YRC Public Data Repository - Protein Structure Prediction

Protein:	SEM1
Organism:	Saccharomyces cerevisiae
Length:	89 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 SEM1.

Description	E-value	Query Range	Subject Range
gi\|60654499 - gi\|60654499\|gb\|AAX29940.1\| split hand/foot malformation ectrodactyly type 1 [synthetic construct]	61.0	[0..19]	[84..3]
gi\|73975821 - gi\|73975821\|ref\|XP_861304.1\| PREDICTED: similar to 26 proteasome complex subunit DSS1 (Deleted in sp...	59.0	[0..19]	[78..3]
gi\|186910257, gi... - gi\|186910257\|ref\|NP_001119562.1\| split hand/foot malformation (ectrodactyly) type 1 [Rattus norvegic... tr\|G1U1K1\|G1U1K1... - pep:novel chromosome:oryCun2:10:32533717:32554142:1 gene:ENSOCUG00000026246 transcript:ENSOCUT000000... gi\|149705532 - gi\|149705532\|ref\|XP_001494145.1\| PREDICTED: similar to 26 proteasome complex subunit DSS1 (Split han... gi\|109067428, gi... - gi\|109067432\|ref\|XP_001091523.1\| PREDICTED: split hand/foot malformation (ectrodactyly) type 1 isofo... CCDS5646.1_1 - null gi\|114614650, gi... - gi\|114614656\|ref\|XP_001170947.1\| PREDICTED: candidate for split hand/foot malformation type 1 isofor... ENSCJAT00000001070 - null SHFM1 - split hand/foot malformation (ectrodactyly) type 1 gi\|61364152 - gi\|61364152\|gb\|AAX42498.1\| split hand/foot malformation type 1 [synthetic construct] DSS1_BOVIN - 26S proteasome complex subunit DSS1 OS=Bos taurus GN=SHFM1 PE=3 SV=1 gi\|73975823 - gi\|73975823\|ref\|XP_850378.1\| PREDICTED: similar to 26 proteasome complex subunit DSS1 (Deleted in sp... DSS1_MOUSE - 26S proteasome complex subunit DSS1 OS=Mus musculus GN=Shfm1 PE=3 SV=1 tr\|M3X6E9\|M3X6E9... - Uncharacterized protein OS=Felis catus GN=SHFM1 PE=4 SV=1	59.0	[0..19]	[84..3]
gi\|118085851, gi... - gi\|53133250\|emb\|CAG31976.1\| hypothetical protein [Gallus gallus], gi\|148230468\|ref\|NP_001078908.1\| s... gi\|146198719, gi... - gi\|197128289\|gb\|ACH44787.1\| putative split hand/foot deleted gene 1 [Taeniopygia guttata], gi\|197128...	58.0	[0..19]	[84..3]
gi\|114599354 - gi\|114599354\|ref\|XP_001149101.1\| PREDICTED: hypothetical protein [Pan troglodytes]	58.0	[0..19]	[84..3]
gi\|89269836, gi\|... - gi\|89269836\|emb\|CAJ83830.1\| split hand/foot malformation (ectrodactyly) type 1 [Xenopus tropicalis],...	57.0	[0..16]	[84..1]
gi\|51593680, gi\|... - gi\|51593680\|gb\|AAH78531.1\| Shfm1 protein [Xenopus laevis], gi\|51593239\|gb\|AAH78503.1\| Shfm1 protein ...	56.0	[0..16]	[84..1]
gi\|45767825, gi\|... - gi\|45767825\|gb\|AAH67682.1\| Split hand/foot malformation (ectrodactyly) type 1 [Danio rerio], gi\|4105... gi\|47222233 - gi\|47222233\|emb\|CAG11112.1\| unnamed protein product [Tetraodon nigroviridis]	55.0	[0..19]	[84..3]
gi\|42550616, gi\|... - gi\|46116298\|ref\|XP_384167.1\| hypothetical protein FG03991.1 [Gibberella zeae PH-1], gi\|42550616\|gb\|E...	55.0	[0..19]	[78..15]

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Predicted Domain #1

Region A:
Residues: [1-89]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSTDVAAAQA QSKIDLTKKK NEEINKKSLE EDDEFEDFPI DTWANGETIK SNAVTQTNIW  60
   61 EENWDDVEVD DDFTNELKAE LDRYKRENQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	9.522879
Match:	1iyjA
Description:	STRUCTURE OF A BRCA2-DSS1 COMPLEX
Matching Structure (courtesy of the PDB):

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