YRC Public Data Repository - Protein Structure Prediction

Protein:	VPS8
Organism:	Saccharomyces cerevisiae
Length:	1274 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 VPS8.

Description	E-value	Query Range	Subject Range
VPS8_YEAST - Vacuolar protein sorting-associated protein 8 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288... VPS8 - Membrane-associated protein that interacts with Vps21p to facilitate soluble vacuolar protein locali...	0.0	[2..1274]	[2..1274]
gi\|21739302 - gi\|21739302\|emb\|CAD38698.1\| hypothetical protein [Homo sapiens]	0.0	[10..1269]	[2..1214]
gi\|42547631, gi\|... - gi\|46107998\|ref\|XP_381057.1\| hypothetical protein FG00881.1 [Gibberella zeae PH-1], gi\|42547631\|gb\|E...	0.0	[66..1264]	[196..1592]
gi\|28972407 - gi\|28972407\|dbj\|BAC65657.1\| mKIAA0804 protein [Mus musculus]	0.0	[8..1269]	[106..1291]
gi\|85119659 - gi\|85119659\|ref\|XP_965685.1\| hypothetical protein NCU02554 [Neurospora crassa OR74A] gi\|32422619, gi\|... - gi\|32422619\|ref\|XP_331753.1\| hypothetical protein [Neurospora crassa], gi\|28927497\|gb\|EAA36449.1\| co...	0.0	[86..1229]	[217..1511]
gi\|44984471 - gi\|44984471\|gb\|AAS53373.1\| AFR002Cp [Ashbya gossypii ATCC 10895] gi\|45198520, gi\|... - gi\|45198520\|ref\|NP_985549.1\| AFR002Cp [Ashbya gossypii ATCC 10895], gi\|44984471\|gb\|AAS53373.1\| AFR00...	0.0	[59..1269]	[48..1230]
gi\|40746961, gi\|... - gi\|67515925\|ref\|XP_657848.1\| hypothetical protein AN0244.2 [Aspergillus nidulans FGSC A4], ref\|XP_40...	0.0	[66..1256]	[199..1554]
gi\|46439390, gi\|... - gi\|68476414\|ref\|XP_717668.1\| hypothetical protein CaO19.12842 [Candida albicans SC5314], gi\|68476225... orf19.5387, orf1... - VPS8 CGDID:CAL0004411 Assembly 19, Contig19-10227 (35001, 30961) CDS, reverse complemented, translat...	0.0	[101..1268]	[81..1346]

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Predicted Domain #1

Region A:
Residues: [1-450]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEQNGLDHDS RSSIDTTIND TQKTFLEFRS YTQLSEKLAS SSSYTAPPLN EDGPKGVASA  60
   61 VSQGSESVVS WTTLTHVYSI LGAYGGPTCL YPTATYFLMG TSKGCVLIFN YNEHLQTILV 120
  121 PTLSEDPSIH SIRSPVKSIV ICSDGTHVAA SYETGNICIW NLNVGYRVKP TSEPTNGMTP 180
  181 TPALPAVLHI DDHVNKEITG LDFFGARHTA LIVSDRTGKV SLYNGYRRGF WQLVYNSKKI 240
  241 LDVNSSKEKL IRSKLSPLIS REKISTNLLS VLTTTHFALI LLSPHVSLMF QETVEPSVQN 300
  301 SLVVNSSISW TQNCSRVAYS VNNKISVISI SSSDFNVQSA SHSPEFAESI LSIQWIDQLL 360
  361 LGVLTISHQF LVLHPQHDFK ILLRLDFLIH DLMIPPNKYF VISRRSFYLL TNYSFKIGKF 420
  421 VSWSDITLRH ILKGDYLGAL EFIESLLQPY

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	40.69897
Match:	1nr0A_
Description:	Actin interacting protein 1
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	1.8484919978091	bayes_pls_golite062009
protein binding	1.42618832381942	bayes_pls_golite062009
transporter activity	1.21549336905926	bayes_pls_golite062009
substrate-specific transporter activity	0.734793983890004	bayes_pls_golite062009
hydrolase activity	0.36638536879917	bayes_pls_golite062009
cytoskeletal protein binding	0.359536347486199	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.00585398682921312	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [451-638]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 CPLANLLKLD NNTEERTKQL MEPFYNLSLA ALRFLIKKDN ADYNRVYQLL MVVVRVLQQS  60
   61 SKKLDSIPSL DVFLEQGLEF FELKDNAVYF EVVANIVAQG SVTSISPVLF RSIIDYYAKE 120
  121 ENLKVIEDLI IMLNPTTLDV DLAVKLCQKY NLFDLLIYIW NKIFDDYQTP VVDLIYRISN 180
  181 QSEKCVIF

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #3

Region A:
Residues: [639-772]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NGPQVPPETT IFDYVTYILT GRQYPQNLSI SPSDKCSKIQ RELSAFIFSG FSIKWPSNSN  60
   61 HKLYICENPE EEPAFPYFHL LLKSNPSRFL AMLNEVFEAS LFNDDNDMVA SVGEAELVSR 120
  121 QYVIDLLLDA MKDT

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #4

Region A:
Residues: [773-1091]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GNSDNIRVLV AIFIATSISK YPQFIKVSNQ ALDCVVNTIC SSRVQGIYEI SQIALESLLP  60
   61 YYHSRTTENF ILELKEKNFN KVLFHIYKSE NKYASALSLI LETKDIEKEY NTDIVSITDY 120
  121 ILKKCPPGSL ECGKVTEVIE TNFDLLLSRI GIEKCVTIFS DFDYNLHQEI LEVKNEETQQ 180
  181 KYLDKLFSTP NINNKVDKRL RNLHIELNCK YKSKREMILW LNGTVLSNAE SLQILDLLNQ 240
  241 DSNFEAAAII HERLESFNLA VRDLLSFIEQ CLNEGKTNIS TLLESLRRAF DDCNSAGTEK 300
  301 KSCWILLITF LITLYGKYP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	13.30103
Match:	1b89A_
Description:	Clathrin heavy chain proximal leg segment
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [1092-1190]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SHDERKDLCN KLLQEAFLGL VRSKSSSQKD SGGEFWEIMS SVLEHQDVIL MKVQDLKQLL  60
   61 LNVFNTYKLE RSLSELIQKI IEDSSQDLVQ QYRKFLSEG

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #6

Region A:
Residues: [1191-1274]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 WSIHTDDCEI CGKKIWGAGL DPLLFLAWEN VQRHQDMISV DLKTPLVIFK CHHGFHQTCL  60
   61 ENLAQKPDEY SCLICQTESN PKIV

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted functions:

Term	Confidence	Notes
binding	2.13191655110108	bayes_pls_golite062009
protein binding	1.69332800381364	bayes_pls_golite062009
small conjugating protein ligase activity	1.19185232032795	bayes_pls_golite062009
ubiquitin-protein ligase activity	1.18697373227452	bayes_pls_golite062009
hydrolase activity	0.737434311410924	bayes_pls_golite062009
catalytic activity	0.168711389690753	bayes_pls_golite062009
peptidase activity	0.0046487386791938	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:

Predicted functions: