YRC Public Data Repository - Protein Structure Prediction

Protein:	SNF8
Organism:	Saccharomyces cerevisiae
Length:	233 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 SNF8.

Description	E-value	Query Range	Subject Range
gi\|5670007 - gi\|5670007\|gb\|AAD46560.1\| ELL complex EAP30 subunit [Homo sapiens]	5.0E-95	[4..230]	[8..241]
gi\|120577573, gi... - gi\|147907030\|ref\|NP_001091233.1\| hypothetical protein LOC100037026 [Xenopus laevis], gi\|120577573\|gb... SNF8_MOUSE - Vacuolar-sorting protein SNF8 OS=Mus musculus GN=Snf8 PE=1 SV=1	2.0E-94	[4..230]	[8..241]
SNF8_YEAST - Vacuolar-sorting protein SNF8 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SNF8 PE=1 ... gi\|207340436 - gi\|207340436\|gb\|EDZ68785.1\| YPL002Cp-like protein [Saccharomyces cerevisiae AWRI1631] gi\|190407943 - gi\|190407943\|gb\|EDV11208.1\| vacuolar sorting protein SNF8 [Saccharomyces cerevisiae RM11-1a] gi\|151942790 - gi\|151942790\|gb\|EDN61136.1\| component of the ESCRT-II complex [Saccharomyces cerevisiae YJM789] SNF8 - Component of the ESCRT-II complex, which is involved in ubiquitin-dependent sorting of proteins into...	1.0E-92	[1..233]	[1..233]
lsn-PA - The gene larsen is referred to in FlyBase by the symbol Dmel\lsn (CG6637, FBgn0260940). It is a prot...	6.0E-92	[2..232]	[3..246]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	4.0E-91	[2..232]	[101..342]
gi\|21294747, gi\|... - gi\|31204723\|ref\|XP_311310.1\| AGAP000771-PA [Anopheles gambiae str. PEST], gi\|21294747\|gb\|EAA06892.1\|... AGAP000771-PA - Vacuolar-sorting protein SNF8\|protein_coding\|X:13860780:13861688:-1\|gene:AGAP000771	8.0E-90	[2..233]	[3..246]
gi\|85109821 - gi\|85109821\|ref\|XP_963104.1\| hypothetical protein NCU07843 [Neurospora crassa OR74A] gi\|28924756, gi\|... - gi\|32416142\|ref\|XP_328549.1\| hypothetical protein [Neurospora crassa], gi\|28924756\|gb\|EAA33868.1\| hy...	5.0E-83	[2..231]	[7..258]

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Predicted Domain #1

Region A:
Residues: [1-233]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKQFGLAAFD ELKDGKYNDV NKTILEKQSV ELRDQLMVFQ ERLVEFAKKH NSELQASPEF  60
   61 RSKFMHMCSS IGIDPLSLFD RDKHLFTVND FYYEVCLKVI EICRQTKDMN GGVISFQELE 120
  121 KVHFRKLNVG LDDLEKSIDM LKSLECFEIF QIRGKKFLRS VPNELTSDQT KILEICSILG 180
  181 YSSISLLKAN LGWEAVRSKS ALDEMVANGL LWIDYQGGAE ALYWDPSWIT RQL

[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.

Predicted functions:

Term	Confidence	Notes
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 repressor activity	3.85678231380989	bayes_pls_golite062009
binding	3.52874320222492	bayes_pls_golite062009
RNA polymerase II transcription factor activity	2.60738445921725	bayes_pls_golite062009
sequence-specific DNA binding	2.48053910222825	bayes_pls_golite062009
transcription activator activity	2.37668609508629	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	1.2723726467408	bayes_pls_golite062009
specific transcriptional repressor activity	0.96257232341735	bayes_pls_golite062009
transcription factor binding	0.85714789329232	bayes_pls_golite062009
protein binding	0.753698599635855	bayes_pls_golite062009
structure-specific DNA binding	0.750801486608713	bayes_pls_golite062009
specific RNA polymerase II transcription factor activity	0.66743181561551	bayes_pls_golite062009
signal transducer activity	0.574575108509588	bayes_pls_golite062009
molecular transducer activity	0.574575108509588	bayes_pls_golite062009
transcription corepressor activity	0.322180400748724	bayes_pls_golite062009
RNA polymerase II transcription factor activity, enhancer binding	0.23177057841536	bayes_pls_golite062009
hydrolase activity	0.140191206949582	bayes_pls_golite062009
ubiquitin-protein ligase activity	0.136726704233672	bayes_pls_golite062009
small conjugating protein ligase activity	0.118016217031359	bayes_pls_golite062009

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: