YRC Public Data Repository - Protein Structure Prediction

Protein:	ubx3
Organism:	Schizosaccharomyces pombe
Length:	410 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 ubx3.

Description	E-value	Query Range	Subject Range
NSF1C_RAT - NSFL1 cofactor p47 OS=Rattus norvegicus GN=Nsfl1c PE=1 SV=1	278.0	[0..2]	[409..4]
NSF1C_MOUSE - NSFL1 cofactor p47 OS=Mus musculus GN=Nsfl1c PE=1 SV=1	277.0	[0..2]	[409..4]
gi\|27735468, gi\|... - gi\|27735468\|gb\|AAH41297.1\| Nsfl1c protein [Xenopus laevis], gi\|148235839\|ref\|NP_001080187.1\| p47 [Xe...	277.0	[0..4]	[410..6]
gi\|123993027, gi... - gi\|124000007\|gb\|ABM87512.1\| NSFL1 (p97) cofactor (p47) [synthetic construct], gi\|123993027\|gb\|ABM841... NSF1C_PONAB - NSFL1 cofactor p47 OS=Pongo abelii GN=NSFL1C PE=2 SV=1 NSFL1C - NSFL1 (p97) cofactor (p47) NSF1C_PONPY - NSFL1 cofactor p47 - Pongo pygmaeus (Orangutan) gi\|114680495, gi... - gi\|114680497\|ref\|XP_525244.2\| PREDICTED: p47 protein isoform 10 [Pan troglodytes], gi\|114680495\|ref\|...	277.0	[0..2]	[409..4]
NSF1C_BOVIN - NSFL1 cofactor p47 OS=Bos taurus GN=NSFL1C PE=2 SV=1	276.0	[0..2]	[409..4]
gi\|114680493 - gi\|114680493\|ref\|XP_001154020.1\| PREDICTED: p47 protein isoform 5 [Pan troglodytes]	276.0	[0..2]	[409..4]

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Predicted Domain #1

Region A:
Residues: [1-87]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDREDILKEF CNRNNIDVSQ GRFFLESTNW NYELATALLH EVIPPEEDHG LQPSSDVSKV  60
   61 PEVTGSSSGI SGGDQQPPRP LQRQQNT

[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 Domain #2

Region A:
Residues: [88-155]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QGQGMKSGTA SKKFATLRDL EGNDESAEEK SHLFTGGEKS GLSVEDGDPD PKKQLVRDIL  60
   61 EKARQHTI

[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: [156-283]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SPLDEQDSGP SSLASSWASV GQRLGTENEA SGSTTPVTQS GPPRENPPTE SQPEKPLRRT  60
   61 LYFWRNGFSV DDGPIYTYDD PANQEMLRYI NSGRAPLHLL GVSMNQPIDV VVQHRMDEDY 120
  121 VAPFKPFS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	11.522879
Match:	1vazA
Description:	Solution structures of the p47 SEP domain
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [284-410]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GKGQRLGSTY MQPRMSQMPG GLYTDTSTSS SVPINVKPNS TTPHASLQID ENKPTTRIQV  60
   61 RLSNGGRTVL TVNLSHTLHD IYEAVRAVSP GNFILSVPFP AKTLEDDPSV TVEAASLKNA 120
  121 SLVQKSL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	23.154902
Match:	1s3sG
Description:	Crystal structure of AAA ATPase p97/VCP ND1 in complex with p47 C
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