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5IJC
Asym. Unit
Info
Asym.Unit (263 KB)
Biol.Unit 1 (253 KB)
Biol.Unit 2 (129 KB)
Biol.Unit 3 (130 KB)
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(1)
Title
:
THE CRYSTAL STRUCTURE OF MOUSE TLR4/MD-2/NEOSEPTIN-3 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
:
2.57
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, Small Molecule 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
(2, 27)
Info
All Hetero Components
1a: TERT-BUTYL (2R)-2-({4-AMINO-3-[2-(... (61Sa)
1b: TERT-BUTYL (2R)-2-({4-AMINO-3-[2-(... (61Sb)
1c: TERT-BUTYL (2R)-2-({4-AMINO-3-[2-(... (61Sc)
1d: TERT-BUTYL (2R)-2-({4-AMINO-3-[2-(... (61Sd)
2a: N-ACETYL-D-GLUCOSAMINE (NAGa)
2b: N-ACETYL-D-GLUCOSAMINE (NAGb)
2c: N-ACETYL-D-GLUCOSAMINE (NAGc)
2d: N-ACETYL-D-GLUCOSAMINE (NAGd)
2e: N-ACETYL-D-GLUCOSAMINE (NAGe)
2f: N-ACETYL-D-GLUCOSAMINE (NAGf)
2g: N-ACETYL-D-GLUCOSAMINE (NAGg)
2h: N-ACETYL-D-GLUCOSAMINE (NAGh)
2i: N-ACETYL-D-GLUCOSAMINE (NAGi)
2j: N-ACETYL-D-GLUCOSAMINE (NAGj)
2k: N-ACETYL-D-GLUCOSAMINE (NAGk)
2l: N-ACETYL-D-GLUCOSAMINE (NAGl)
2m: N-ACETYL-D-GLUCOSAMINE (NAGm)
2n: N-ACETYL-D-GLUCOSAMINE (NAGn)
2o: N-ACETYL-D-GLUCOSAMINE (NAGo)
2p: N-ACETYL-D-GLUCOSAMINE (NAGp)
2q: N-ACETYL-D-GLUCOSAMINE (NAGq)
2r: N-ACETYL-D-GLUCOSAMINE (NAGr)
2s: N-ACETYL-D-GLUCOSAMINE (NAGs)
2t: N-ACETYL-D-GLUCOSAMINE (NAGt)
2u: N-ACETYL-D-GLUCOSAMINE (NAGu)
2v: N-ACETYL-D-GLUCOSAMINE (NAGv)
2w: N-ACETYL-D-GLUCOSAMINE (NAGw)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
61S
4
Ligand/Ion
TERT-BUTYL (2R)-2-({4-AMINO-3-[2-(4-HYDROXYPHENYL)ETHYL]BENZOYL}AMINO)-4-PHENYLBUTANOATE
2
NAG
23
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
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Sites
(21, 21)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: AD1 (SOFTWARE)
11: AD2 (SOFTWARE)
12: AD3 (SOFTWARE)
13: AD4 (SOFTWARE)
14: AD5 (SOFTWARE)
15: AD6 (SOFTWARE)
16: AD7 (SOFTWARE)
17: AD8 (SOFTWARE)
18: AD9 (SOFTWARE)
19: AE1 (SOFTWARE)
20: AE2 (SOFTWARE)
21: AE3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER A:413 , PHE A:438 , SER A:439 , VAL D:82 , PHE D:121 , PHE D:126 , PRO D:127 , 61S D:204
binding site for residue 61S A 709
02
AC2
SOFTWARE
SER B:413 , PHE B:438 , SER B:439 , 61S B:711 , HOH B:863 , ILE C:52 , PHE C:121 , ILE C:124 , PRO C:127
binding site for residue 61S B 710
03
AC3
SOFTWARE
ARG B:434 , GLU B:437 , 61S B:710 , HOH B:899 , ARG C:90 , PHE C:126
binding site for residue 61S B 711
04
AC4
SOFTWARE
ARG A:434 , GLU A:437 , 61S A:709 , ARG D:90 , PHE D:126 , HOH D:309
binding site for residue 61S D 204
05
AC5
SOFTWARE
ASN A:172 , HOH A:829
binding site for Mono-Saccharide NAG A 706 bound to ASN A 172
06
AC6
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
07
AC7
SOFTWARE
ASN A:237 , ARG A:266 , HOH A:825 , HOH A:838
binding site for Mono-Saccharide NAG A 703 bound to ASN A 237
08
AC8
SOFTWARE
ASN A:307 , LYS A:329 , HOH A:883 , HOH A:922
binding site for Mono-Saccharide NAG A 704 bound to ASN A 307
09
AC9
SOFTWARE
ASN A:492 , HOH A:803 , HOH A:805 , HOH A:822 , HOH A:941
binding site for Mono-Saccharide NAG A 705 bound to ASN A 492
10
AD1
SOFTWARE
SER A:502 , LYS A:503 , ASN A:524 , SER A:526 , HOH A:860
binding site for Poly-Saccharide residues NAG A 707 through NAG A 708 bound to ASN A 524
11
AD2
SOFTWARE
TYR A:71 , LYS B:46 , ASP B:49 , ASN B:75
binding site for Poly-Saccharide residues NAG B 708 through NAG B 709 bound to ASN B 75
12
AD3
SOFTWARE
ASN B:172 , HOH B:825
binding site for Mono-Saccharide NAG B 701 bound to ASN B 172
13
AD4
SOFTWARE
ASN B:204
binding site for Mono-Saccharide NAG B 702 bound to ASN B 204
14
AD5
SOFTWARE
ASN B:237
binding site for Mono-Saccharide NAG B 703 bound to ASN B 237
15
AD6
SOFTWARE
ASN B:307
binding site for Mono-Saccharide NAG B 704 bound to ASN B 307
16
AD7
SOFTWARE
THR B:469 , ASN B:492 , HOH B:851
binding site for Mono-Saccharide NAG B 705 bound to ASN B 492
17
AD8
SOFTWARE
SER B:502 , LYS B:503 , ASN B:524 , SER B:526 , TRP B:572 , HOH B:884 , HOH B:895
binding site for Poly-Saccharide residues NAG B 706 through NAG B 707 bound to ASN B 524
18
AD9
SOFTWARE
ASN C:114
binding site for Mono-Saccharide NAG C 203 bound to ASN C 114
19
AE1
SOFTWARE
ASP C:38 , ARG C:132 , ASN C:150
binding site for Poly-Saccharide residues NAG C 201 through NAG C 202 bound to ASN C 150
20
AE2
SOFTWARE
GLU D:64 , ASN D:114 , HOH D:331
binding site for Mono-Saccharide NAG D 201 bound to ASN D 114
21
AE3
SOFTWARE
CYS D:37 , ASP D:38 , ARG D:132 , ASN D:150 , HOH D:319
binding site for Poly-Saccharide residues NAG D 202 through NAG D 203 bound to ASN D 150
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
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CATH Domains
(0, 0)
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Pfam Domains
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Asymmetric Unit 1
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select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
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show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
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Show PDB file:
Asym.Unit (263 KB)
Header - Asym.Unit
Biol.Unit 1 (253 KB)
Header - Biol.Unit 1
Biol.Unit 2 (129 KB)
Header - Biol.Unit 2
Biol.Unit 3 (130 KB)
Header - Biol.Unit 3
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