2NPS	Transport Protein	date	Oct 30, 2006
title	Crystal Structure Of The Early Endosomal Snare Complex
authors	D.Zwilling, A.Cypionka, W.H.Pohl, D.Fasshauer, P.J.Walla, M.C.Wah
compound		source
Molecule: Vesicle-Associated Membrane Protein 4 Chain: A Fragment: Vamp4 Snare Motif, Residues 47-117 Synonym: Vamp-4 Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Gene: Vamp4_predicted Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28a
Molecule: Syntaxin 13 Chain: B Fragment: Syntaxin 13 Snare Motif, Residues 177-244 Engineered: Yes		Organism_scientific: Rattus Norvegicus Organism_common: Norway Rat Organism_taxid: 10116 Gene: Syntaxin 13 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28a
Molecule: Vesicle Transport Through Interaction With T-Snar 1a; Chain: C Fragment: Vti1a Snare Motif, Residues 122-199 Synonym: Vesicle Transport V-Snare Protein Vti1-Like 2, Vti Engineered: Yes		Organism_scientific: Rattus Norvegicus Organism_common: Norway Rat Organism_taxid: 10116 Gene: Vti1a Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28a
Molecule: Syntaxin-6 Chain: D Fragment: Syntaxin 6 Snare Motif, T-Snare Coiled-Coil Homol Residues 169-234; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Stx6 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28a
symmetry	Space Group: C 1 2 1	R_factor 0.247 R_Free 0.289
crystal cell	length a length b length c angle alpha angle beta angle gamma 252.882 28.657 41.887 90.00 98.25 90.00
method	X-Ray Diffraction	resolution	2.50 Å
note	2NPS is a representative structure
Gene	VAMP4
Gene Ontology	Chain Function Process Component A D, B
Primary reference	Early endosomal SNAREs form a structurally conserved SNARE complex and fuse liposomes with multiple topologies., Zwilling D, Cypionka A, Pohl WH, Fasshauer D, Walla PJ, Wahl MC, Jahn R, EMBO J. 2006 Dec 7;. PMID:17159904

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (52 Kb) [Save to disk] Biological Unit Coordinates (2nps.pdb1.gz) 47 Kb CSU: Contacts of Structural Units for 2NPS Likely Quarternary Molecular Structure file(s) for 2NPS Structure Factors (73 Kb) Retrieve 2NPS in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2NPS from S2C, [Save to disk] Re-refined 2nps structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2NPS 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 2NPS

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 2NPS, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2nps_A] [2nps_B] [2nps_D] [2nps_C] [2nps] SWISS-PROT database: [O70319] [O43752] [O70480] [Q9JI51] Belongs to the synaptosomal vesicle fusion pore (svf-pore) family according to TCDB. Domain organization of [O70319_RAT] [STX6_HUMAN] [VAMP4_MOUSE] [VTI1A_RAT] by SWISSPFAM Domain found in 2NPS: [t_SNARE ] by SMART

Other resources with information on 2NPS

Community annotation for 2NPS at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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