3H1V Transferase date Apr 14, 2009
title Human Glucokinase In Complex With A Synthetic Activator
authors K.Kamata, K.Takahashi
compound source
Molecule: Glucokinase
Chain: X
Fragment: Unp Residues 16-465
Synonym: Hexokinase Type Iv, Hk Iv, Hexokinase-4, Hk4, Hexo
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gck
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Dh5alfa
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pflag-Ctc
symmetry Space Group: P 65 2 2
R_factor 0.232 R_Free 0.284
length a length b length c angle alpha angle beta angle gamma
79.793 79.793 326.124 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.11 Å
ligand GLC, NA, TK1 enzyme Transferase E.C. BRENDA

Primary referenceThe design and optimization of a series of 2-(pyridin-2-yl)-1H-benzimidazole compounds as allosteric glucokinase activators., Takahashi K, Hashimoto N, Nakama C, Kamata K, Sasaki K, Yoshimoto R, Ohyama S, Hosaka H, Maruki H, Nagata Y, Eiki J, Nishimura T, Bioorg Med Chem. 2009 Oct 1;17(19):7042-51. Epub 2009 May 21. PMID:19736020
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (81 Kb) [Save to disk]
  • Biological Unit Coordinates (3h1v.pdb1.gz) 76 Kb
  • LPC: Ligand-Protein Contacts for 3H1V
  • CSU: Contacts of Structural Units for 3H1V
  • Structure Factors (518 Kb)
  • Retrieve 3H1V in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3H1V from S2C, [Save to disk]
  • Re-refined 3h1v structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3H1V 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 3H1V
  • 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 3H1V, from MSDmotif at EBI
  • Fold representative 3h1v from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3h1v] [3h1v_X]
  • SWISS-PROT database: [P35557]
  • Domain organization of [HXK4_HUMAN] by SWISSPFAM
  • Other resources with information on 3H1V
  • Community annotation for 3H1V 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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