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5IJD
Biol. Unit 2
Info
Asym.Unit (262 KB)
Biol.Unit 1 (251 KB)
Biol.Unit 2 (129 KB)
Biol.Unit 3 (128 KB)
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(1)
Title
:
THE CRYSTAL STRUCTURE OF MOUSE TLR4/MD-2/LIPID A COMPLEX
Authors
:
Y. Wang, L. Su, M. D. Morin, B. T. Jones, L. R. Whitby, M. Surakattula, H. H H. Shi, J. H. Choi, K. Wang, E. M. Moresco, M. Berger, X. Zhan, H. Zhang, D B. Beutler
Date
:
01 Mar 16 (Deposition) - 27 Apr 16 (Release) - 04 May 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: A,C (1x)
Biol. Unit 3: B,D (1x)
Keywords
:
Immune Response, Protein Complex, Natural Agonist, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. Wang, L. Su, M. D. Morin, B. T. Jones, L. R. Whitby, M. M. Surakattula, H. Huang, H. Shi, J. H. Choi, K. W. Wang, E. M. Moresco, M. Berger, X. Zhan H. Zhang, D. L. Boger, B. Beutler
Tlr4/Md-2 Activation By A Synthetic Agonist With No Similarity To Lps.
Proc. Natl. Acad. Sci. Usa V. 113 E884 2016
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Hetero Components
(5, 13)
Info
All Hetero Components
1a: LAURIC ACID (DAOa)
1b: LAURIC ACID (DAOb)
2a: 2-DEOXY-3-O-[(3R)-3-HYDROXYTETRADE... (LP4a)
2b: 2-DEOXY-3-O-[(3R)-3-HYDROXYTETRADE... (LP4b)
3a: (R)-((2R,3S,4R,5R,6R)-3-HYDROXY-2-... (LP5a)
3b: (R)-((2R,3S,4R,5R,6R)-3-HYDROXY-2-... (LP5b)
4a: MYRISTIC ACID (MYRa)
4b: MYRISTIC ACID (MYRb)
5a: N-ACETYL-D-GLUCOSAMINE (NAGa)
5b: N-ACETYL-D-GLUCOSAMINE (NAGb)
5c: N-ACETYL-D-GLUCOSAMINE (NAGc)
5d: N-ACETYL-D-GLUCOSAMINE (NAGd)
5e: N-ACETYL-D-GLUCOSAMINE (NAGe)
5f: N-ACETYL-D-GLUCOSAMINE (NAGf)
5g: N-ACETYL-D-GLUCOSAMINE (NAGg)
5h: N-ACETYL-D-GLUCOSAMINE (NAGh)
5i: N-ACETYL-D-GLUCOSAMINE (NAGi)
5j: N-ACETYL-D-GLUCOSAMINE (NAGj)
5k: N-ACETYL-D-GLUCOSAMINE (NAGk)
5l: N-ACETYL-D-GLUCOSAMINE (NAGl)
5m: N-ACETYL-D-GLUCOSAMINE (NAGm)
5n: N-ACETYL-D-GLUCOSAMINE (NAGn)
5o: N-ACETYL-D-GLUCOSAMINE (NAGo)
5p: N-ACETYL-D-GLUCOSAMINE (NAGp)
5q: N-ACETYL-D-GLUCOSAMINE (NAGq)
5r: N-ACETYL-D-GLUCOSAMINE (NAGr)
5s: N-ACETYL-D-GLUCOSAMINE (NAGs)
View:
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Label:
No.
Name
Count
Type
Full Name
1
DAO
1
Ligand/Ion
LAURIC ACID
2
LP4
1
Ligand/Ion
2-DEOXY-3-O-[(3R)-3-HYDROXYTETRADECANOYL]-2-{[(3R)-3-HYDROXYTETRADECANOYL]AMINO}-4-O-PHOSPHONO-BETA-D-GLUCOPYRANOSE
3
LP5
1
Ligand/Ion
(R)-((2R,3S,4R,5R,6R)-3-HYDROXY-2-(HYDROXYMETHYL)-5-((R)-3-HYDROXYTETRADECANAMIDO)-6-(PHOSPHONOOXY)TETRAHYDRO-2H-PYRAN-4-YL) 3-HYDROXYTETRADECANOATE
4
MYR
1
Ligand/Ion
MYRISTIC ACID
5
NAG
9
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
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Sites
(10, 10)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AD2 (SOFTWARE)
08: AD3 (SOFTWARE)
09: AD6 (SOFTWARE)
10: AD7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER B:413 , ARG B:434 , ILE C:52 , VAL C:82 , LEU C:87 , ARG C:90 , PHE C:121 , GLU C:122 , GLY C:123 , ILE C:124 , PHE C:126 , CYS C:133 , LP4 C:204 , DAO C:206 , HOH C:313
binding site for residue LP5 C 205
02
AC2
SOFTWARE
SER A:413 , HOH A:881 , LEU D:87 , ARG D:90 , PHE D:121 , GLU D:122 , GLY D:123 , ILE D:124 , PHE D:151 , LP4 D:804 , DAO D:806
binding site for residue LP5 D 805
03
AC3
SOFTWARE
ASN A:204 , HIS A:228 , ARG A:256
binding site for Poly-Saccharide residues NAG A 701 through NAG A 702 bound to ASN A 204
04
AC4
SOFTWARE
ASN A:307
binding site for Mono-Saccharide NAG A 703 bound to ASN A 307
05
AC5
SOFTWARE
LEU A:466 , ASN A:492 , HOH A:855 , HOH A:871 , HOH D:916
binding site for Mono-Saccharide NAG A 704 bound to ASN A 492
06
AC6
SOFTWARE
SER A:502 , LYS A:503 , ASN A:524 , SER A:526 , TRP A:572 , HOH A:837
binding site for Poly-Saccharide residues NAG A 705 through NAG A 706 bound to ASN A 524
07
AD2
SOFTWARE
GLU C:64 , ASN C:114 , HOH C:301
binding site for Mono-Saccharide NAG C 201 bound to ASN C 114
08
AD3
SOFTWARE
ASP C:38 , ARG C:132 , ASN C:150
binding site for Poly-Saccharide residues NAG C 202 through NAG C 203 bound to ASN C 150
09
AD6
SOFTWARE
LYS A:263 , VAL C:61 , LEU C:78 , GLU C:92 , TYR C:102 , SER C:120 , LP5 C:205 , MYR C:207 , HOH C:311
binding site for residues LP4 C 204 and DAO C 206
10
AD7
SOFTWARE
LYS A:263 , VAL C:61 , PHE C:76 , TYR C:102 , SER C:120 , PHE C:151 , LP5 C:205 , DAO C:206 , HOH C:311
binding site for residues LP4 C 204 and MYR C 207
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
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Exons
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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SCOP Domains
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CATH Domains
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Pfam Domains
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Asymmetric Unit 1
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Asym.Unit (262 KB)
Header - Asym.Unit
Biol.Unit 1 (251 KB)
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Biol.Unit 2 (129 KB)
Header - Biol.Unit 2
Biol.Unit 3 (128 KB)
Header - Biol.Unit 3
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