2CZL Structural Genomics, Unknown Function date Jul 13, 2005
title Crystal Structure Of Mqnd (Ttha1568), A Menaquinone Biosynth Enzyme From Thermus Thermophilus Hb8 (Cys11 Modified With B Mercaptoethanol)
authors R.Arai, A.Nishino, K.Nagano, T.Kamo-Uchikubo, M.Nishimoto, M.Toya T.Terada, K.Murayama, M.Shirouzu, S.Yokoyama, Riken Structural Genomicsproteomics Initiative (Rsgi)
compound source
Molecule: Hypothetical Protein Ttha1568
Chain: A
Engineered: Yes
 Organism_scientific: Thermus Thermophilus
Organism_taxid: 300852
Strain: Hb8
Gene: Ttha1568
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11
symmetry Space Group: P 43 21 2
R_factor 0.182 R_Free 0.209
crystal
cell
length a length b length c angle alpha angle beta angle gamma
60.236 60.236 171.276 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.55 Å
ligand CME, K, TLA, XPE enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal structure of MqnD (TTHA1568), a menaquinone biosynthetic enzyme from Thermus thermophilus HB8., Arai R, Murayama K, Uchikubo-Kamo T, Nishimoto M, Toyama M, Kuramitsu S, Terada T, Shirouzu M, Yokoyama S, J Struct Biol. 2009 Dec;168(3):575-81. Epub 2009 Jul 12. PMID:19602440
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (56 Kb) [Save to disk]
  • Biological Unit Coordinates (2czl.pdb1.gz) 51 Kb
  • LPC: Ligand-Protein Contacts for 2CZL
  • CSU: Contacts of Structural Units for 2CZL
  • Likely Quarternary Molecular Structure file(s) for 2CZL
  • Structure Factors (675 Kb)
  • Retrieve 2CZL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2CZL from S2C, [Save to disk]
  • Re-refined 2czl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2CZL 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 2CZL
  • 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 2CZL, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2czl] [2czl_A]
  • SWISS-PROT database: [Q5SI12]
  • Domain organization of [Q5SI12_THET8] by SWISSPFAM
    • Other resources with information on 2CZL
  • Community annotation for 2CZL 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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