6KDM Transferase Dna date Jul 02, 2019
title Hiv-1 Reverse Transcriptase With Q151my115ff116y:Dna:Entec Triphosphate Ternary Complex
authors Y.Yasutake, S.I.Hattori, N.Tamura, K.Maeda
compound source
Molecule: Hiv-1 Reverse Transcriptase P66 Subunit
Chain: A, C
Engineered: Yes
Mutation: Yes
 Organism_scientific: Human Immunodeficiency Virus 1
Organism_taxid: 11676
Gene: Pol
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_variant: Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pcdf

Molecule: Hiv-1 Rt P51 Subunit
Chain: B, D
Synonym: Hiv-1 Reverse Transcriptase P51 Subunit, P51 Rt
Engineered: Yes
Mutation: Yes
Organism_scientific: Human Immunodeficiency Virus Type 1
Organism_taxid: 11676
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_variant: Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28

Molecule: Dnarna (38-Mer)
Chain: E, F
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: H 3
R_factor 0.190 R_Free 0.223
crystal
cell
length a length b length c angle alpha angle beta angle gamma
284.447 284.447 95.773 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.32 Å
ligand ET9, GOL, MG, OMC enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (732 Kb) [Save to disk]
  • Biological Unit Coordinates (6kdm.pdb1.gz) 365 Kb
  • Biological Unit Coordinates (6kdm.pdb2.gz) 364 Kb
  • LPC: Ligand-Protein Contacts for 6KDM
  • CSU: Contacts of Structural Units for 6KDM
  • Structure Factors (2961 Kb)
  • Retrieve 6KDM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6KDM from S2C, [Save to disk]
    • View 6KDM 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 6KDM
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6kdm_E] [6kdm_C] [6kdm_B] [6kdm_F] [6kdm_A] [6kdm_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6KDM
  • Community annotation for 6KDM at PDBWiki (http://pdbwiki.org)

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