YRC Public Data Repository - Protein Structure Prediction

Protein:	TNFL4_MOUSE
Organism:	Mus musculus
Length:	198 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 TNFL4_MOUSE.

Description	E-value	Query Range	Subject Range
TNFL4_RAT - Tumor necrosis factor ligand superfamily member 4 OS=Rattus norvegicus GN=Tnfsf4 PE=2 SV=1	361.0	[0..1]	[198..1]
TNFSF4 - tumor necrosis factor (ligand) superfamily, member 4	310.0	[0..4]	[183..2]
gi\|114565479 - gi\|114565479\|ref\|XP_001148146.1\| PREDICTED: tumor necrosis factor (ligand) superfamily, member 4 iso...	309.0	[0..4]	[183..2]
gi\|54696146, gi\|... - gi\|61367895\|gb\|AAX43063.1\| tumor necrosis factor superfamily member 4 [synthetic construct], gi\|5469...	309.0	[0..4]	[183..2]
gi\|109019538 - gi\|109019538\|ref\|XP_001101190.1\| PREDICTED: tumor necrosis factor (ligand) superfamily, member 4 (ta... CCDS1306.1_1 - null	308.0	[0..4]	[183..2]
TNFL4_RABIT - Tumor necrosis factor ligand superfamily member 4 OS=Oryctolagus cuniculus GN=TNFSF4 PE=2 SV=1	285.0	[0..4]	[185..2]
gi\|114794354, gi... - gi\|114794355\|pdb\|2HEY\|G Chain G, Crystal Structure Of Murine Ox40l Bound To Human Ox40, gi\|114794354...	278.0	[0..49]	[198..3]
gi\|76668251 - gi\|76668251\|ref\|XP_589595.2\| PREDICTED: similar to tumor necrosis factor receptor superfamily, membe...	264.0	[0..4]	[183..2]
gi\|57089417 - gi\|57089417\|ref\|XP_547459.1\| PREDICTED: similar to Tumor necrosis factor ligand superfamily member 4...	257.0	[0..4]	[184..2]

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Predicted Domain #1

Region A:
Residues: [1-198]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEGEGVQPLD ENLENGSRPR FKWKKTLRLV VSGIKGAGML LCFIYVCLQL SSSPAKDPPI  60
   61 QRLRGAVTRC EDGQLFISSY KNEYQTMEVQ NNSVVIKCDG LYIIYLKGSF FQEVKIDLHF 120
  121 REDHNPISIP MLNDGRRIVF TVVASLAFKD KVYLTVNAPD TLCEHLQIND GELIVVQLTP 180
  181 GYCAPEGSYH STVNQVPL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	75.221849
Match:	2hewF
Description:	No description for 2hewF was found.

Predicted functions:

Term	Confidence	Notes
tumor necrosis factor receptor binding	4.97032095500332	bayes_pls_golite062009
tumor necrosis factor receptor superfamily binding	2.83043724362524	bayes_pls_golite062009
receptor binding	2.30826967264465	bayes_pls_golite062009
protein binding	2.25413201891408	bayes_pls_golite062009
CD40 receptor binding	1.92939268560534	bayes_pls_golite062009
binding	1.55055236820725	bayes_pls_golite062009
cell surface binding	1.54737106887049	bayes_pls_golite062009
eukaryotic cell surface binding	1.02834426035531	bayes_pls_golite062009

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: