1S9D Protein Transport Exchange Factor date Feb 04, 2004
title Arf1[Delta 1-17]-Gdp-Mg In Complex With Brefeldin A And A Se
authors L.Renault, B.Guibert, J.Cherfils
compound source
Molecule: Adp-Ribosylation Factor 1
Chain: A
Fragment: Residues 18-181
Engineered: Yes
Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
Gene: Arf1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 Gold
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11a

Molecule: Arno
Chain: E
Fragment: Sec7 Domain (Residues 50-252)
Synonym: Arf Nucleotide-Binding Site Opener, Cytohesin 2, A Exchange Factor;
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pscd2, Arno
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 Gold
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11d
symmetry Space Group: P 41 21 2
R_factor 0.182 R_Free 0.221
crystal
cell
length a length b length c angle alpha angle beta angle gamma
111.462 111.462 74.534 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand AFB, CME, GDP, MG enzyme
note 1S9D supersedes 1R8R
related structures by homologous chain: 1MR3, 1R8M, 1R8Q
Gene
Ontology
ChainFunctionProcessComponent
A


E


Primary referenceStructural snapshots of the mechanism and inhibition of a guanine nucleotide exchange factor., Renault L, Guibert B, Cherfils J, Nature 2003 Dec 4;426(6966):525-30. PMID:14654833
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (70 Kb) [Save to disk]
  • Biological Unit Coordinates (1s9d.pdb1.gz) 63 Kb
  • LPC: Ligand-Protein Contacts for 1S9D
  • CSU: Contacts of Structural Units for 1S9D
  • Likely Quarternary Molecular Structure file(s) for 1S9D
  • Structure Factors (317 Kb)
  • Retrieve 1S9D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1S9D from S2C, [Save to disk]
  • Re-refined 1s9d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1S9D 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 1S9D
  • 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 1S9D, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1s9da_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1s9de_, region E [Jmol] [rasmolscript] [script source]
  • 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: [1s9d] [1s9d_E] [1s9d_A]
  • SWISS-PROT database: [P84080] [Q99418]
  • Domain organization of [ARF1_BOVIN] [CYH2_HUMAN] by SWISSPFAM
  • Domains found in 1S9D: [ARF] [Sec7 ] by SMART
  • Other resources with information on 1S9D
  • Community annotation for 1S9D 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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