4DCH Transferase date Jan 17, 2012
title Insights Into Glucokinase Activation Mechanism: Observation Multiple Distinct Protein Conformations
authors S.E.Greasley, M.Hickey, J.Feng, E.Garcia
compound source
Molecule: Glucokinase
Chain: A
Synonym: Hexokinase Type Iv, Hk Iv, Hexokinase-4, Hk4, Hexo
Ec: 2.7.1.2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gck
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.198 R_Free 0.231
crystal
cell
length a length b length c angle alpha angle beta angle gamma
49.917 85.794 72.939 90.00 104.40 90.00
method X-Ray Diffractionresolution 1.79 Å
ligand 4DC, GLC, IOD BindingDB enzyme Transferase E.C.2.7.1.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceInsights into the mechanism of glucokinase activation: observation of multiple distinct protein conformations., Liu S, Ammirati MJ, Song X, Knafels JD, Zhang J, Greasley SE, Pfefferkorn JA, Qiu X, J Biol Chem. 2012 Feb 1. PMID:22298776
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (80 Kb) [Save to disk]
  • Biological Unit Coordinates (4dch.pdb1.gz) 76 Kb
  • LPC: Ligand-Protein Contacts for 4DCH
  • CSU: Contacts of Structural Units for 4DCH
  • Structure Factors (786 Kb)
  • Retrieve 4DCH in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4DCH from S2C, [Save to disk]
  • Re-refined 4dch structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4DCH 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 4DCH
  • 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 4DCH, from MSDmotif at EBI
  • Fold representative 4dch from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4dch_A] [4dch]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 4DCH with the sequences similar proteins can be viewed for 4DCH's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 4DCH
  • Community annotation for 4DCH at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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