2RKX Lyase date Oct 18, 2007
title The 3d Structure Of Chain D, Cyclase Subunit Of Imidazoleglycerol_evolvedcerolphosphate Synthase
authors D.Tawfik, O.Khersonsky, S.Albeck, O.Dym, Israel Structural Proteomics Center (Ispc)
compound source
Molecule: Cyclase Subunit Of Imidazoleglycerol_evolvedcerolphosphate Synthase;
Chain: A
Ec: 4.1.3.-
Engineered: Yes
Synthetic: Yes
Other_details: Synthetic Protein
symmetry Space Group: P 61 2 2
R_factor 0.206 R_Free 0.235
crystal
cell
length a length b length c angle alpha angle beta angle gamma
96.380 96.380 153.988 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.25 Å
ligand
enzyme Lyase E.C.4.1.3 BRENDA
Primary referenceKemp elimination catalysts by computational enzyme design., Rothlisberger D, Khersonsky O, Wollacott AM, Jiang L, DeChancie J, Betker J, Gallaher JL, Althoff EA, Zanghellini A, Dym O, Albeck S, Houk KN, Tawfik DS, Baker D, Nature. 2008 May 8;453(7192):190-5. Epub 2008 Mar 19. PMID:18354394
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (46 Kb) [Save to disk]
  • Biological Unit Coordinates (2rkx.pdb1.gz) 42 Kb
  • CSU: Contacts of Structural Units for 2RKX
  • Likely Quarternary Molecular Structure file(s) for 2RKX
  • Structure Factors (211 Kb)
  • Retrieve 2RKX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2RKX from S2C, [Save to disk]
  • Re-refined 2rkx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2RKX 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 2RKX
  • 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 2RKX, from MSDmotif at EBI
  • Fold representative 2rkx from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2rkx] [2rkx_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 2RKX
  • Community annotation for 2RKX 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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