3MP5 Lyase date Apr 24, 2010
title Crystal Structure Of Human Lyase R41m In Complex With Hmg-Co
authors Z.Fu, J.A.Runquist, C.Montgomery, H.M.Miziorko, J.J.P.Kim
compound source
Molecule: Hydroxymethylglutaryl-Coa Lyase
Chain: A, B, C, D, E, F
Synonym: Hmg-Coa Lyase, Hl, 3-Hydroxy-3-Methylglutarate-Coa
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hmgcl
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Jm105
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ptrc-Hl1
symmetry Space Group: C 1 2 1
R_factor 0.221 R_Free 0.271
length a length b length c angle alpha angle beta angle gamma
197.980 116.660 86.520 90.00 112.16 90.00
method X-Ray Diffractionresolution 2.25 Å
ligand HMG, MG enzyme Lyase E.C. BRENDA
F, A, D, C, E, B

Primary referenceFunctional insights into human HMG-CoA lyase from structures of Acyl-CoA-containing ternary complexes., Fu Z, Runquist JA, Montgomery C, Miziorko HM, Kim JJ, J Biol Chem. 2010 Aug 20;285(34):26341-9. Epub 2010 Jun 17. PMID:20558737
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (274 Kb) [Save to disk]
  • Biological Unit Coordinates (3mp5.pdb1.gz) 95 Kb
  • Biological Unit Coordinates (3mp5.pdb2.gz) 91 Kb
  • Biological Unit Coordinates (3mp5.pdb3.gz) 91 Kb
  • LPC: Ligand-Protein Contacts for 3MP5
  • CSU: Contacts of Structural Units for 3MP5
  • Structure Factors (657 Kb)
  • Retrieve 3MP5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3MP5 from S2C, [Save to disk]
  • Re-refined 3mp5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3MP5 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 3MP5
  • 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 3MP5, from MSDmotif at EBI
  • Fold representative 3mp5 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3mp5_D] [3mp5_F] [3mp5_B] [3mp5_A] [3mp5_E] [3mp5] [3mp5_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3MP5
  • Community annotation for 3MP5 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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