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3PD9
Asym. Unit
Info
Asym.Unit (98 KB)
Biol.Unit 1 (94 KB)
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(1)
Title
:
X-RAY STRUCTURE OF THE LIGAND-BINDING CORE OF GLUA2 IN COMPLEX WITH (R)-5-HPCA AT 2.1 A RESOLUTION
Authors
:
K. Frydenvang, J. S. Kastrup
Date
:
22 Oct 10 (Deposition) - 29 Dec 10 (Release) - 09 Nov 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Ionotropic Glutamate Receptor Glua2, Ligand-Binding Core, Agonist Complex, Membrane Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Frydenvang, D. S. Pickering, J. R. Greenwood, N. Krogsgaard-Larsen, L. Brehm, B. Nielsen, S. B. Vogensen, H. Hald, J. S. Kastrup, P. Krogsgaard-Larsen, R. P. Clausen
Biostructural And Pharmacological Studies Of Bicyclic Analogues Of The 3-Isoxazolol Glutamate Receptor Agonist Ibotenic Acid.
J. Med. Chem. 2010
(for further references see the
PDB file header
)
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Hetero Components
(4, 15)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
3a: (5R)-3-HYDROXY-4,5,6,7-TETRAHYDROI... (HA5a)
3b: (5R)-3-HYDROXY-4,5,6,7-TETRAHYDROI... (HA5b)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
4c: SULFATE ION (SO4c)
4d: SULFATE ION (SO4d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
4
Ligand/Ion
CHLORIDE ION
2
GOL
5
Ligand/Ion
GLYCEROL
3
HA5
2
Ligand/Ion
(5R)-3-HYDROXY-4,5,6,7-TETRAHYDROISOXAZOLO[5,4-C]PYRIDINE-5-CARBOXYLIC ACID
4
SO4
4
Ligand/Ion
SULFATE ION
[
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Sites
(15, 15)
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)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:58 , PRO A:86 , LEU A:87 , THR A:88 , ARG A:93 , GLY A:138 , SER A:139 , THR A:140 , GLU A:190 , MET A:193 , HOH A:343
BINDING SITE FOR RESIDUE HA5 A 260
02
AC2
SOFTWARE
ARG A:28 , HOH A:278 , HOH A:333 , HOH A:431 , LYS B:180
BINDING SITE FOR RESIDUE SO4 A 261
03
AC3
SOFTWARE
ARG A:145 , TRP A:156 , ARG A:160
BINDING SITE FOR RESIDUE SO4 A 262
04
AC4
SOFTWARE
ARG A:28 , LYS A:49 , HOH A:378
BINDING SITE FOR RESIDUE SO4 A 263
05
AC5
SOFTWARE
LYS A:113 , LYS A:182 , HOH A:322
BINDING SITE FOR RESIDUE GOL A 264
06
AC6
SOFTWARE
VAL A:96 , GLY A:115 , HOH A:370
BINDING SITE FOR RESIDUE GOL A 265
07
AC7
SOFTWARE
ARG A:160
BINDING SITE FOR RESIDUE CL A 266
08
AC8
SOFTWARE
HIS A:43 , GLN A:241
BINDING SITE FOR RESIDUE CL A 267
09
AC9
SOFTWARE
ASP A:136 , LYS A:141 , HOH A:476
BINDING SITE FOR RESIDUE CL A 268
10
BC1
SOFTWARE
TYR B:58 , PRO B:86 , LEU B:87 , THR B:88 , ARG B:93 , GLY B:138 , SER B:139 , THR B:140 , GLU B:190 , MET B:193 , HOH B:277 , HOH B:288
BINDING SITE FOR RESIDUE HA5 B 260
11
BC2
SOFTWARE
TRP B:156 , ARG B:160 , HOH B:275
BINDING SITE FOR RESIDUE SO4 B 261
12
BC3
SOFTWARE
ALA B:60 , ASP B:136 , SER B:137 , GLY B:138 , LYS B:141 , GLU B:142 , ARG B:145 , HOH B:388
BINDING SITE FOR RESIDUE GOL B 262
13
BC4
SOFTWARE
PRO A:102 , LEU A:236 , ASN A:239 , ILE B:89 , PRO B:102 , LYS B:215 , GLY B:216
BINDING SITE FOR RESIDUE GOL B 263
14
BC5
SOFTWARE
VAL B:96 , GLY B:115 , PRO B:117 , HOH B:471
BINDING SITE FOR RESIDUE GOL B 264
15
BC6
SOFTWARE
HIS B:43 , LYS B:237 , GLN B:241
BINDING SITE FOR RESIDUE CL B 265
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
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Exons
(0, 0)
Info
All Exons
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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.
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3pd9a_ (A:)
1b: SCOP_d3pd9b_ (B:)
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Classes
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(
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)
(
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Periplasmic binding protein-like II
(813)
Superfamily
:
Periplasmic binding protein-like II
(813)
Family
:
Phosphate binding protein-like
(463)
Protein domain
:
Glutamate receptor ligand binding core
(127)
Norway rat (Rattus norvegicus), GluR2 [TaxId: 10116]
(115)
1a
d3pd9a_
A:
1b
d3pd9b_
B:
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CATH Domains
(0, 0)
Info
all CATH domains
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_Lig_chan_3pd9B01 (B:117-259)
1b: PFAM_Lig_chan_3pd9B02 (B:117-259)
2a: PFAM_Lig_chan_Glu_bd_3pd9B03 (B:12-77)
2b: PFAM_Lig_chan_Glu_bd_3pd9B04 (B:12-77)
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)
Clan
:
Ion_channel
(150)
Family
:
Lig_chan
(109)
Rattus norvegicus (Rat)
(101)
1a
Lig_chan-3pd9B01
B:117-259
1b
Lig_chan-3pd9B02
B:117-259
Clan
:
PBP
(391)
Family
:
Lig_chan-Glu_bd
(91)
Rattus norvegicus (Rat)
(86)
2a
Lig_chan-Glu_bd-3pd9B03
B:12-77
2b
Lig_chan-Glu_bd-3pd9B04
B:12-77
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Asymmetric Unit 1
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Asym.Unit (98 KB)
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Header - Biol.Unit 1
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