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3M7O
Biol. Unit 1
Info
Asym.Unit (110 KB)
Biol.Unit 1 (30 KB)
Biol.Unit 2 (27 KB)
Biol.Unit 3 (27 KB)
Biol.Unit 4 (29 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF MOUSE MD-1 IN COMPLEX WITH PHOSPHATIDYLCHOLINE
Authors
:
H. Harada, U. Ohto, Y. Satow
Date
:
17 Mar 10 (Deposition) - 09 Jun 10 (Release) - 22 Jan 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.65
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Beta Sheet, Glycoprotein, Immunity, Inflammatory Response, Innate Immunity, Secreted, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Harada, U. Ohto, Y. Satow
Crystal Structure Of Mouse Md-1 With Endogenous Phospholipi Bound In Its Cavity
J. Mol. Biol. V. 400 838 2010
[
close entry info
]
Hetero Components
(3, 8)
Info
All Hetero Components
1a: BENZAMIDINE (BENa)
1b: BENZAMIDINE (BENb)
1c: BENZAMIDINE (BENc)
1d: BENZAMIDINE (BENd)
1e: BENZAMIDINE (BENe)
1f: BENZAMIDINE (BENf)
1g: BENZAMIDINE (BENg)
1h: BENZAMIDINE (BENh)
1i: BENZAMIDINE (BENi)
1j: BENZAMIDINE (BENj)
1k: BENZAMIDINE (BENk)
1l: BENZAMIDINE (BENl)
1m: BENZAMIDINE (BENm)
1n: BENZAMIDINE (BENn)
1o: BENZAMIDINE (BENo)
1p: BENZAMIDINE (BENp)
2a: (2S)-3-(OCTADECANOYLOXY)-2-[(9Z)-O... (L9Ra)
2b: (2S)-3-(OCTADECANOYLOXY)-2-[(9Z)-O... (L9Rb)
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)
4a: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BEN
5
Ligand/Ion
BENZAMIDINE
2
L9R
1
Ligand/Ion
(2S)-3-(OCTADECANOYLOXY)-2-[(9Z)-OCTADEC-9-ENOYLOXY]PROPYL 2-(TRIMETHYLAMMONIO)ETHYL PHOSPHATE
3
NAG
2
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
4
NDG
-1
Ligand/Ion
2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
[
close Hetero Component info
]
Sites
(14, 14)
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: BC1 (SOFTWARE)
10: BC3 (SOFTWARE)
11: BC6 (SOFTWARE)
12: BC7 (SOFTWARE)
13: CC2 (SOFTWARE)
14: CC4 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
VAL A:41 , GLN A:43 , ASN A:156 , ALA A:157 , THR A:158 , HOH A:176
BINDING SITE FOR RESIDUE NAG A 201
02
AC2
SOFTWARE
SER A:93 , ASN A:96 , HOH A:187 , HOH A:216 , HOH A:225 , HOH A:227 , HOH A:237 , HOH A:240 , HOH A:293 , ASN B:96 , CYS D:45 , PRO D:47
BINDING SITE FOR RESIDUE NAG A 202
03
AC3
SOFTWARE
ILE A:55 , ILE A:62 , LEU A:87 , TYR A:97 , TYR A:122 , VAL A:126 , ASN A:127 , LEU A:142 , ALA A:153
BINDING SITE FOR RESIDUE L9R A 301
04
AC4
SOFTWARE
ASP A:84 , ILE A:85 , THR A:86 , ASN A:96 , TYR A:97 , SER A:98 , BEN A:164 , NAG B:202 , HOH B:206 , HOH B:255 , ARG D:149 , THR D:151
BINDING SITE FOR RESIDUE BEN A 163
05
AC5
SOFTWARE
ASP A:84 , GLU A:143 , BEN A:163 , BEN A:165 , HOH A:179 , GLU D:143 , TYR D:145 , ARG D:149
BINDING SITE FOR RESIDUE BEN A 164
06
AC6
SOFTWARE
GLU A:143 , TYR A:145 , ARG A:149 , BEN A:164 , HOH A:223 , ASP D:84 , GLU D:143 , TYR D:145 , BEN D:163
BINDING SITE FOR RESIDUE BEN A 165
07
AC7
SOFTWARE
PHE A:82 , GLU A:147 , ARG A:149 , HOH A:341 , GLU D:147 , ARG D:149
BINDING SITE FOR RESIDUE BEN A 166
08
AC8
SOFTWARE
GLY A:52 , LEU A:53 , SER A:54 , ARG A:69 , GLY A:71 , TYR A:121 , HOH A:178 , ARG B:114
BINDING SITE FOR RESIDUE BEN A 167
09
BC1
SOFTWARE
ASN A:96 , SER A:98 , BEN A:163 , SER B:93 , ILE B:94 , ASN B:96 , BEN B:164 , HOH B:198 , HOH B:206 , HOH B:255 , ASP D:46 , LEU D:48 , GLN D:76 , ALA D:150 , THR D:151
BINDING SITE FOR RESIDUE NAG B 202
10
BC3
SOFTWARE
HOH A:227 , ASP B:84 , THR B:86 , SER B:93 , ASN B:96 , LEU B:141 , GLU B:143 , ARG B:149 , NAG B:202 , LEU D:48
BINDING SITE FOR RESIDUE BEN B 164
11
BC6
SOFTWARE
ASP A:46 , LEU A:48 , GLN A:76 , ALA A:150 , THR A:151 , HOH A:241 , SER C:93 , ILE C:94 , ASN C:96 , BEN C:165 , HOH C:194 , HOH C:197 , ASN D:96 , SER D:98 , BEN D:163
BINDING SITE FOR RESIDUE NAG C 202
12
BC7
SOFTWARE
PRO A:47 , PHE C:82 , SER C:98 , TYR C:145 , GLU C:147 , HOH C:169 , HOH C:176
BINDING SITE FOR RESIDUE BEN C 163
13
CC2
SOFTWARE
CYS A:45 , PRO A:47 , ASN C:96 , SER D:93 , ILE D:94 , ASN D:96 , HOH D:185 , HOH D:212 , HOH D:220 , HOH D:221 , HOH D:225 , HOH D:231 , HOH D:233
BINDING SITE FOR RESIDUE NAG D 202
14
CC4
SOFTWARE
ARG A:149 , THR A:151 , BEN A:165 , HOH C:197 , NAG C:202 , ASP D:84 , ILE D:85 , THR D:86 , ASN D:96 , TYR D:97 , SER D:98
BINDING SITE FOR RESIDUE BEN D 163
[
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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
(, 0)
Info
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;
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Exons
(0, 0)
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
Info
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CATH Domains
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Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_E1_DerP2_DerF2_3m7oD01 (D:38-161)
1b: PFAM_E1_DerP2_DerF2_3m7oD02 (D:38-161)
1c: PFAM_E1_DerP2_DerF2_3m7oD03 (D:38-161)
1d: PFAM_E1_DerP2_DerF2_3m7oD04 (D:38-161)
View:
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Clans
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(
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Organisms
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)
(
)
Clan
:
no clan defined [family: E1_DerP2_DerF2]
(8)
Family
:
E1_DerP2_DerF2
(8)
Mus musculus (Mouse)
(1)
1a
E1_DerP2_DerF2-3m7oD01
D:38-161
1b
E1_DerP2_DerF2-3m7oD02
D:38-161
1c
E1_DerP2_DerF2-3m7oD03
D:38-161
1d
E1_DerP2_DerF2-3m7oD04
D:38-161
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Asymmetric Unit 1
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Asym.Unit (110 KB)
Header - Asym.Unit
Biol.Unit 1 (30 KB)
Header - Biol.Unit 1
Biol.Unit 2 (27 KB)
Header - Biol.Unit 2
Biol.Unit 3 (27 KB)
Header - Biol.Unit 3
Biol.Unit 4 (29 KB)
Header - Biol.Unit 4
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