OCA Atlas for 3KG2

3KG2

Membrane Protein, Transport Protein

date

Oct 28, 2009

title

Ampa Subtype Ionotropic Glutamate Receptor In Complex With C Antagonist Zk 200775

authors

A.I.Sobolevsky, M.P.Rosconi, E.Gouaux

compound

source

Molecule: Glutamate Receptor 2
Chain: A, B, C, D
Fragment: Sequence Database Residues 25-847
Synonym: Glur-2, Glur-B, Glur-K2, Glutamate Receptor Ionotr 2, Ampa-Selective Glutamate Receptor 2;
Engineered: Yes
Mutation: Yes

Organism_scientific: Rattus Norvegicus
Organism_common: Rat
Organism_taxid: 10116
Gene: Gria2, Glur2
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 562
Expression_system_cell_line: Sf9
Expression_system_vector_type: Baculovirus
Expression_system_vector: Pfastbac1

symmetry

Space Group: P 1

R_factor

0.286

R_Free

0.296

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
90.715	109.848	161.130	85.32	84.75	78.92

method

X-Ray Diffraction

resolution

3.60 Å

ligand

BMA, NAG, ZK1

enzyme

Gene
Ontology

Chain	Function	Process	Component
A, D, C, B	ion channel activity extracellularly glutamate-ga... ligand-gated ion channel act... transmitter-gated ion channe...

Primary reference

X-ray structure, symmetry and mechanism of an AMPA-subtype glutamate receptor., Sobolevsky AI, Rosconi MP, Gouaux E, Nature. 2009 Dec 10;462(7274):745-56. Epub . PMID:19946266

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (955 Kb) [Save to disk]

Biological Unit Coordinates (3kg2.pdb1.gz) 943 Kb

LPC: Ligand-Protein Contacts for 3KG2

CSU: Contacts of Structural Units for 3KG2

Structure Factors (545 Kb)

Retrieve 3KG2 in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 3KG2 from S2C, [Save to disk]

Re-refined 3kg2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3KG2 in 3D

Proteopedia, because life has more than 2D.

On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.

On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 3KG2

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala

Dipole moment, from Dipole Server at Weizmann Institute

3D motif for 3KG2, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3kg2_D] [3kg2_C] [3kg2] [3kg2_A] [3kg2_B]

SWISS-PROT database: [P19491]

Domain organization of [GRIA2_RAT] by SWISSPFAM

Domains found in 3KG2: [Lig_chan-Glu_bd] [PBPe ] by SMART

Other resources with information on 3KG2

Community annotation for 3KG2 at PDBWiki (http://pdbwiki.org)

MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

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