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View Structure Prediction Details

Protein: SSL2
Organism: Saccharomyces cerevisiae
Length: 843 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 SSL2.

Description E-value Query
Range
Subject
Range
RAD25_YEAST - DNA repair helicase RAD25 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SSL2 PE=1 SV=1
SSL2 - Component of the holoenzyme form of RNA polymerase transcription factor TFIIH, has DNA-dependent ATP...
0.0 [1..843] [1..843]
ERCC3 - excision repair cross-complementing rodent repair deficiency, complementation group 3 (xeroderma pig...
gi|168277380, gi... - gi|60656181|gb|AAX32654.1| excision repair cross-complementing rodent repair deficiency complementat...
0.0 [52..835] [2..779]
hay-PB, hay-PA - The gene haywire is referred to in FlyBase by the symbol Dmel\hay (CG8019, FBgn0001179). It is a pro...
0.0 [65..835] [2..795]
ERCC3_MOUSE - TFIIH basal transcription factor complex helicase XPB subunit OS=Mus musculus GN=Ercc3 PE=2 SV=1
gi|240583 - gi|240583|gb|AAB20614.1| DNA repair gene [Mus sp.]
0.0 [52..835] [2..780]
gi|7507776 - gi|7507776|pir||T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans
0.0 [65..835] [2..799]
ERCC3_SCHPO - Probable DNA repair helicase ercc3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ercc3 P...
ptr8 - transcription factor TFIIH complex ERCC-3 subunit
0.0 [28..840] [11..802]

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Predicted Domain #1
Region A:
Residues: [1-297]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTDVEGYQPK SKGKIFPDMG ESFFSSDEDS PATDAEIDEN YDDNRETSEG RGERDTGAMV  60
   61 TGLKKPRKKT KSSRHTAADS SMNQMDAKDK ALLQDTNSDI PADFVPDSVS GMFRSHDFSY 120
  121 LRLRPDHASR PLWISPSDGR IILESFSPLA EQAQDFLVTI AEPISRPSHI HEYKITAYSL 180
  181 YAAVSVGLET DDIISVLDRL SKVPVAESII NFIKGATISY GKVKLVIKHN RYFVETTQAD 240
  241 ILQMLLNDSV IGPLRIDSDH QVQPPEDVLQ QQLQQTAGKP ATNVNPNDVE AVFSAVI

[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 Domain #2
Region A:
Residues: [298-570]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GGDNEREEED DDIDAVHSFE IANESVEVVK KRCQEIDYPV LEEYDFRNDH RNPDLDIDLK  60
   61 PSTQIRPYQE KSLSKMFGNG RARSGIIVLP CGAGKTLVGI TAACTIKKSV IVLCTSSVSV 120
  121 MQWRQQFLQW CTLQPENCAV FTSDNKEMFQ TESGLVVSTY SMVANTRNRS HDSQKVMDFL 180
  181 TGREWGFIIL DEVHVVPAAM FRRVVSTIAA HAKLGLTATL VREDDKIGDL NFLIGPKLYE 240
  241 ANWMELSQKG HIANVQCAEV WCPMTAEFYQ EYL

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 94.39794
Match: 1hv8A_
Description: Putative DEAD box RNA helicase
Matching Structure (courtesy of the PDB):

Predicted Domain #3
Region A:
Residues: [571-717]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RETARKRMLL YIMNPTKFQA CQFLIQYHER RGDKIIVFSD NVYALQEYAL KMGKPFIYGS  60
   61 TPQQERMNIL QNFQYNDQIN TIFLSKVGDT SIDLPEATCL IQISSHYGSR RQEAQRLGRI 120
  121 LRAKRRNDEG FNAFFYSLVS KDTQEMY

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 94.39794
Match: 1hv8A_
Description: Putative DEAD box RNA helicase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
general RNA polymerase II transcription factor activity 5.67074370996647 bayes_pls_golite062009
transcription regulator activity 5.55329976718261 bayes_pls_golite062009
DNA binding 5.08959163553491 bayes_pls_golite062009
nucleic acid binding 4.99681957904233 bayes_pls_golite062009
transcription factor activity 4.33152142980289 bayes_pls_golite062009
transcription activator activity 3.70589483230587 bayes_pls_golite062009
sequence-specific DNA binding 3.58179858678904 bayes_pls_golite062009
binding 3.52874320222492 bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups 2.7405324052133 bayes_pls_golite062009
RNA polymerase II transcription factor activity 2.60738445921725 bayes_pls_golite062009
transcription repressor activity 2.22485867684613 bayes_pls_golite062009
RNA polymerase activity 1.82365519759474 bayes_pls_golite062009
DNA-directed RNA polymerase activity 1.82365519759474 bayes_pls_golite062009
transcription elongation regulator activity 1.81270943531115 bayes_pls_golite062009
protein binding 1.80415286835431 bayes_pls_golite062009
structure-specific DNA binding 1.38449475025903 bayes_pls_golite062009
RNA binding 0.992043085614693 bayes_pls_golite062009
transcription factor binding 0.85714789329232 bayes_pls_golite062009
specific RNA polymerase II transcription factor activity 0.66743181561551 bayes_pls_golite062009
transferase activity 0.382878181629158 bayes_pls_golite062009
double-stranded DNA binding 0.349632742873003 bayes_pls_golite062009
nucleotidyltransferase activity 0.237727660028553 bayes_pls_golite062009
RNA polymerase II transcription factor activity, enhancer binding 0.23177057841536 bayes_pls_golite062009
hydrolase activity 0.140191206949582 bayes_pls_golite062009
positive transcription elongation factor activity 0.13524243942225 bayes_pls_golite062009

Predicted Domain #4
Region A:
Residues: [718-843]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YSTKRQAFLV DQGYAFKVIT HLHGMENIPN LAYASPRERR ELLQEVLLKN EEAAGIEVGD  60
   61 DADNSVGRGS NGHKRFKSKA VRGEGSLSGL AGGEDMAYME YSTNKNKELK EHHPLIRKMY 120
  121 YKNLKK

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 10.30103
Match: 1d2mA_
Description: Nucleotide excision repair enzyme UvrB
Matching Structure (courtesy of the PDB):

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