5XN0 Transferase Dna date May 17, 2017
title Hiv-1 Reverse Transcriptase Q151m:Dna Binary Complex
authors Y.Yasutake, N.Tamura, H.Hayashi, K.Maeda
compound source
Molecule: Pol Protein
Chain: A, C
Fragment: Unp Residues 100-654
Engineered: Yes
Mutation: Yes
Organism_scientific: Human Immunodeficiency Virus 1
Organism_taxid: 11676
Gene: Pol
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)-Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pcdf

Molecule: Pol Protein
Chain: B, D
Fragment: Unp Residues 100-527
Engineered: Yes
Mutation: Yes

Organism_scientific: Human Immunodeficiency Virus 1
Organism_taxid: 11676
Gene: Pol
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)-Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28

Molecule: 38-Mer Dna Aptamer
Chain: E, F
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: H 3
R_factor 0.185 R_Free 0.226
crystal
cell
length a length b length c angle alpha angle beta angle gamma
284.091 284.091 95.605 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.60 Å
ligand FRU, GLC, GOL, OMC enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Primary referenceHIV-1 with HBV-associated Q151M substitution in RT becomes highly susceptible to entecavir: structural insights into HBV-RT inhibition by entecavir., Yasutake Y, Hattori SI, Hayashi H, Matsuda K, Tamura N, Kohgo S, Maeda K, Mitsuya H, Sci Rep. 2018 Jan 26;8(1):1624. doi: 10.1038/s41598-018-19602-9. PMID:29374261
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (726 Kb) [Save to disk]
  • Biological Unit Coordinates (5xn0.pdb1.gz) 360 Kb
  • Biological Unit Coordinates (5xn0.pdb2.gz) 363 Kb
  • LPC: Ligand-Protein Contacts for 5XN0
  • CSU: Contacts of Structural Units for 5XN0
  • Structure Factors (2740 Kb)
  • Retrieve 5XN0 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5XN0 from S2C, [Save to disk]
  • View 5XN0 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 5XN0
  • 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: [5xn0_D] [5xn0_C] [5xn0_B] [5xn0_E] [5xn0_F] [5xn0_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5XN0
  • Community annotation for 5XN0 at PDBWiki (http://pdbwiki.org)

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