YRC Public Data Repository - Protein Structure Prediction

Protein:	SMB1
Organism:	Saccharomyces cerevisiae
Length:	196 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

[What does the above image mean?]

[Show Ginzu Version Information]

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 SMB1.

Description	E-value	Query Range	Subject Range
gi\|190247 - gi\|190247\|gb\|AAA60151.1\| snRNP polypeptide B [Homo sapiens]	134.0	[0..4]	[111..1]
gi\|114656016 - gi\|114656016\|ref\|XP_523182.2\| PREDICTED: hypothetical protein [Pan troglodytes]	133.0	[0..4]	[111..38]
RSMB_MACEU - Small nuclear ribonucleoprotein-associated protein B' OS=Macropus eugenii GN=SNRPB PE=2 SV=1	132.0	[0..4]	[116..1]
gi\|86438323 - gi\|86438323\|gb\|AAI12635.1\| SNRPB protein [Bos taurus]	131.0	[0..4]	[111..1]
gi\|112305, gi\|206694 - gi\|206694\|gb\|AAA42059.1\| snRNP-associated polypeptide N, pir\|\|A35448 small nuclear ribonucleoprotein...	131.0	[0..4]	[116..1]
gi\|57045593, gi\|... - gi\|73950980\|ref\|XP_848476.1\| PREDICTED: similar to small nuclear ribonucleoparticle-associated prote... gi\|149691049 - gi\|149691049\|ref\|XP_001492752.1\| PREDICTED: similar to small nuclear ribonucleoprotein polypeptide N...	131.0	[0..4]	[111..1]
gi\|114680545 - gi\|114680545\|ref\|XP_001155793.1\| PREDICTED: hypothetical protein LOC470014 isoform 1 [Pan troglodyte... gi\|119631003, gi... - gi\|45708426\|gb\|AAH03530.1\| SNRPB protein [Homo sapiens], gi\|194375339\|dbj\|BAG62782.1\| unnamed protei... gi\|109092660 - gi\|109092660\|ref\|XP_001113926.1\| PREDICTED: small nuclear ribonucleoprotein polypeptides B and B1 is...	130.0	[0..4]	[111..1]
gi\|3142634 - gi\|3142634\|gb\|AAC78612.1\| small nuclear ribonucleoprotein N [Mus musculus]	130.0	[0..4]	[111..1]

Back

Predicted Domain #1

Region A:
Residues: [1-131]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSKIQVAHSS RLANLIDYKL RVLTQDGRVY IGQLMAFDKH MNLVLNECIE ERVPKTQLDK  60
   61 LRPRKDSKDG TTLNIKVEKR VLGLTILRGE QILSTVVEDK PLLSKKERLV RDKKEKKQAQ 120
  121 KQTKLRKEKE K

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	172.626727
Match:	1d3bB
Description:	B core SNRNP protein
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [132-196]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KPGKIAKPNT ANAKHTSSNS REIAQPSSSR YNGGNDNIGA NRSRFNNEAP PQTRKFQPPP  60
   61 GFKRK

[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.

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