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Job DescriptionQ9ERV7
Confidence99.93%DateWed Jul 10 14:21:35 BST 2013
Rank13Aligned Residues251
% Identity36%Templatec4g8aB_
PDB info PDB header:immune systemChain: B: PDB Molecule:toll-like receptor 4; PDBTitle: crystal structure of human tlr4 polymorphic variant d299g and t399i in2 complex with md-2 and lps
Resolution2.40 Å
Model Dimensions (Å)X:58.477 Y:97.058 Z:37.140

  Insertion relative to template
  Deletion relative to template
  Catalytic residue from the CSA
 
Detailed help on interpreting your alignment


   32.......40.........50.........60.........70.........80.........90.
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Query Sequence  PGAPFLPAGNQLNLDLRPGGCHRLQYLCSQQPPQLLQVEFLRLSTHEDPQLLDDTLAKVP
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Template Conservation    

  
   
  
 

 
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Template Sequence  YKIPDNLPFSTKNLDLSFNP. . . LRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAY. . . .
Template Known Secondary structure  SS

S
S
TT



S

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TTTTTT
TT
S
TT




TTTT....
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   46...50.........60..... ....70.........80.........90........
 
   92.......100.........110.........120.........130.........140........ .150
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Query Sequence  WSLLRLRSLVLKGGQSRGALGACLHGTLTTLPAGLSDLACLAHLDLSFNRLETLPTC. VP
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Template Conservation    
  
  
 

 
 
  
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Template Sequence  QSLSHLSTLILTGNPIQSLAL. . . . . . . . . . . GAFSGLSSLQKLVAVETNLASLENFPIG
Template Known Secondary structure  TT
TT


TT


S
T...........TTTTT
TT


TTS



STT
S
T
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   99100.........110......... 120.........130.........140.......
 
   151........160....... ..170.........180
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Query Sequence  ELHGLDALLLSHNHLSE. . LPEALGALPALTF. . . . . . . . . . . . . . . . . . . . . . . . . . . .
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Template Conservation   
  
  
 

 
             
  
  
                           
Template Sequence  HLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLS
Template Known Secondary structure  T
TT



SS







GGGGT
TT



SS



GGGGGGGGG





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   148.150.........160.........170.........180.........190.........200.......
 
  
Predicted Secondary structure  ............................................................
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Query Sequence  . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Query Conservation  ............................................................
Template Conservation                                                              
Template Sequence  LDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEG
Template Known Secondary structure 
TT




TTTTTT
S

SSTTTT


TTS
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   208.210.........220.........230.........240.........250.........260.......
 
  
Predicted Secondary structure  ............................................................
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Query Sequence  . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Query Conservation  ............................................................
Template Conservation                                                              
Template Sequence  NLEKFDKSALEGLCNLTIEEFRLAYLDYYLDGIIDLFNCLTNVSSFSLVSVTIERVKDFS
Template Known Secondary structure 

S


TTTTGGGGGS

SS

TTTTGGGTT
SS

GGGG
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   268.270.........280.........290.........300.........310.........320.......
 
  
Predicted Secondary structure  ............................................................
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Query Sequence  . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Query Conservation  ............................................................
Template Conservation                                                              
Template Sequence  YNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSF
Template Known Secondary structure  S



SS
SS



B
TT

S


B



B
TT



SS

B
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   328.330.........340.........350.........360.........370.........380.......
 
  
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Query Sequence  . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Query Conservation  ............................................................
Template Conservation                                      
                       
Template Sequence  KGCCSQSDFGTISLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLR
Template Known Secondary structure 
ST
S




S
S
S

TT
TT


TTSSTTSS
TTTT
T
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   388.390.........400.........410.........420.........430.........440.......
 
   181........ 190.........200.........210.. .......220.........230...
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Query Sequence  . . . . LTVTHNRLE. RLPLTLGSLSTLQRLDLSENLLD. . TIPSEIGNLRSLSELNLASNR
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Template Conservation                           
  
                  
  
  
 

 
 
Template Sequence  NLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ
Template Known Secondary structure  T


TTS



TTTTTT
TT


TT
GGG
S

TT
TT


TTS
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   448.450.........460.........470.........480.........490.........500.......
 
   234... ..240.........250.........260 .........270.........280......
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Query Sequence  LQSL. PASLAGLRSLRLLVLHSNLLTSV. PTGLVHLPLITRLDLRDNRLRDLPAE. . . . .
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Template Conservation 
  
    
  
  
  
 

 
 
  
       
  
  
 

 
 
          
Template Sequence  LEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHF
Template Known Secondary structure 


TTTTTT
TT



SS

SB


GGGTT
TT


TTS


B

TGGGS

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   508.510.........520.........530.........540.........550.........560.......
 
   287..290.........300
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Query Sequence  LLDAPFVRLQGNPL
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Template Conservation     
  
 
  
  
Template Sequence  PSSLAFLNLTQNDF
Template Known Secondary structure 
TT



S

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   568.570.........580.
 
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Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
 
© Structural Bioinformatics Group, Imperial College, London
Lawrence Kelley, Benjamin Jefferys 
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