5K09 Transferase date May 17, 2016
title Crystal Structure Of Comt In Complex With A Thiazole Ligand
authors A.Ehler, R.M.Rodriguez-Sarmiento, M.G.Rudolph
compound source
Molecule: Catechol O-Methyltransferase
Chain: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R V, W, X;
Ec: 2.1.1.6
Engineered: Yes
Organism_scientific: Rattus Norvegicus
Organism_common: Norway Rat
Organism_taxid: 10116
Gene: Comt
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_vector_type: Plasmid
symmetry Space Group: P 1
R_factor 0.165 R_Free 0.236
crystal
cell
length a length b length c angle alpha angle beta angle gamma
84.035 138.418 158.501 91.48 97.19 90.16
method X-Ray Diffractionresolution 2.70 Å
ligand 6PQ, K, PO4 enzyme Transferase E.C.2.1.1.6 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
S, F, T, N, K, E, V, Q, M, C, L, A, J, O, W, X, P, B, H, D, R, I, G, U


Primary referenceDesign of Potent and Druglike Nonphenolic Inhibitors for Catechol O-Methyltransferase Derived from a Fragment Screening Approach Targeting the S-Adenosyl-l-methionine Pocket., Lerner C, Jakob-Roetne R, Buettelmann B, Ehler A, Rudolph M, Rodriguez Sarmiento RM, J Med Chem. 2016 Oct 14. PMID:27685665
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1765 Kb) [Save to disk]
  • Biological Unit Coordinates (5k09.pdb1.gz) 86 Kb
  • Biological Unit Coordinates (5k09.pdb2.gz) 86 Kb
  • Biological Unit Coordinates (5k09.pdb3.gz) 86 Kb
  • Biological Unit Coordinates (5k09.pdb4.gz) 86 Kb
  • Biological Unit Coordinates (5k09.pdb5.gz) 88 Kb
  • Biological Unit Coordinates (5k09.pdb6.gz) 86 Kb
  • Biological Unit Coordinates (5k09.pdb7.gz) 86 Kb
  • Biological Unit Coordinates (5k09.pdb8.gz) 86 Kb
  • Biological Unit Coordinates (5k09.pdb9.gz) 86 Kb
  • LPC: Ligand-Protein Contacts for 5K09
  • CSU: Contacts of Structural Units for 5K09
  • Structure Factors (7485 Kb)
  • Retrieve 5K09 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5K09 from S2C, [Save to disk]
  • Re-refined 5k09 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5K09 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 5K09
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5k09 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5k09_X] [5k09_C] [5k09_U] [5k09_T] [5k09_G] [5k09_S] [5k09_I] [5k09_K] [5k09_H] [5k09_N] [5k09_O] [5k09_V] [5k09_D] [5k09_F] [5k09_J] [5k09_R] [5k09_Q] [5k09_P] [5k09_B] [5k09_W] [5k09_M] [5k09_L] [5k09] [5k09_E] [5k09_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5K09
  • Community annotation for 5K09 at PDBWiki (http://pdbwiki.org)

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