1KHR Transferase Antibiotic date Nov 30, 2001
title Crystal Structure Of Vat(D) In Complex With Virginiamycin An A
authors M.Sugantino, S.L.Roderick
compound source
Molecule: Streptogramin A Acetyltransferase
Chain: A, B, C, D, E, F
Ec: 2.3.1.-
Engineered: Yes
 Organism_scientific: Enterococcus Faecium
Organism_taxid: 1352
Gene: Sata
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11a
symmetry Space Group: F 2 2 2
R_factor 0.186 R_Free 0.251
crystal
cell
length a length b length c angle alpha angle beta angle gamma
186.100 185.900 186.900 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand COA, VIR enzyme Transferase E.C.2.3.1 BRENDA
related structures by homologous chain: 1KK5, 1MRL
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceCrystal structure of Vat(D): an acetyltransferase that inactivates streptogramin group A antibiotics., Sugantino M, Roderick SL, Biochemistry 2002 Feb 19;41(7):2209-16. PMID:11841212
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (208 Kb) [Save to disk]
  • Biological Unit Coordinates (1khr.pdb1.gz) 103 Kb
  • Biological Unit Coordinates (1khr.pdb2.gz) 102 Kb
  • LPC: Ligand-Protein Contacts for 1KHR
  • CSU: Contacts of Structural Units for 1KHR
  • Likely Quarternary Molecular Structure file(s) for 1KHR
  • Retrieve 1KHR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1KHR from S2C, [Save to disk]
    • View 1KHR 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 1KHR
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1KHR, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1khra_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1khrb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1khrc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1khrd_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1khre_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1khrf_, region F [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1khr_E] [1khr_B] [1khr_D] [1khr_C] [1khr] [1khr_F] [1khr_A]
  • SWISS-PROT database: [P50870]
  • Domain organization of [VATD_ENTFC] by SWISSPFAM
    • Other resources with information on 1KHR
  • Community annotation for 1KHR at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

    • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science