YRC Public Data Repository - Protein Structure Prediction

Protein:	ypt4
Organism:	Schizosaccharomyces pombe
Length:	234 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 ypt4.

Description	E-value	Query Range	Subject Range
gi\|148230336, gi... - gi\|27924279\|gb\|AAH45014.1\| Rab1-prov protein [Xenopus laevis], gi\|148230336\|ref\|NP_001080138.1\| RAB1... gi\|52345478, gi\|... - gi\|52345478\|ref\|NP_001004787.1\| RAB1A, member RAS oncogene family [Xenopus (Silurana) tropicalis], g...	215.0	[0..1]	[213..1]
gi\|50738954 - gi\|50738954\|ref\|XP_419342.1\| PREDICTED: similar to ras-related protein [Gallus gallus]	214.0	[0..7]	[214..197]
rab-1 - RAS-related protein status:Confirmed UniProt:Q9UAQ6 protein_id:AAC69218.1	214.0	[0..1]	[214..1]
gi\|109511883 - gi\|109511883\|ref\|XP_001061706.1\| PREDICTED: similar to Ras-related protein Rab-1B [Rattus norvegicus...	213.0	[0..5]	[213..91]
gi\|114638536 - gi\|114638536\|ref\|XP_001150399.1\| PREDICTED: similar to RAB1B, member RAS oncogene family [Pan troglo...	213.0	[0..3]	[213..56]
gi\|1616614 - gi\|1616614\|emb\|CAA69701.1\| small GTP-binding protein [Nicotiana plumbaginifolia]	212.0	[0..5]	[215..4]
RAB1_DIPOM - Ras-related protein ORAB-1 OS=Diplobatis ommata PE=2 SV=1	212.0	[0..5]	[214..4]
CRE16067, FL81_1... - RP15185 WBGene00061078 locus:Cre-rab-1 status:Confirmed, null gi\|157761211 - gi\|157761211\|ref\|XP_001672948.1\| Hypothetical protein CBG01077 [Caenorhabditis briggsae AF16] gi\|39588485, gi\|... - gi\|39588485\|emb\|CAE58008.1\| Hypothetical protein CBG01077 [Caenorhabditis briggsae], gi\|187038224\|em...	212.0	[0..1]	[214..1]
gi\|7643790 - gi\|7643790\|gb\|AAF65510.1\| small GTP-binding protein [Capsicum annuum]	212.0	[0..5]	[215..4]
gi\|109105440 - gi\|109105440\|ref\|XP_001118047.1\| PREDICTED: similar to RAB1B, member RAS oncogene family [Macaca mul...	212.0	[0..5]	[213..74]

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Predicted Domain #1

Region A:
Residues: [1-234]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDKESYDYLV KIVLAGPSGT GKSCLLQRFV KNQWDDQVSH TVGIDFASRI ISVGMGNQQK  60
   61 RIKLQIWDTA GQEKFRSVAR NYYRGAAGAV LVYDVTNKDS FEELSSWLSD IRAMAPSTIC 120
  121 VVLAGSKSDL QNQRQVSTEE AAEFCSEKHI SSAHETSSYT GSNVEECFLS VVSTIITRIE 180
  181 LGEIDPQDQS LGIQYGDLSF RRPVHPSSTS NWWTSITNWD DLVRLERQTR SYCC

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	47.69897
Match:	2bmdA
Description:	high resolution structure of GDP-bound human Rab4a
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