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Job DescriptionALS______
Confidence100.00%DateThu Feb 9 13:17:35 GMT 2012
Rank1Aligned Residues535
% Identity21%Templatec3fxiA_
PDB info PDB header:immune systemChain: A: PDB Molecule:toll-like receptor 4; PDBTitle: crystal structure of the human tlr4-human md-2-e.coli lps ra complex
Resolution3.10 Å

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


   43......50.........60.........70.........80.........90.........100.........110.........120..
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Query Sequence  AACVCSYDDDADELSVFCSSRNLTRLPDGVPGGTQALWLDGNNLSSVPPAAFQNLSSLGFLNLQGGQLGSLEPQALLGLE
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Template Conservation    
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Template Sequence  EPCVEVVPNIT. . . . YQCMELNFYKIPDNLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLS
Template Known Secondary structure 

STTT....

SS

SS


SS
SS



S




B
TT


S
TT


TT




TTSSTT
S
Template Predicted Secondary structure 




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   27..30....... ..40.........50.........60.........70.........80.........90.........100..
 
   123......130.........140.........150.........160.........170.........180........ .190.........200.
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Query Sequence  NLCHLHLERNQLRSLALGTFAHTPALASLGLSNNRLSRLEDGLFEGLGSLWDLNLGWNSLAVLPDA. AFRGLGSLRELVL
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Template Conservation   
  
 

 
 
  
    
  
  
  
 

 
 
  
       
  
  
 

 
                
  
  
Template Sequence  HLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL
Template Known Secondary structure  S


TT




TTTTTT
TT


TTS



STT
TTTT
TT



SS







GGGTT
TT


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   103......110.........120.........130.........140.........150.........160.........170.........180..
 
   202.......210.........220.........230.........240...
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Query Sequence  AGNRLAYLQPALFSGLAELRELDLSRNALRAIKANVFVQLPR. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Query Conservation                                            ......................................
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Template Conservation                       
                                                          
Template Sequence  SSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGE
Template Known Secondary structure 
SS



GGGGTTGGG
SS



TT




TTTTTT
S

SSTTT

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   183......190.........200.........210.........220.........230.........240.........250.........260..
 
   244.....250.........260.........270.........280.........290.........300.....
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Query Sequence  . . . . . . . . . . . . . . . . . . LQKLYLDRNLIAAVAPGAFLGLKALRWLDLSHNRVAGLLEDTFPGLLGLRVLRLSHNAIASL
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Template Conservation                                                                                  
Template Sequence  FRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKF
Template Known Secondary structure 
TTS


S


TTTTGGGGGSSS



STTTSGGGSS
SB
TT









SS
B
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   263......270.........280.........290.........300.........310.........320.........330.........340..
 
   306...310.........320.........330.........340.........350.........360.........370.........380.....
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Query Sequence  RPRTFKDLHFLEELQLGHNRIRQLAERSFEGLGQLEVLTLDHNQLQEVKAGAFLGLTNVAVMNLSGNCLRNLPEQVFRGL
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Template Conservation                                  
                                               
Template Sequence  GQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLE
Template Known Secondary structure  SS





SS

S
BS
SB





TT



SS

BT
S




S
ST
T
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   343......350.........360.........370.........380.........390.........400.........410.........420..
 
   386...390.........400.........410.........420.........430.........440........ .450.........460....
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Query Sequence  GKLHSLHLEGSCLGRIRPHTFTGLSGLRRLFLKDNGLVGIEEQSLWGLAELLELDLTSNQLTH. LPHRLFQGLGKLEYLL
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Template Conservation   
                        
                       
  
                     
  
 
Template Sequence  QLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLD
Template Known Secondary structure  T


TTSSTBTTBTTTT
TT


TTS


B

TTTTTT
SS



B
TT

BGGG


S

TT

S



B
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   423......430.........440.........450.........460.........470.........480.........490.........500..
 
   465....470.........480.........490.........500.........510.........520.... .....530.........
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Query Sequence  LSRNRLAELPADALGPLQRAFWLDVSHNRLEALPNSLLAPLGRLRYLSLRNNSLRTFTPQ. . . . . PPGLERLWLEGNPWD
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Template Conservation 

 
 
  
    
  
  
  
 

 
 
  
       
  
  
 

 
 
              
  
 
  
   
Template Sequence  LSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFA
Template Known Secondary structure 
TTS


S

TTSGGG
SS



B
TTS

SS


SGGGG
TT






SS




S


TT


TT






S



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   503......510.........520.........530.........540.........550.........560.........570.........580..
 
   540.........550.........560.........570.........580.........590........
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Query Sequence  CGCPLKALRDFALQNPSAVPRFVQAICEGDDCQPPAYTYNNITCASPPEVVGLDLRDLS
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Template Conservation 
 
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Template Sequence  CTCEHQSFLQWIKDQRQLLVEVE. . . . . . . . . . . . . . . . . RMECATPSDKQGMPVLSLN
Template Known Secondary structure 
SGGGTTTT


GG.................G
B

S
SSS
SSBTTS

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   583......590.........600..... ....610.........620....
 
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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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