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3WPC
Asym. Unit
Info
Asym.Unit (543 KB)
Biol.Unit 1 (533 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HORSE TLR9 IN COMPLEX WITH AGONISTIC DNA1668_12MER
Authors
:
U. Ohto, H. Tanji, T. Shimizu
Date
:
11 Jan 14 (Deposition) - 11 Feb 15 (Release) - 06 May 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A,B,E,F
Biol. Unit 1: A,B,E,F (1x)
Keywords
:
Leucine Rich Repeat, Receptor, Innate Immunity, Dna Binding, Glycosylation, Dna Binding Protein-Dna Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
U. Ohto, T. Shibata, H. Tanji, H. Ishida, E. Krayukhina, S. Uchiyama, K. Miyake, T. Shimizu
Structural Basis Of Cpg And Inhibitory Dna Recognition By Toll-Like Receptor 9
Nature V. 520 702 2015
[
close entry info
]
Hetero Components
(4, 21)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
3c: N-ACETYL-D-GLUCOSAMINE (NAGc)
3d: N-ACETYL-D-GLUCOSAMINE (NAGd)
3e: N-ACETYL-D-GLUCOSAMINE (NAGe)
3f: N-ACETYL-D-GLUCOSAMINE (NAGf)
3g: N-ACETYL-D-GLUCOSAMINE (NAGg)
3h: N-ACETYL-D-GLUCOSAMINE (NAGh)
3i: N-ACETYL-D-GLUCOSAMINE (NAGi)
3j: N-ACETYL-D-GLUCOSAMINE (NAGj)
3k: N-ACETYL-D-GLUCOSAMINE (NAGk)
3l: N-ACETYL-D-GLUCOSAMINE (NAGl)
3m: N-ACETYL-D-GLUCOSAMINE (NAGm)
3n: N-ACETYL-D-GLUCOSAMINE (NAGn)
3o: N-ACETYL-D-GLUCOSAMINE (NAGo)
3p: N-ACETYL-D-GLUCOSAMINE (NAGp)
3q: N-ACETYL-D-GLUCOSAMINE (NAGq)
2a: SODIUM ION (NAa)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
1
Ligand/Ion
GLYCEROL
2
NA
1
Ligand/Ion
SODIUM ION
3
NAG
17
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
4
SO4
2
Ligand/Ion
SULFATE ION
[
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Sites
(19, 19)
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)
19: CC1 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ILE A:232 , VAL A:233 , VAL A:251 , ASN A:254 , HOH A:1028
BINDING SITE FOR RESIDUE SO4 A 909
02
AC2
SOFTWARE
THR B:598 , HOH B:1252 , HOH B:1253 , HOH B:1254 , HOH B:1255 , HOH B:1256
BINDING SITE FOR RESIDUE NA B 910
03
AC3
SOFTWARE
ILE B:232 , VAL B:233 , VAL B:251 , ASN B:254 , HOH B:1023
BINDING SITE FOR RESIDUE SO4 B 911
04
AC4
SOFTWARE
PHE B:721 , ALA B:724 , LEU B:727 , ARG B:728 , LEU B:748 , SER B:751 , LEU B:752 , HOH B:1197
BINDING SITE FOR RESIDUE GOL B 912
05
AC5
SOFTWARE
HIS A:167 , ASN A:200 , HOH A:1513 , HOH A:1557 , HOH A:1761 , HOH B:1741
BINDING SITE FOR MONO-SACCHARIDE NAG A 901 BOUND TO ASN A 200
06
AC6
SOFTWARE
CYS A:178 , CYS A:184 , GLY A:185 , ARG A:186 , ASN A:210 , HOH A:1058 , HOH A:1159 , HOH A:1356 , HOH A:1647
BINDING SITE FOR MONO-SACCHARIDE NAG A 902 BOUND TO ASN A 210
07
AC7
SOFTWARE
SER A:217 , ALA A:241 , ASN A:242 , HOH A:1625 , HOH A:1642
BINDING SITE FOR MONO-SACCHARIDE NAG A 903 BOUND TO ASN A 242
08
AC8
SOFTWARE
GLN A:510 , ASN A:513 , SER A:515 , HOH A:1433
BINDING SITE FOR MONO-SACCHARIDE NAG A 904 BOUND TO ASN A 513
09
AC9
SOFTWARE
ASN A:567 , SER A:569 , HOH A:1423 , HOH A:1730
BINDING SITE FOR MONO-SACCHARIDE NAG A 905 BOUND TO ASN A 567
10
BC1
SOFTWARE
SER A:693 , ASN A:694 , PHE A:715 , HOH A:1340 , HOH A:1544 , DA F:5 , DC F:6
BINDING SITE FOR MONO-SACCHARIDE NAG A 906 BOUND TO ASN A 694
11
BC2
SOFTWARE
SER A:709 , ARG A:710 , ASN A:731 , ASP A:756
BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 731 RESIDUES 907 TO 908
12
BC3
SOFTWARE
HIS B:167 , ASN B:200 , HOH B:1476
BINDING SITE FOR MONO-SACCHARIDE NAG B 901 BOUND TO ASN B 200
13
BC4
SOFTWARE
CYS B:178 , CYS B:184 , GLY B:185 , ARG B:186 , ASN B:210 , HOH B:1083 , HOH B:1138 , HOH B:1224 , HOH B:1538 , HOH B:1707 , HOH B:1761
BINDING SITE FOR MONO-SACCHARIDE NAG B 902 BOUND TO ASN B 210
14
BC5
SOFTWARE
SER B:217 , ASN B:242 , HOH B:1382 , HOH B:1615
BINDING SITE FOR MONO-SACCHARIDE NAG B 903 BOUND TO ASN B 242
15
BC6
SOFTWARE
THR A:598 , HOH A:1526 , HOH A:1585 , SER B:284 , ARG B:285 , GLY B:308 , ASN B:309 , HOH B:1567 , HOH B:1750 , HOH B:1779
BINDING SITE FOR MONO-SACCHARIDE NAG B 904 BOUND TO ASN B 309
16
BC7
SOFTWARE
THR B:113 , ASN B:513 , SER B:515 , HOH B:1466 , HOH B:1714 , HOH B:1715 , HOH B:1772 , HOH B:1773 , HOH B:1788
BINDING SITE FOR MONO-SACCHARIDE NAG B 905 BOUND TO ASN B 513
17
BC8
SOFTWARE
ASN B:567 , SER B:569 , HOH B:1237 , HOH B:1352
BINDING SITE FOR MONO-SACCHARIDE NAG B 906 BOUND TO ASN B 567
18
BC9
SOFTWARE
SER B:693 , ASN B:694 , PHE B:715 , DA E:5 , DC E:6
BINDING SITE FOR MONO-SACCHARIDE NAG B 907 BOUND TO ASN B 694
19
CC1
SOFTWARE
SER B:709 , ARG B:710 , ASN B:731 , ASP B:756
BINDING SITE FOR CHAIN B OF SUGAR BOUND TO ASN B 731 RESIDUES 908 TO 909
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
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Exons
(0, 0)
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(0, 0)
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Sorry, no Info available
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CATH Domains
(0, 0)
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Sorry, no Info available
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Pfam Domains
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Sorry, no Info available
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Asymmetric Unit 1
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select chains 'A' and 'C'
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
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select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
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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Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
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In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
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Asym.Unit (543 KB)
Header - Asym.Unit
Biol.Unit 1 (533 KB)
Header - Biol.Unit 1
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