YRC Public Data Repository - Protein Structure Prediction

Protein:	SSF2
Organism:	Saccharomyces cerevisiae
Length:	453 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 SSF2.

Description	E-value	Query Range	Subject Range
SSF1 - Constituent of 66S pre-ribosomal particles, required for ribosomal large subunit maturation; functio... gi\|151944010 - gi\|151944010\|gb\|EDN62303.1\| suppressor of swi4 (four) [Saccharomyces cerevisiae YJM789] SSF1_YEAST - Ribosome biogenesis protein SSF1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SSF1 PE...	593.0	[0..1]	[453..1]
gi\|119604482, gi... - gi\|99028871\|ref\|NP_001035754.1\| PPAN-P2RY11 protein [Homo sapiens], gi\|119604482\|gb\|EAW84076.1\| hCG2... gi\|189442454 - gi\|189442454\|gb\|AAI67833.1\| PPAN-P2RY11 readthrough transcript [synthetic construct]	546.0	[0..3]	[453..6]
gi\|73986991 - gi\|73986991\|ref\|XP_533920.2\| PREDICTED: similar to Suppressor of SWI4 1 homolog (Ssf-1) (Peter Pan h...	543.0	[0..3]	[452..6]
gi\|109123340 - gi\|109123340\|ref\|XP_001100207.1\| PREDICTED: peter pan homolog isoform 1 [Macaca mulatta]	539.0	[0..3]	[453..6]
gi\|114675282 - gi\|114675282\|ref\|XP_001150990.1\| PREDICTED: PPAN-P2RY11 protein [Pan troglodytes]	537.0	[0..3]	[453..6]
SSF1_MOUSE - Suppressor of SWI4 1 homolog OS=Mus musculus GN=Ppan PE=2 SV=1	516.0	[0..3]	[452..6]
gi\|58865536, gi\|... - gi\|58865536\|ref\|NP_001011980.1\| peter pan homolog [Rattus norvegicus], gi\|58476466\|gb\|AAH89842.1\| Pe...	504.0	[0..3]	[452..6]
gi\|86826797, gi\|... - gi\|86826797\|gb\|AAI12866.1\| PPAN-P2RY11 readthrough transcript [Bos taurus], gi\|114053139\|ref\|NP_0010...	494.0	[0..3]	[445..6]

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Predicted Domain #1

Region A:
Residues: [1-225]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAKRRQKKRT HAQITPEQER DIPKSMVIRV GQTSLANHSL NQLVKDFRQI MQPHTAVKLK  60
   61 ERKSNKLKDF VVMCGPLGVT HLFMFTQSEK TGNVSLKIAR TPQGPTVTFQ VLDYSLGRDI 120
  121 KKFLKRPKSL NNDDVLNPPL LVLNGFSTSK RSDEDDQDVN VEKVIVSMFQ NIFPPLNPAR 180
  181 TSLNSIKRIF MINKDRETGE ISMRHYFIDI REVEISRNLK RLYKA

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	4.09
Match:	2cxhA
Description:	Crystal structure of probable ribosomal biogenesis protein from Aeropyrum pernix K1
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [226-384]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KNNLSKTVPN LHRKEDISSL ILDHDLGAYT SESEIEDDAI VRVVDNQDVK AKHSQTSLSQ  60
   61 KTPVKMTDNE EREKGIEEED VEMEEPKPSE NSQPTPRKKA IKLTELGPRL TLKLVKIEDG 120
  121 ICSGKVLHHE FVQKSSEEIK ALEKRHAAKM RLKEQRRKE

[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 #3

Region A:
Residues: [385-453]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QEENIAKKKA VKDAKKQRKL ERRKARAEEQ GEGQGKDGAM SDDGSSSSED EHYSDVPEDL  60
   61 DSDLFSEVE

[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.

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