2YWF Translation date Apr 20, 2007
title Crystal Structure Of Gmppnp-Bound Lepa From Aquifex Aeolicus
authors M.Kawazoe, C.Takemoto, T.Kaminishi, A.Nishino, R.Nakayama-Ushiko K.Hanawa-Suetsugu, T.Terada, M.Shirouzu, S.Yokoyama, Riken Stru Genomicsproteomics Initiative (Rsgi)
compound source
Molecule: Gtp-Binding Protein Lepa
Chain: A
Engineered: Yes
Organism_scientific: Aquifex Aeolicus
Organism_taxid: 224324
Strain: Vf5
Gene: Lepa
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-11a
symmetry Space Group: C 2 2 21
R_factor 0.210 R_Free 0.251
length a length b length c angle alpha angle beta angle gamma
81.451 116.142 123.329 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.24 Å
ligand GNP, MG enzyme
  • translation elongation facto...

  • Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (95 Kb) [Save to disk]
  • Biological Unit Coordinates (2ywf.pdb1.gz) 90 Kb
  • LPC: Ligand-Protein Contacts for 2YWF
  • CSU: Contacts of Structural Units for 2YWF
  • Likely Quarternary Molecular Structure file(s) for 2YWF
  • Structure Factors (239 Kb)
  • Retrieve 2YWF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2YWF from S2C, [Save to disk]
  • Re-refined 2ywf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2YWF 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 2YWF
  • 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 2YWF, from MSDmotif at EBI
  • Fold representative 2ywf from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ywf] [2ywf_A]
  • SWISS-PROT database: [O67618]
  • Domain organization of [LEPA_AQUAE] by SWISSPFAM
  • Domain found in 2YWF: [EFG_C ] by SMART
  • Other resources with information on 2YWF
  • Community annotation for 2YWF 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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