3I5D	Transport Protein	date	Jul 05, 2009
title	Crystal Structure Of The Atp-Gated P2x4 Ion Channel In The C State At 3.5 Angstroms (R3)
authors	T.Kawate, J.C.Michel, E.Gouaux
compound		source
Molecule: P2x Purinoceptor Chain: A, B, C Fragment: Unp Residues 28-381 Engineered: Yes Mutation: Yes		Organism_scientific: Danio Rerio Organism_common: Leopard Danio,Zebra Danio,Zebra Fish Organism_taxid: 7955 Gene: P2rx4a, P2x4.1 Expression_system: Spodoptera Frugiperda Expression_system_common: Fall Armyworm Expression_system_taxid: 7108 Expression_system_strain: Sf9 Expression_system_vector_type: Bacmid Expression_system_plasmid: Pfastbac
symmetry	Space Group: H 3	R_factor 0.276 R_Free 0.289
crystal cell	length a length b length c angle alpha angle beta angle gamma 234.910 234.910 138.433 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	3.46 Å
ligand	NAG	enzyme
Gene Ontology	Chain Function Process Component A, C, B purinergic nucleotide recept... extracellularly ATP-gated ca... excitatory postsynaptic pote...
Primary reference	Crystal structure of the ATP-gated P2X(4) ion channel in the closed state., Kawate T, Michel JC, Birdsong WT, Gouaux E, Nature. 2009 Jul 30;460(7255):592-8. PMID:19641588

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (159 Kb) [Save to disk] Biological Unit Coordinates (3i5d.pdb1.gz) 148 Kb LPC: Ligand-Protein Contacts for 3I5D CSU: Contacts of Structural Units for 3I5D Structure Factors (612 Kb) Retrieve 3I5D in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3I5D from S2C, [Save to disk] Re-refined 3i5d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3I5D 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 3I5D

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 3I5D, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3i5d_A] [3i5d_C] [3i5d] [3i5d_B] SWISS-PROT database: [Q6NYR1] Domain organization of [Q6NYR1_DANRE] by SWISSPFAM

Other resources with information on 3I5D

Community annotation for 3I5D at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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