YRC Public Data Repository - Protein Structure Prediction

Protein:	TNFB_MOUSE
Organism:	Mus musculus
Length:	202 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 TNFB_MOUSE.

Description	E-value	Query Range	Subject Range
TNFA_MACMU - Tumor necrosis factor OS=Macaca mulatta GN=TNF PE=2 SV=1	268.0	[0..3]	[202..24]
TNFA_SHEEP - Tumor necrosis factor OS=Ovis aries GN=TNF PE=2 SV=2	268.0	[0..3]	[202..24]
TNFA_CAPHI - Tumor necrosis factor OS=Capra hircus GN=TNF PE=2 SV=2	268.0	[0..3]	[202..24]
TNFA_PAPHU - Tumor necrosis factor OS=Papio hamadryas ursinus GN=TNF PE=2 SV=1	266.0	[0..3]	[202..24]
TNF - tumor necrosis factor gi\|123996347, gi... - gi\|61358334\|gb\|AAX41550.1\| tumor necrosis factor [synthetic construct], gi\|208968003\|dbj\|BAG73840.1\|... gi\|114606345, gi... - gi\|90960856\|dbj\|BAE92774.1\| tumor necrosis factor alpha [Pan troglodytes], gi\|90960853\|dbj\|BAE92772....	266.0	[0..3]	[202..24]
gi\|3805811 - gi\|3805811\|emb\|CAA75070.1\| tumor necrosis facor [Homo sapiens] TNFA_PANTR - Tumor necrosis factor OS=Pan troglodytes GN=TNF PE=3 SV=2	266.0	[0..3]	[202..24]
gi\|60828080 - gi\|60828080\|gb\|AAX36827.1\| tumor necrosis factor [synthetic construct]	266.0	[0..3]	[202..24]

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Predicted Domain #1

Region A:
Residues: [1-69]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTLLGRLHLL RVLGTPPVFL LGLLLALPLG AQGLSGVRFS AARTAHPLPQ KHLTHGILKP  60
   61 AAHLVGYPS

[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: [70-202]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KQNSLLWRAS TDRAFLRHGF SLSNNSLLIP TSGLYFVYSQ VVFSGESCSP RAIPTPIYLA  60
   61 HEVQLFSSQY PFHVPLLSAQ KSVYPGLQGP WVRSMYQGAV FLLSKGDQLS THTDGISHLH 120
  121 FSPSSVFFGA FAL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	44.39794
Match:	1tnrA
Description:	Tumor necrosis factor (TNF)
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