YRC Public Data Repository - Protein Structure Prediction

Protein:	VPS9A_ARATH
Organism:	Arabidopsis thaliana
Length:	520 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 VPS9A_ARATH.

Description	E-value	Query Range	Subject Range
gi\|79313297 - gi\|79313297\|ref\|NP_001030728.1\| VPS9A; Rho guanyl-nucleotide exchange factor [Arabidopsis thaliana]	422.0	[0..139]	[520..3]
gi\|108707310, gi... - gi\|222624609\|gb\|EEE58741.1\| hypothetical protein OsJ_10226 [Oryza sativa Japonica Group], gi\|1087073...	378.0	[0..6]	[438..15]
gi\|108872070, gi... - gi\|157129858\|ref\|XP_001661788.1\| rab gdp/gtp exchange factor [Aedes aegypti], gi\|108872070\|gb\|EAT362...	337.0	[0..11]	[511..6]
gi\|114613805 - gi\|114613805\|ref\|XP_519132.2\| PREDICTED: RAB guanine nucleotide exchange factor (GEF) 1 [Pan troglod...	321.0	[0..1]	[348..472]
gi\|110766814 - gi\|110766814\|ref\|XP_396181.3\| PREDICTED: similar to CG9139-PA isoform 1 [Apis mellifera]	315.0	[0..10]	[494..38]
gi\|91091282 - gi\|91091282\|ref\|XP_966431.1\| PREDICTED: similar to rab gdp/gtp exchange factor isoform 1 [Tribolium ...	314.0	[0..24]	[497..146]

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Predicted Domain #1

Region A:
Residues: [1-259]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MENTDVFLGL HDFLERMRKP SAGDFVKSIK SFIVSFSNNA PDPEKDCAMV QEFFSKMEAA  60
   61 FRAHPLWSGC SEEELDSAGD GLEKYVMTKL FTRVFASNTE EVIADEKLFQ KMSLVQQFIS 120
  121 PENLDIQPTF QNESSWLLAQ KELQKINMYK APRDKLVCIL NCCKVINNLL LNASIASNEN 180
  181 APGADEFLPV LIYVTIKANP PQLHSNLLYI QRYRRESKLV GEAAYFFTNI LSAESFISNI 240
  241 DAKSISLDEA EFEKNMESA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	70.30103
Match:	1txuA
Description:	Crystal Structure of the Vps9 Domain of Rabex-5
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [260-343]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RARISGLDSQ TYQTGHGSAP PPRDESTLQK TQSLNPKREN TLFQSKSSDS LSGTNELLNI  60
   61 NSETPMKKAE SISDLENKGA TLLK

[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.

Predicted Domain #3

Region A:
Residues: [344-520]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DTEPSKVFQE YPYIFASAGD LRIGDVEGLL NSYKQLVFKY VCLTKGLGDG TSLAPSSSPL  60
   61 QASSGFNTSK ESEDHRRSSS DVQMTKETDR SVDDLIRALH GEGEDVNNLS DVKHEEYGAM 120
  121 LVEGKDEERD SKVQGEVDAK DIELMKQIPK REGDNSSSRP AEDEDVGSKQ PVTEASE

[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