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2XX8
Asym. Unit
Info
Asym.Unit (144 KB)
Biol.Unit 1 (92 KB)
Biol.Unit 2 (95 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF N,N-DIMETHYL-4-(3-(TRIFLUOROMETHYL)-4, 5,6,7-TETRAHYDRO-1H-INDAZOL-1-YL)BENZAMIDE IN COMPLEX WITH THE LIGAND BINDING DOMAIN OF THE RAT GLUA2 RECEPTOR AND GLUTAMATE AT 2.2A RESOLUTION.
Authors
:
S. E. Ward, M. Harries, L. Aldegheri, N. E. Austin, S. Ballantine, E. Bal D. M. Bradley, B. D. Bax, B. P. Clarke, A. J. Harris, S. A. Harrison, R. A. Melarange, C. Mookherjee, J. Mosley, G. Dalnegro, B. Oliosi, K. J K. M. Thewlis, P. M. Woollard, S. P. Yusaf
Date
:
09 Nov 10 (Deposition) - 27 Apr 11 (Release) - 28 Sep 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.55
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,C (1x)
Biol. Unit 2: B (2x)
Keywords
:
Transport Protein, Ampa Receptor Ligand-Binding Core
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
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Reference
:
S. E. Ward, M. Harries, L. Aldegheri, N. E. Austin, S. Ballantine, E. Ballini, D. M. Bradley, B. D. Bax, B. P. Clarke, A. J. Harris, S. A. Harrison, R. A. Melarange, C. Mookherjee, J. Mosley, G. Dal Negro, B. Oliosi, K. J. Smith, K. M. Thewlis, P. M. Woollard, S. P. Yusaf
Integration Of Lead Optimization With Crystallography For A Membrane-Bound Ion Channel Target: Discovery Of A New Class Of Ampa Receptor Positive Allosteric Modulators.
J. Med. Chem. V. 54 78 2011
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Hetero Components
(4, 11)
Info
All Hetero Components
1a: N,N-DIMETHYL-4-[3-(TRIFLUOROMETHYL... (1NEa)
1b: N,N-DIMETHYL-4-[3-(TRIFLUOROMETHYL... (1NEb)
2a: GLUTAMIC ACID (GLUa)
2b: GLUTAMIC ACID (GLUb)
2c: GLUTAMIC ACID (GLUc)
3a: SULFATE ION (SO4a)
4a: ZINC ION (ZNa)
4b: ZINC ION (ZNb)
4c: ZINC ION (ZNc)
4d: ZINC ION (ZNd)
4e: ZINC ION (ZNe)
View:
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Label:
No.
Name
Count
Type
Full Name
1
1NE
2
Ligand/Ion
N,N-DIMETHYL-4-[3-(TRIFLUOROMETHYL)-4,5,6,7-TETRAHYDRO-1H-INDAZOL-1-YL]BENZAMIDE
2
GLU
3
Mod. Amino Acid
GLUTAMIC ACID
3
SO4
1
Ligand/Ion
SULFATE ION
4
ZN
5
Ligand/Ion
ZINC ION
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Sites
(11, 11)
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)
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:61 , PRO A:89 , LEU A:90 , THR A:91 , ARG A:96 , LEU A:138 , GLY A:141 , SER A:142 , THR A:143 , GLU A:193 , HOH A:2080 , HOH A:2113 , HOH A:2163
BINDING SITE FOR RESIDUE GLU A 301
02
AC2
SOFTWARE
ILE A:92 , LYS A:104 , PRO A:105 , PHE A:106 , SER A:108 , SER A:217 , LYS A:218 , GLY A:219 , LEU A:239 , SER A:242 , HOH A:2062 , HOH A:2133 , HOH A:2164 , LYS C:104 , PRO C:105 , PHE C:106 , SER C:108 , SER C:217 , LYS C:218 , GLY C:219 , LEU C:239 , SER C:242 , HOH C:2064 , HOH C:2073 , HOH C:2142 , HOH C:2154 , HOH C:2155
BINDING SITE FOR RESIDUE 1NE A 310
03
AC3
SOFTWARE
TYR B:61 , PRO B:89 , LEU B:90 , THR B:91 , ARG B:96 , LEU B:138 , GLY B:141 , SER B:142 , THR B:143 , GLU B:193 , TYR B:220 , HOH B:2137 , HOH B:2176 , HOH B:2177
BINDING SITE FOR RESIDUE GLU B 301
04
AC4
SOFTWARE
ILE B:92 , LYS B:104 , PRO B:105 , PHE B:106 , SER B:108 , SER B:217 , LYS B:218 , GLY B:219 , SER B:242 , HOH B:2066 , HOH B:2073 , HOH B:2178
BINDING SITE FOR RESIDUE 1NE B 310
05
AC5
SOFTWARE
TYR C:61 , PRO C:89 , LEU C:90 , THR C:91 , ARG C:96 , LEU C:138 , GLY C:141 , SER C:142 , THR C:143 , GLU C:193 , TYR C:220 , HOH C:2087 , HOH C:2119 , HOH C:2153
BINDING SITE FOR RESIDUE GLU C 301
06
AC6
SOFTWARE
GLU A:42 , HIS A:46 , ARG B:163 , ALA B:165 , GLU B:166 , SER B:168 , ZN B:1264 , HOH B:2179
BINDING SITE FOR RESIDUE SO4 B1263
07
AC7
SOFTWARE
GLU A:42 , HIS A:46 , GLU B:166 , SO4 B:1263
BINDING SITE FOR RESIDUE ZN B1264
08
AC8
SOFTWARE
HIS B:23 , GLU B:30 , HIS C:23 , GLU C:24
BINDING SITE FOR RESIDUE ZN B1265
09
AC9
SOFTWARE
HIS A:23 , ASP C:65 , HOH C:2156 , HOH C:2157
BINDING SITE FOR RESIDUE ZN C1263
10
BC1
SOFTWARE
GLU A:166 , GLU B:42 , HIS B:46 , LEU B:241 , HOH B:2180
BINDING SITE FOR RESIDUE ZN B1266
11
BC2
SOFTWARE
GLU C:42 , HIS C:46 , HOH C:2158
BINDING SITE FOR RESIDUE ZN C1264
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
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Exons
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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
(1, 3)
Info
All SCOP Domains
1a: SCOP_d2xx8a_ (A:)
1b: SCOP_d2xx8b_ (B:)
1c: SCOP_d2xx8c_ (C:)
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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
d2xx8a_
A:
1b
d2xx8b_
B:
1c
d2xx8c_
C:
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CATH Domains
(0, 0)
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Pfam Domains
(2, 6)
Info
all PFAM domains
1a: PFAM_Lig_chan_2xx8C01 (C:119-262)
1b: PFAM_Lig_chan_2xx8C02 (C:119-262)
1c: PFAM_Lig_chan_2xx8C03 (C:119-262)
2a: PFAM_Lig_chan_Glu_bd_2xx8C04 (C:15-80)
2b: PFAM_Lig_chan_Glu_bd_2xx8C05 (C:15-80)
2c: PFAM_Lig_chan_Glu_bd_2xx8C06 (C:15-80)
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Clan
:
Ion_channel
(150)
Family
:
Lig_chan
(109)
Rattus norvegicus (Rat)
(101)
1a
Lig_chan-2xx8C01
C:119-262
1b
Lig_chan-2xx8C02
C:119-262
1c
Lig_chan-2xx8C03
C:119-262
Clan
:
PBP
(391)
Family
:
Lig_chan-Glu_bd
(91)
Rattus norvegicus (Rat)
(86)
2a
Lig_chan-Glu_bd-2xx8C04
C:15-80
2b
Lig_chan-Glu_bd-2xx8C05
C:15-80
2c
Lig_chan-Glu_bd-2xx8C06
C:15-80
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Asym.Unit (144 KB)
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Biol.Unit 1 (92 KB)
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