKSVW

[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 functions:

Term Confidence Notes
binding 2.73671056234733 bayes_pls_golite062009
transcription regulator activity 2.39919853201545 bayes_pls_golite062009
DNA binding 2.16143325457938 bayes_pls_golite062009
nucleic acid binding 2.09113880936999 bayes_pls_golite062009
transcription factor activity 1.54168457775536 bayes_pls_golite062009
protein binding 0.726445167461826 bayes_pls_golite062009
sequence-specific DNA binding 0.287205124844904 bayes_pls_golite062009
transcription activator activity 0.125095059983242 bayes_pls_golite062009
transcription repressor activity 0.0268276479020184 bayes_pls_golite062009

Predicted Domain #4
Region A:
Residues: [456-654]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ESLSKQQIKR QEAIYELFTT EKKFVKSLEI IRDTFMKKLL ETNIIPSDVR INFVKHVFAH  60
   61 INEIYSVNRE FLKALAQRQS LSPICPGIAD IFLQYLPFFD PFLSYIASRP YAKYLIETQR 120
  121 SVNPNFARFD DEVSNSSLRH GIDSFLSQGV SRPGRYSLLV REIIHFSDPV TDKDDLQMLM 180
  181 KVQDLLKDLM KRIDRASGA

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 160.927757
Match: 1ki1B_
Description: GEF of intersectin
Matching Structure (courtesy of the PDB):

Predicted Domain #5
Region A:
Residues: [655-839]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AQDRYDVKVL KQKILFKNEY VNLGLNNEKR KIKHEGLLSR KDVNKTDASF SGDIQFYLLD  60
   61 NMLLFLKSKA VNKWHQHTVF QRPIPLPLLF ICPAEDMPPI KRYVTENPNC SAGVLLPQYQ 120
  121 TSNPKNAIVF AYYGTKQQYQ VTLYAPQPAG LQTLIEKVKQ EQKRLLDETK HITFKQMVGQ 180
  181 FFHSY

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 160.927757
Match: 1ki1B_
Description: GEF of intersectin
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
binding 1.74397599086046 bayes_pls_golite062009
protein binding 1.14503622489775 bayes_pls_golite062009
cytoskeletal protein binding 0.628909211572624 bayes_pls_golite062009
actin binding 0.451110433048089 bayes_pls_golite062009
enzyme regulator activity 0.149708921127291 bayes_pls_golite062009

Predicted Domain #6
Region A:
Residues: [840-1155]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 INTNRVNDVL ICHAGKILLV ATNMGLFVLN YATSINQKPV HLLHKISISQ ISVLEEYKVM  60
   61 ILLIDKKLYG CPLDVIDDAE NADFLFRKNS KVLFKYVAMF KDGFCNGKRI IMIAHHFLHA 120
  121 AQLLIVNPLI FDFNSGNFKK NLKAGLVDFS VDSEPLSFSF LENKICIGCK KNIKILNVPE 180
  181 VCDKNGFKMR ELLNLHDNKV LANMYKETFK VVSMFPIKNS TFACFPELCF FLNKQGKREE 240
  241 TKGCFHWEGE PEQFACSYPY IVAINSNFIE IRHIENGELV RCVLGNKIRM LKSYAKKILY 300
  301 CYEDPQGFEI IELLNF

[Run NCBI BLAST on this sequence.]

Detection Method: Pfam
Confidence: 89.60206
Match: PF00780
Description: CNH domain

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.


YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle