YRC Public Data Repository - Protein Structure Prediction

Protein:	SSL1
Organism:	Saccharomyces cerevisiae
Length:	461 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 SSL1.

Description	E-value	Query Range	Subject Range
SSL1_YEAST - Suppressor of stem-loop protein 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SSL1 P... gi\|190406046 - gi\|190406046\|gb\|EDV09313.1\| suppressor of stem-loop protein 1 [Saccharomyces cerevisiae RM11-1a] SSL1 - Component of the core form of RNA polymerase transcription factor TFIIH, which has both protein kina...	0.0	[1..461]	[1..461]
ssl1 - transcription factor TFIIH complex subunit Ssl1 TFH47_SCHPO - TFIIH basal transcription factor complex p47 subunit OS=Schizosaccharomyces pombe (strain 972 / ATCC...	0.0	[39..455]	[3..417]
gi\|3327882 - gi\|3327882\|dbj\|BAA31745.1\| SSL1 [Schizosaccharomyces pombe]	0.0	[68..455]	[2..388]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[67..457]	[2..388]
gi\|208968221, gi... - gi\|208968221\|dbj\|BAG73949.1\| General transcription factor IIH subunit 2 [synthetic construct], gi\|14... GTF2H2 - general transcription factor IIH, polypeptide 2, 44kDa	0.0	[67..457]	[2..388]
gi\|148668487, gi... - gi\|16740713\|gb\|AAH16231.1\| Gtf2h2 protein [Mus musculus], gi\|148668487\|gb\|EDL00806.1\| general transc...	0.0	[67..457]	[2..389]
FBpp0304361, Ssl1-PA - The gene Ssl1 is referred to in FlyBase by the symbol Dmel\Ssl1 (CG11115, FBgn0037202). It is a prot... gi\|220952514, gi... - gi\|220952514\|gb\|ACL88800.1\| Ssl1-PA [synthetic construct], gi\|220945098\|gb\|ACL85092.1\| Ssl1-PA [synt...	0.0	[66..458]	[4..407]

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Predicted Domain #1

Region A:
Residues: [1-116]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAPVVISESE EDEDRVAITR RTKRQVHFDG EGDDRVDQQQ QQHSSSHRDR DKHVQRKKKK  60
   61 RLSNRNLQGS NGGYAWEDEI KRSWDLVKVD DEGDMASLVA SIVEARKKRT AKKNIT

[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	2.75824485094584	bayes_pls_golite062009
nucleic acid binding	2.08531850924748	bayes_pls_golite062009
DNA binding	1.91667917801679	bayes_pls_golite062009
protein binding	1.53311876872122	bayes_pls_golite062009
protein complex binding	0.68878168136573	bayes_pls_golite062009
hydrolase activity	0.564965244474085	bayes_pls_golite062009
structure-specific DNA binding	0.450760554291027	bayes_pls_golite062009
protein dimerization activity	0.4223194470523	bayes_pls_golite062009
protein heterodimerization activity	0.32921284315242	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [117-345]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PYQRGIIRSL ILTLDCSEAM LEKDLRPNRH AMIIQYAIDF VHEFFDQNPI SQMGIIIMRN  60
   61 GLAQLVSQVS GNPQDHIDAL KSIRKQEPKG NPSLQNALEM ARGLLLPVPA HCTREVLIVF 120
  121 GSLSTTDPGD IHQTIDSLVS EKIRVKVLGL SAQVAICKEL CKATNYGDES FYKILLDETH 180
  181 LKELFNEAVT PLPVNKINKG FTLVKMGFPT RIFEDTPTFC SCHSKLVYG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	19.69897
Match:	1a8x__
Description:	No description for 1a8x__ was found.

Predicted Domain #3

Region A:
Residues: [346-461]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GYFCPNCHSK VCSLPTVCPC CDLMLILSTH LARSYHHLMP LKTFAEVPTT EKFRSEDCFS  60
   61 CQSRFPILKN HKNGKLLTSS RYRCEDCKQE FCVDCDVFIH EILHNCPGCE SKPVIT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	95.325697
Match:	1e53A_
Description:	TFIIH p44 subunit cysteine-rich domain

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: