YRC Public Data Repository - Protein Structure Prediction

Protein:	VPS28
Organism:	Saccharomyces cerevisiae
Length:	242 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 VPS28.

Description	E-value	Query Range	Subject Range
VPS28 - Component of the ESCRT-I complex (Stp22p, Srn2p, Vps28p, and Mvb12p), which is involved in ubiquitin... VPS28_YEAST - Vacuolar protein sorting-associated protein 28 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S28...	3.0E-92	[1..242]	[1..242]
gi\|33416656, gi\|... - gi\|33416656\|gb\|AAH56011.1\| Vps28-prov protein [Xenopus laevis], gi\|148234793\|ref\|NP_001080785.1\| vac... gi\|62858721, gi\|... - gi\|89266860\|emb\|CAJ82587.1\| vacuolar protein sorting 28 (yeast) [Xenopus tropicalis], gi\|62858721\|re...	3.0E-90	[14..241]	[16..219]
VPS28 - vacuolar protein sorting 28 homolog (S. cerevisiae)	4.0E-90	[14..241]	[16..219]
VPS28_MOUSE - Vacuolar protein sorting-associated protein 28 homolog OS=Mus musculus GN=Vps28 PE=1 SV=1	8.0E-90	[14..241]	[16..219]
gi\|149066083, gi... - gi\|27662178\|ref\|XP_216962.1\| PREDICTED: similar to vacuolar protein sorting 28 [Rattus norvegicus], ...	1.0E-89	[14..241]	[16..219]
gi\|49646080, gi\|... - gi\|49646080\|emb\|CAG84148.1\| YALI0A18722p [Yarrowia lipolytica], gi\|18076962\|emb\|CAC86012.1\| vps28 pr... gi\|50545355, gi\|... - gi\|50545355\|ref\|XP_500215.1\| YALI0A18722p [Yarrowia lipolytica], gi\|49646080\|emb\|CAG84148.1\| YlVPS28...	1.0E-82	[18..242]	[21..246]
AGAP005344-PA - vacuolar protein sorting-associated protein 28 homolog\|protein_coding\|2L:14295886:14296518:1\|gene:AG... gi\|21298618, gi\|... - gi\|31212745\|ref\|XP_315357.1\| AGAP005344-PA [Anopheles gambiae str. PEST], gi\|21298618\|gb\|EAA10763.1\|...	1.0E-81	[12..241]	[2..207]
gi\|195551440, gi... - gi\|195581436\|ref\|XP_002080540.1\| GD10195 [Drosophila simulans], gi\|195551440\|ref\|XP_002076228.1\| GD1... gi\|220954754, gi... - gi\|220954754\|gb\|ACL89920.1\| Vps28-PA [synthetic construct], gi\|220944976\|gb\|ACL85031.1\| Vps28-PA [sy... gi\|194124824, gi... - gi\|195332335\|ref\|XP_002032854.1\| GM20728 [Drosophila sechellia], gi\|194124824\|gb\|EDW46867.1\| GM20728... FBpp0302051, Vps... - The gene Vacuolar protein sorting 28 is referred to in FlyBase by the symbol Dmel\Vps28 (CG12770, FB...	1.0E-79	[12..241]	[2..207]
VP281_ARATH, V28... - Vacuolar protein sorting-associated protein 28 homolog 1 - Arabidopsis thaliana (Mouse-ear cress), (...	1.0E-77	[21..241]	[2..204]

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Predicted Domain #1

Region A:
Residues: [1-242]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MQKHNIKLNQ NQDISQLFHD EVPLFDNSIT SKDKEVIETL SEIYSIVITL DHVEKAYLKD  60
   61 SIDDTQYTNT VDKLLKQFKV YLNSQNKEEI NKHFQSIEAF CDTYNITASN AITRLERGIP 120
  121 ITAEHAISTT TSAPSGDNKQ SSSSDKKFNA KYVAEATGNF ITVMDALKLN YNAKDQLHPL 180
  181 LAELLISINR VTRDDFENRS KLIDWIVRIN KLSIGDTLTE TQIRELLFDL ELAYKSFYAL 240
  241 LD

[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
binding	1.84486828479515	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [148-242]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FNAKYVAEAT GNFITVMDAL KLNYNAKDQL HPLLAELLIS INRVTRDDFE NRSKLIDWIV  60
   61 RINKLSIGDT LTETQIRELL FDLELAYKSF YALLD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	38.0
Match:	2j9vA
Description:	No description for 2j9vA was found.

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: