1KIL Membrane Protein date Dec 03, 2001
title Three-Dimensional Structure Of The Complexinsnare Complex
authors X.Chen, D.Tomchick, E.Kovrigin, D.Arac, M.Machius, T.C.Sudhof, J.Rizo
compound source
Molecule: Synaptobrevin Snare Motif
Chain: A
Fragment: Snare Motif (29-93)
Synonym: Vessicle Associated Membrane Protein 2b
Engineered: Yes
Organism_scientific: Rattus Norvegicus
Organism_common: Norway Rat
Organism_taxid: 10116
Gene: Synaptobrevin 2
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-Kt

Molecule: Syntaxin Snare Motif Short
Chain: B
Fragment: Snare Motif (191-253)
Synonym: Synaptotagmin Associated Associated 35 Kda Protein;
Engineered: Yes

Organism_scientific: Rattus Norvegicus
Organism_common: Norway Rat
Organism_taxid: 10116
Gene: Syntaxin 1a
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-Kt

Molecule: Snap-25 N-Terminal Snare Motif
Chain: C
Fragment: Snare Motif (11-82)
Synonym: Synaptosomal-Associated Protein 25kd
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Snap-25
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-Kt

Molecule: Snap-25 C-Terminal Snare Motif
Chain: D
Fragment: Snare Motif (141-203)
Synonym: Synaptosomal-Associated Protein 25kd
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Snap-25
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-Kt

Molecule: Complexin I Snare-Complex Binding Region
Chain: E
Fragment: Complexin (Residues 26-83)
Engineered: Yes

Organism_scientific: Rattus Norvegicus
Organism_common: Norway Rat
Organism_taxid: 10116
Gene: Complexin 1
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-Kt
symmetry Space Group: P 21 21 21
R_factor 0.245 R_Free 0.305
crystal
cell
length a length b length c angle alpha angle beta angle gamma
40.489 60.425 159.787 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand MG enzyme
note 1KIL (Molecule of the Month:pdb167)
related structures by homologous chain: 1HVV, 1JTH, 1N7S, 1SFC, 1XTG
Gene
Ontology
ChainFunctionProcessComponent
A


B


D, C


E


Primary referenceThree-dimensional structure of the complexin/SNARE complex., Chen X, Tomchick DR, Kovrigin E, Arac D, Machius M, Sudhof TC, Rizo J, Neuron 2002 Jan 31;33(3):397-409. PMID:11832227
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (59 Kb) [Save to disk]
  • Biological Unit Coordinates (1kil.pdb1.gz) 54 Kb
  • LPC: Ligand-Protein Contacts for 1KIL
  • CSU: Contacts of Structural Units for 1KIL
  • Likely Quarternary Molecular Structure file(s) for 1KIL
  • Structure Factors (179 Kb)
  • Retrieve 1KIL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1KIL from S2C, [Save to disk]
  • Re-refined 1kil structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1KIL 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 1KIL
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1KIL, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1kila_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1kilb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1kilc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1kild_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1kile_, region E [Jmol] [rasmolscript] [script source]
  • Fold representative 1kil from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1kil_E] [1kil_C] [1kil] [1kil_B] [1kil_D] [1kil_A]
  • SWISS-PROT database: [P63041] [P60880] [P32851] [P63045]
  • Belongs to the synaptosomal vesicle fusion pore (svf-pore) family according to TCDB.
  • Domain organization of [CPLX1_RAT] [SNP25_HUMAN] [STX1A_RAT] [VAMP2_RAT] by SWISSPFAM
  • Domain found in 1KIL: [t_SNARE ] by SMART
  • Other resources with information on 1KIL
  • Community annotation for 1KIL 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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