3KGZ Structural Genomics, Unknown Function date Oct 29, 2009
title Crystal Structure Of A Cupin 2 Conserved Barrel Domain Prote Rhodopseudomonas Palustris
authors J.B.Bonanno, J.Freeman, K.T.Bain, J.Do, R.Romero, S.Wasserman, J.M S.K.Burley, S.C.Almo, New York Sgx Research Center For Struct Genomics (Nysgxrc)
compound source
Molecule: Cupin 2 Conserved Barrel Domain Protein
Chain: A, B
Fragment: Sequence Database Residues 20-165
Engineered: Yes
 Organism_scientific: Rhodopseudomonas Palustris
Organism_taxid: 395960
Strain: Tie-1
Gene: Rpal_2463
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_vector: Pet
Expression_system_plasmid: Modified Pet26
symmetry Space Group: P 21 21 21
R_factor 0.199 R_Free 0.248
crystal
cell
length a length b length c angle alpha angle beta angle gamma
36.854 80.382 110.081 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.85 Å
ligand MN enzyme
note 3KGZ is a representative structure
Gene RPAL
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (54 Kb) [Save to disk]
  • Biological Unit Coordinates (3kgz.pdb1.gz) 50 Kb
  • LPC: Ligand-Protein Contacts for 3KGZ
  • CSU: Contacts of Structural Units for 3KGZ
  • Structure Factors (1286 Kb)
  • Retrieve 3KGZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3KGZ from S2C, [Save to disk]
  • Re-refined 3kgz structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3KGZ 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 3KGZ
  • 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 3KGZ, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3kgz_B] [3kgz_A] [3kgz]
  • SWISS-PROT database: [B3QER1]
  • Domain organization of [B3QER1_RHOPT] by SWISSPFAM
    • Other resources with information on 3KGZ
  • Community annotation for 3KGZ 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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