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3T6Q
Asym. Unit
Info
Asym.Unit (527 KB)
Biol.Unit 1 (516 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF MOUSE RP105/MD-1 COMPLEX
Authors
:
U. Ohto, T. Shimizu
Date
:
28 Jul 11 (Deposition) - 09 Nov 11 (Release) - 09 Nov 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Protein-Protein Complex, Leucine Rich Repeat, Md-2 Related Lipid Recognition, Receptor, Innate Immunity, Glycosylation, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
U. Ohto, K. Miyake, T. Shimizu
Crystal Structures Of Mouse And Human Rp105/Md-1 Complexes Reveal Unique Dimer Organization Of The Toll-Like Receptor Family.
J. Mol. Biol. V. 413 815 2011
[
close entry info
]
Hetero Components
(5, 52)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
2a: COPPER (II) ION (CUa)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
3f: GLYCEROL (GOLf)
3g: GLYCEROL (GOLg)
3h: GLYCEROL (GOLh)
3i: GLYCEROL (GOLi)
3j: GLYCEROL (GOLj)
3k: GLYCEROL (GOLk)
3l: GLYCEROL (GOLl)
3m: GLYCEROL (GOLm)
3n: GLYCEROL (GOLn)
3o: GLYCEROL (GOLo)
4a: ALPHA-D-MANNOSE (MANa)
4b: ALPHA-D-MANNOSE (MANb)
4c: ALPHA-D-MANNOSE (MANc)
4d: ALPHA-D-MANNOSE (MANd)
4e: ALPHA-D-MANNOSE (MANe)
4f: ALPHA-D-MANNOSE (MANf)
4g: ALPHA-D-MANNOSE (MANg)
4h: ALPHA-D-MANNOSE (MANh)
4i: ALPHA-D-MANNOSE (MANi)
4j: ALPHA-D-MANNOSE (MANj)
4k: ALPHA-D-MANNOSE (MANk)
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)
5t: N-ACETYL-D-GLUCOSAMINE (NAGt)
5u: N-ACETYL-D-GLUCOSAMINE (NAGu)
5v: N-ACETYL-D-GLUCOSAMINE (NAGv)
5w: N-ACETYL-D-GLUCOSAMINE (NAGw)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
2
Ligand/Ion
BETA-D-MANNOSE
2
CU
1
Ligand/Ion
COPPER (II) ION
3
GOL
15
Ligand/Ion
GLYCEROL
4
MAN
11
Ligand/Ion
ALPHA-D-MANNOSE
5
NAG
23
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(52, 52)
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)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (SOFTWARE)
42: EC6 (SOFTWARE)
43: EC7 (SOFTWARE)
44: EC8 (SOFTWARE)
45: EC9 (SOFTWARE)
46: FC1 (SOFTWARE)
47: FC2 (SOFTWARE)
48: FC3 (SOFTWARE)
49: FC4 (SOFTWARE)
50: FC5 (SOFTWARE)
51: FC6 (SOFTWARE)
52: FC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:269 , HIS A:295
BINDING SITE FOR RESIDUE CU A 1
02
AC2
SOFTWARE
LEU A:196 , ALA A:199 , ASN A:201 , LEU A:202 , ALA A:222 , VAL A:223 , PHE A:224
BINDING SITE FOR RESIDUE GOL A 3
03
AC3
SOFTWARE
ASN A:355 , LYS A:357 , HIS A:379 , ASP A:380 , ASP A:381 , HOH A:718 , HOH A:764 , MAN A:806
BINDING SITE FOR RESIDUE GOL A 6
04
AC4
SOFTWARE
SER A:567 , GLN A:568 , LYS A:598 , HOH A:1099 , HOH B:969
BINDING SITE FOR RESIDUE GOL A 9
05
AC5
SOFTWARE
HIS A:529 , ASN A:530 , SER A:552 , HIS A:554 , HOH A:1124
BINDING SITE FOR RESIDUE GOL A 10
06
AC6
SOFTWARE
HIS A:454 , GLN A:477 , PHE A:505 , MAN A:810
BINDING SITE FOR RESIDUE GOL A 15
07
AC7
SOFTWARE
VAL A:33 , ASN A:34 , NAG B:700
BINDING SITE FOR RESIDUE NAG A 700
08
AC8
SOFTWARE
ASN A:53 , GLU B:594 , GLN B:597
BINDING SITE FOR RESIDUE NAG A 701
09
AC9
SOFTWARE
ASN A:70 , GLN A:98 , HOH A:993
BINDING SITE FOR RESIDUE NAG A 702
10
BC1
SOFTWARE
ASN A:244 , THR A:246 , GLU A:273 , SER A:275 , SER A:315 , GLY A:316 , HOH A:752 , HOH A:861 , HOH A:1097
BINDING SITE FOR RESIDUE NAG A 703
11
BC2
SOFTWARE
GLU A:367 , ASN A:368 , GLU A:370 , ASN A:394 , HOH A:918 , HOH A:1047 , HOH A:1112
BINDING SITE FOR RESIDUE NAG A 704
12
BC3
SOFTWARE
LYS A:353 , SER A:378 , HIS A:379 , ASN A:402 , SER A:404 , TYR A:405 , ASP A:426 , NAG A:802 , HOH A:813 , NAG A:901 , NAG A:902 , HOH A:958 , HOH A:1043
BINDING SITE FOR RESIDUE NAG A 801
13
BC4
SOFTWARE
HIS A:379 , TYR A:405 , NAG A:801 , BMA A:803 , MAN A:804 , MAN A:806 , NAG A:901 , NAG A:902 , HOH A:981 , HOH A:1184
BINDING SITE FOR RESIDUE NAG A 802
14
BC5
SOFTWARE
HOH A:772 , NAG A:802 , MAN A:804 , MAN A:808 , HOH A:1044 , HOH A:1185 , GLU C:147
BINDING SITE FOR RESIDUE BMA A 803
15
BC6
SOFTWARE
HOH A:670 , NAG A:802 , BMA A:803 , MAN A:805 , MAN A:807 , HOH A:848 , HOH A:916 , PHE C:82 , TYR C:145
BINDING SITE FOR RESIDUE MAN A 804
16
BC7
SOFTWARE
HIS A:379 , TYR A:405 , MAN A:804 , MAN A:806 , HOH A:1082 , HOH A:1119 , SER C:98
BINDING SITE FOR RESIDUE MAN A 805
17
BC8
SOFTWARE
GOL A:6 , HOH A:13 , GLY A:354 , HOH A:654 , HOH A:730 , NAG A:802 , MAN A:805 , HOH A:911 , HOH A:1022 , PRO C:100 , GLU C:103
BINDING SITE FOR RESIDUE MAN A 806
18
BC9
SOFTWARE
BMA A:803 , HOH A:809 , HOH A:1104 , ASN C:148
BINDING SITE FOR RESIDUE MAN A 808
19
CC1
SOFTWARE
HOH A:770 , HOH A:772 , MAN A:804 , MAN A:810 , ASP C:84 , SER C:98 , TYR C:145 , ARG C:149
BINDING SITE FOR RESIDUE MAN A 807
20
CC2
SOFTWARE
GOL A:15 , MAN A:807
BINDING SITE FOR RESIDUE MAN A 810
21
CC3
SOFTWARE
TYR A:405 , ASP A:426 , ALA A:428 , ASN A:451 , HIS A:473 , HOH A:646 , HOH A:662 , NAG A:801 , NAG A:802 , HOH A:873 , NAG A:902 , HOH A:969
BINDING SITE FOR RESIDUE NAG A 901
22
CC4
SOFTWARE
LEU A:424 , NAG A:801 , NAG A:802 , HOH A:811 , HOH A:873 , NAG A:901 , HOH A:932
BINDING SITE FOR RESIDUE NAG A 902
23
CC5
SOFTWARE
PHE A:81 , PHE A:131 , HOH A:669 , ARG C:115 , HOH C:177 , HOH C:873
BINDING SITE FOR RESIDUE GOL C 4
24
CC6
SOFTWARE
ILE A:133 , ASP A:179 , GLN A:181 , GLY C:113 , ARG C:115 , HOH C:175 , HOH C:317
BINDING SITE FOR RESIDUE GOL C 12
25
CC7
SOFTWARE
GLY C:26 , TRP C:27 , PRO C:47
BINDING SITE FOR RESIDUE GOL C 13
26
CC8
SOFTWARE
SER C:93 , ILE C:94 , LEU C:95 , ASN C:96
BINDING SITE FOR RESIDUE NAG C 201
27
CC9
SOFTWARE
CYS C:45 , ASN C:156 , HOH C:498
BINDING SITE FOR RESIDUE NAG C 202
28
DC1
SOFTWARE
SER B:509 , ARG B:531 , THR B:533 , HIS B:554 , HOH B:718 , HOH B:795
BINDING SITE FOR RESIDUE GOL B 5
29
DC2
SOFTWARE
HIS B:473 , HOH B:892 , HOH B:895
BINDING SITE FOR RESIDUE GOL B 8
30
DC3
SOFTWARE
SER A:138 , HIS A:160 , HOH A:1116 , GLN B:134 , SER B:158 , HOH B:981 , HOH B:1126 , ARG D:114 , GLN D:119
BINDING SITE FOR RESIDUE GOL B 11
31
DC4
SOFTWARE
NAG A:700 , ASN B:34
BINDING SITE FOR RESIDUE NAG B 700
32
DC5
SOFTWARE
GLU A:594 , GLY B:49 , ASN B:53 , ARG B:75 , HOH B:906
BINDING SITE FOR RESIDUE NAG B 701
33
DC6
SOFTWARE
ASN B:70 , SER B:74 , GLN B:98 , NAG B:705 , HOH B:781 , HOH B:859 , HOH B:1001
BINDING SITE FOR RESIDUE NAG B 702
34
DC7
SOFTWARE
NAG B:702
BINDING SITE FOR RESIDUE NAG B 705
35
DC8
SOFTWARE
TYR A:90 , TRP A:91 , ARG B:86 , GLN B:88 , HOH B:875 , HOH B:996
BINDING SITE FOR RESIDUE GOL B 2
36
DC9
SOFTWARE
ASN B:244 , SER B:245 , THR B:246 , HOH B:734 , HOH B:746
BINDING SITE FOR RESIDUE NAG B 703
37
EC1
SOFTWARE
GLU B:367 , GLU B:370 , ASN B:394
BINDING SITE FOR RESIDUE NAG B 704
38
EC2
SOFTWARE
LYS B:353 , SER B:378 , HIS B:379 , ASN B:402 , SER B:404 , ASP B:426 , HOH B:676 , NAG B:802 , NAG B:901 , NAG B:902 , HOH B:910
BINDING SITE FOR RESIDUE NAG B 801
39
EC3
SOFTWARE
HIS B:379 , TYR B:405 , HOH B:667 , NAG B:801 , BMA B:803 , MAN B:804 , MAN B:806 , NAG B:901 , NAG B:902 , HOH B:923
BINDING SITE FOR RESIDUE NAG B 802
40
EC4
SOFTWARE
HOH B:731 , NAG B:802 , MAN B:804 , MAN B:807 , MAN B:808 , HOH B:921 , GLU D:147
BINDING SITE FOR RESIDUE BMA B 803
41
EC5
SOFTWARE
HOH B:771 , NAG B:802 , BMA B:803 , MAN B:805 , MAN B:807 , HOH B:918 , HOH B:927 , PHE D:82 , SER D:98 , TYR D:145
BINDING SITE FOR RESIDUE MAN B 804
42
EC6
SOFTWARE
HIS B:379 , TYR B:405 , HOH B:754 , MAN B:804 , MAN B:806 , TYR D:97 , SER D:98
BINDING SITE FOR RESIDUE MAN B 805
43
EC7
SOFTWARE
GLY B:354 , HOH B:635 , HOH B:665 , HOH B:683 , HOH B:752 , HOH B:753 , NAG B:802 , MAN B:805 , PRO D:100 , GLU D:103 , HOH D:666
BINDING SITE FOR RESIDUE MAN B 806
44
EC8
SOFTWARE
BMA B:803 , MAN B:804 , HOH B:921 , HOH B:922 , ASP D:84 , ARG D:149
BINDING SITE FOR RESIDUE MAN B 807
45
EC9
SOFTWARE
BMA B:803 , GLU D:147 , ASN D:148
BINDING SITE FOR RESIDUE MAN B 808
46
FC1
SOFTWARE
TYR B:405 , ASP B:426 , ALA B:428 , ASN B:451 , HIS B:473 , HOH B:680 , NAG B:801 , NAG B:802 , HOH B:809 , HOH B:841 , HOH B:892 , NAG B:902
BINDING SITE FOR RESIDUE NAG B 901
47
FC2
SOFTWARE
LEU B:424 , HOH B:677 , NAG B:801 , NAG B:802 , HOH B:809 , NAG B:901
BINDING SITE FOR RESIDUE NAG B 902
48
FC3
SOFTWARE
PHE B:81 , PHE B:131 , HOH B:630 , ARG D:115 , HOH D:226 , HOH D:497
BINDING SITE FOR RESIDUE GOL D 1
49
FC4
SOFTWARE
SER A:139 , ASP B:257 , TYR D:121 , TYR D:122 , ALA D:123 , HOH D:553 , HOH D:951
BINDING SITE FOR RESIDUE GOL D 7
50
FC5
SOFTWARE
GLN A:69 , HIS A:93 , GLU A:94 , HOH A:633 , PRO D:28 , LYS D:29 , HIS D:30
BINDING SITE FOR RESIDUE GOL D 14
51
FC6
SOFTWARE
SER D:93 , ASN D:96 , HOH D:419
BINDING SITE FOR RESIDUE NAG D 201
52
FC7
SOFTWARE
GLN D:43 , ASN D:156
BINDING SITE FOR RESIDUE NAG D 202
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SAPs(SNPs)/Variants
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Exons
(0, 0)
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