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View Structure Prediction Details

Protein: RAD4
Organism: Saccharomyces cerevisiae
Length: 754 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 RAD4.

Description E-value Query
Range
Subject
Range
gi|172333, gi|17... - gi|172335|gb|AAA34945.1| rad4 [Saccharomyces cerevisiae], gi|172333|gb|AAA34944.1| RAD4 protein [Sac...
0.0 [1..754] [1..754]
RHP42_SCHPO - DNA repair protein rhp42 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rhp42 PE=3 SV=1
rhp42 - DNA repair protein Rhp42
0.0 [20..667] [6..686]
gi|1276473, gi|2... - gi|6678611|ref|NP_033557.1| xeroderma pigmentosum, complementation group C [Mus musculus], pir||S706...
0.0 [286..671] [455..833]
gi|447739 - gi|447739|prf||1915304A nylB upstream ORF
0.0 [289..671] [378..753]
gi|119584592, gi... - gi|21914794|gb|AAM77801.1| xeroderma pigmentosum, complementation group C [Homo sapiens], gi|2012746...
0.0 [289..671] [495..870]

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Predicted Domain #1
Region A:
Residues: [1-244]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNEDLPKEYF ELIRKALNEK EAEKAPLSRR RRVRRKNQPL PDAKKKFKTG LNELPRESVV  60
   61 TVNLDSSDDG VVTVPTDDSV EEIQSSEEDY DSEEFEDVTD GNEVAGVEDI SVEIKPSSKR 120
  121 NSDARRTSRN VCSNEERKRR KYFHMLYLVC LMVHGFIRNE WINSKRLSRK LSNLVPEKVF 180
  181 ELLHPQKDEE LPLRSTRKLL DGLKKCMELW QKHWKITKKY DNEGLYMRTW KEIEMSANNK 240
  241 RKFK

[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 #2
Region A:
Residues: [245-694]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TLKRSDFLRA VSKGHGDPDI SVQGFVAMLR ACNVNARLIM SCQPPDFTNM KIDTSLNGNN  60
   61 AYKDMVKYPI FWCEVWDKFS KKWITVDPVN LKTIEQVRLH SKLAPKGVAC CERNMLRYVI 120
  121 AYDRKYGCRD VTRRYAQWMN SKVRKRRITK DDFGEKWFRK VITALHHRKR TKIDDYEDQY 180
  181 FFQRDESEGI PDSVQDLKNH PYYVLEQDIK QTQIVKPGCK ECGYLKVHGK VGKVLKVYAK 240
  241 RDIADLKSAR QWYMNGRILK TGSRCKKVIK RTVGRPKGEA EEEDERLYSF EDTELYIPPL 300
  301 ASASGEITKN TFGNIEVFAP TMIPGNCCLV ENPVAIKAAR FLGVEFAPAV TSFKFERGST 360
  361 VKPVLSGIVV AKWLREAIET AIDGIEFIQE DDNRKEHLLG ALESWNTLLL KLRIRSKLNS 420
  421 TYGKIAEEEP NVTKEQNIAD NHDNTETFMG 

[Run NCBI BLAST on this sequence.]

Detection Method: Pfam
Confidence: 256.130768
Match: PF03835
Description: DNA repair protein Rad4

Shown below are all of our structure 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: [695-754]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GGFLPGIANH EARPYSEPSE PEDSLDYVSV DKAEESATDD DVGEDYSDFM KELEMSEESD  60
   61 

[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.

    MCM
Score
SCOP
Match
SCOP Description
View Download 0.531 a.4.1 Homeodomain-like
View Download 0.772 a.60.1 SAM/Pointed domain
View Download 0.658 a.144.1 PABC (PABP) domain
View Download 0.526 a.60.2 RuvA domain 2-like
View Download 0.772 a.60.1 SAM/Pointed domain
View Download 0.658 a.144.1 PABC (PABP) domain
View Download 0.607 a.60.1 SAM/Pointed domain
View Download 0.531 a.4.1 Homeodomain-like
View Download 0.526 a.60.2 RuvA domain 2-like
View Download 0.498 a.4.1 Homeodomain-like
View Download 0.489 a.5.7 4-hydroxy-2-oxovalerate aldolase DmpG, communication domain
View Download 0.457 a.164.1 C-terminal domain of DFF45/ICAD (DFF-C domain)
View Download 0.398 a.60.12 DNA polymerase beta-like, second domain
View Download 0.397 a.4.5 "Winged helix" DNA-binding domain
View Download 0.385 a.60.3 C-terminal domain of RNA polymerase alpha subunit
View Download 0.385 a.60.2 RuvA domain 2-like
View Download 0.380 a.144.2 Ribosomal protein L20
View Download 0.332 a.23.5 Hemolysin expression modulating protein HHA
View Download 0.313 a.52.1 Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin
View Download 0.307 a.20.1 PGBD-like
View Download 0.295 a.60.3 C-terminal domain of RNA polymerase alpha subunit
View Download 0.267 a.4.7 Ribosomal protein L11, C-terminal domain
View Download 0.262 a.157.1 Skp1 dimerisation domain-like
View Download 0.257 a.4.9 Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3
View Download 0.256 a.4.8 Ribosomal protein S18
View Download 0.232 a.4.13 Sigma3 and sigma4 domains of RNA polymerase sigma factors
View Download 0.211 a.56.1 CO dehydrogenase ISP C-domain like
View Download 0.210 a.6.1 Putative DNA-binding domain


YRC Informatics Platform - Version 3.0
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