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4R6A
Asym. Unit
Info
Asym.Unit (268 KB)
Biol.Unit 1 (258 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN TLR8 IN COMPLEX WITH HYBRID-2
Authors
:
H. Tanji, U. Ohto, T. Shimizu
Date
:
22 Aug 14 (Deposition) - 26 Aug 15 (Release) - 26 Aug 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Rna Recognition, Ssrna, Leucine Rich Repeat, Rna Receptor, Innate Immunity, Glycosylation, Secreted, Structure-Based Ligand Design, Vaccine Adjuvants, Antiviral And Antitumor Drug Binding, Rna Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. Ganapathi, S. V. Haren, D. J. Dowling, I. Bergelson, N. M. Shukla, S. S. Malladi, R. Balakrishna, H. Tanji, U. Ohto, T. Shimizu, S. A. David, O. Levy
Hybrid-2: Animidazoquinoline Dual Toll-Like Receptor 7/8 Agonist That Potently Activates Cytokine Production By Huma Newborn And Adult Leukocytes
To Be Published
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Hetero Components
(4, 32)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
1c: BETA-D-MANNOSE (BMAc)
1d: BETA-D-MANNOSE (BMAd)
1e: BETA-D-MANNOSE (BMAe)
1f: BETA-D-MANNOSE (BMAf)
2a: 1-(4-AMINO-2-BUTYL-1H-IMIDAZO[4,5-... (HB2a)
2b: 1-(4-AMINO-2-BUTYL-1H-IMIDAZO[4,5-... (HB2b)
3a: ALPHA-D-MANNOSE (MANa)
3b: ALPHA-D-MANNOSE (MANb)
4a: N-ACETYL-D-GLUCOSAMINE (NAGa)
4b: N-ACETYL-D-GLUCOSAMINE (NAGb)
4c: N-ACETYL-D-GLUCOSAMINE (NAGc)
4d: N-ACETYL-D-GLUCOSAMINE (NAGd)
4e: N-ACETYL-D-GLUCOSAMINE (NAGe)
4f: N-ACETYL-D-GLUCOSAMINE (NAGf)
4g: N-ACETYL-D-GLUCOSAMINE (NAGg)
4h: N-ACETYL-D-GLUCOSAMINE (NAGh)
4i: N-ACETYL-D-GLUCOSAMINE (NAGi)
4j: N-ACETYL-D-GLUCOSAMINE (NAGj)
4k: N-ACETYL-D-GLUCOSAMINE (NAGk)
4l: N-ACETYL-D-GLUCOSAMINE (NAGl)
4m: N-ACETYL-D-GLUCOSAMINE (NAGm)
4n: N-ACETYL-D-GLUCOSAMINE (NAGn)
4o: N-ACETYL-D-GLUCOSAMINE (NAGo)
4p: N-ACETYL-D-GLUCOSAMINE (NAGp)
4q: N-ACETYL-D-GLUCOSAMINE (NAGq)
4r: N-ACETYL-D-GLUCOSAMINE (NAGr)
4s: N-ACETYL-D-GLUCOSAMINE (NAGs)
4t: N-ACETYL-D-GLUCOSAMINE (NAGt)
4u: N-ACETYL-D-GLUCOSAMINE (NAGu)
4v: N-ACETYL-D-GLUCOSAMINE (NAGv)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
6
Ligand/Ion
BETA-D-MANNOSE
2
HB2
2
Ligand/Ion
1-(4-AMINO-2-BUTYL-1H-IMIDAZO[4,5-C]QUINOLIN-1-YL)-2-METHYLPROPAN-2-OL
3
MAN
2
Ligand/Ion
ALPHA-D-MANNOSE
4
NAG
22
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
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Sites
(18, 18)
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: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:543 , GLY A:572 , VAL A:573 , THR A:574 , TYR B:348 , GLY B:351 , VAL B:378 , PHE B:405
BINDING SITE FOR RESIDUE HB2 A 915
02
AC2
SOFTWARE
TYR A:348 , ILE A:349 , SER A:352 , VAL A:378 , PHE A:405 , ASP B:543 , ASP B:545 , GLY B:572 , THR B:574 , HOH B:1029
BINDING SITE FOR RESIDUE HB2 B 901
03
AC3
SOFTWARE
LYS A:226 , PHE A:228 , SER A:230 , LEU A:250 , ASP A:252 , SER A:254 , TYR A:291 , ASN A:293 , ASP A:462 , HIS A:464 , SER A:465 , ASN A:466 , PHE A:467 , TYR A:468 , HOH A:1088 , HOH A:1148 , HOH A:1190
BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 293 RESIDUES 901 TO 904
04
AC4
SOFTWARE
SER A:368 , ARG A:370 , ASN A:395 , HOH A:1054 , TYR B:482 , GLY B:483 , ASP B:506 , ALA B:508 , LYS B:533 , HOH B:1086
BINDING SITE FOR MONO-SACCHARIDE NAG A 905 BOUND TO ASN A 395
05
AC5
SOFTWARE
LYS A:476 , SER A:489 , LEU A:490 , ASN A:511 , ASP A:536 , HOH A:1085
BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 511 RESIDUES 906 TO 908
06
AC6
SOFTWARE
SER A:522 , ASN A:546 , HOH A:1181
BINDING SITE FOR MONO-SACCHARIDE NAG A 909 BOUND TO ASN A 546
07
AC7
SOFTWARE
LYS A:476 , GLN A:478 , TYR A:534 , ASP A:560 , VAL A:588 , ASN A:590 , GLU A:612 , VAL A:614 , HOH A:1081 , HOH A:1119 , HOH A:1161 , HOH A:1172 , HOH A:1180
BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 590 RESIDUES 910 TO 912
08
AC8
SOFTWARE
LYS A:608 , SER A:609 , VAL A:611 , ASN A:640 , HOH A:1104 , GLN B:288 , ARG B:290
BINDING SITE FOR MONO-SACCHARIDE NAG A 913 BOUND TO ASN A 640
09
AC9
SOFTWARE
ASN A:656 , ASN A:680 , THR A:682 , LEU A:683
BINDING SITE FOR MONO-SACCHARIDE NAG A 914 BOUND TO ASN A 680
10
BC1
SOFTWARE
LYS B:243 , GLY B:244 , ASN B:285 , HOH B:1090 , HOH B:1101 , HOH B:1194
BINDING SITE FOR MONO-SACCHARIDE NAG B 902 BOUND TO ASN B 285
11
BC2
SOFTWARE
LYS B:226 , SER B:230 , LEU B:250 , ASP B:252 , SER B:254 , TYR B:291 , ASN B:293 , ASP B:462 , HIS B:464 , SER B:465 , ASN B:466 , PHE B:467 , TYR B:468 , HOH B:1044 , HOH B:1102 , HOH B:1179
BINDING SITE FOR CHAIN B OF SUGAR BOUND TO ASN B 293 RESIDUES 903 TO 906
12
BC3
SOFTWARE
TYR A:482 , ASP A:506 , ALA A:508 , LYS A:533 , HOH A:1195 , LEU B:367 , SER B:368 , ARG B:370 , ASN B:395
BINDING SITE FOR MONO-SACCHARIDE NAG B 907 BOUND TO ASN B 395
13
BC4
SOFTWARE
ARG B:472 , LYS B:476 , SER B:489 , LEU B:490 , ASN B:511 , TYR B:534 , ASP B:536 , HOH B:1106 , HOH B:1119 , HOH B:1149
BINDING SITE FOR CHAIN B OF SUGAR BOUND TO ASN B 511 RESIDUES 908 TO 910
14
BC5
SOFTWARE
SER B:522 , ASN B:546 , HOH B:1066 , HOH B:1163
BINDING SITE FOR MONO-SACCHARIDE NAG B 911 BOUND TO ASN B 546
15
BC6
SOFTWARE
GLN B:581 , ASN B:582
BINDING SITE FOR MONO-SACCHARIDE NAG B 912 BOUND TO ASN B 582
16
BC7
SOFTWARE
LYS B:476 , GLN B:478 , TYR B:534 , ASP B:560 , ASN B:590 , GLU B:612 , HOH B:1050 , HOH B:1087 , HOH B:1137
BINDING SITE FOR CHAIN B OF SUGAR BOUND TO ASN B 590 RESIDUES 913 TO 915
17
BC8
SOFTWARE
GLN A:288 , ARG A:290 , HOH A:1099 , LYS B:608 , SER B:609 , ASN B:640 , HOH B:1082 , HOH B:1096 , HOH B:1143
BINDING SITE FOR MONO-SACCHARIDE NAG B 916 BOUND TO ASN B 640
18
BC9
SOFTWARE
ASN B:656 , PHE B:678 , ASN B:680 , LEU B:683
BINDING SITE FOR MONO-SACCHARIDE NAG B 917 BOUND TO ASN B 680
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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
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Pfam Domains
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Asymmetric Unit 1
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (268 KB)
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