6AN8 Transferase Dna date Aug 12, 2017
title Structure Of Hiv-1 Reverse Transcriptase (Rt) Ternary Comple Double Stranded Dna And An Incoming D4ttp At Ph 8.0
authors S.E.Martinez, K.Das, E.Arnold
compound source
Molecule: Hiv-1 Reverse Transcriptase P66 Subunit
Chain: A, C
Ec: 2.7.7.49,2.7.7.7
Engineered: Yes
Mutation: Yes
Organism_scientific: Human Immunodeficiency Virus Type 1 Gr Subtype B (Isolate Bh10);
Organism_common: Hiv-1
Organism_taxid: 11678
Strain: Isolate Bh10
Gene: Gag-Pol
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Bl21 Codonplus Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pcdf-2 Eklic

Molecule: Hiv-1 Reverse Transcriptase P51 Subunit
Chain: B, D
Ec: 2.7.7.49,2.7.7.7
Engineered: Yes
Mutation: Yes

Organism_scientific: Human Immunodeficiency Virus Type 1 Gr Subtype B (Isolate Bh10);
Organism_common: Hiv-1
Organism_taxid: 11678
Strain: Isolate Bh10
Gene: Gag-Pol
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Bl21 Codonplus Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pcdf-2 Eklic

Molecule: Dna Template (5'- D(Aptpgpapapcpgpgpcpgpcpcpcpgpapapcpapgp Cptpgptpg)-3');
Chain: T, E
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna Primer (5'- D(Apcpapgptpcpcpcptpgptptpcpgpgpgpcpgpcp 3');
Chain: P, F
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 1 21 1
R_factor 0.178 R_Free 0.217
crystal
cell
length a length b length c angle alpha angle beta angle gamma
89.959 132.824 138.909 90.00 97.83 90.00
method X-Ray Diffractionresolution 2.60 Å
ligand D4T, DDG, GOL, MG enzyme Transferase E.C.2.7.7.49 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Primary referenceStructure of HIV-1 reverse transcriptase/d4TTP complex: novel DNA cross-linking site and pH-dependent conformational changes., Martinez SE, Bauman JD, Das K, Arnold E, Protein Sci. 2018 Nov 30. doi: 10.1002/pro.3559. PMID:30499174
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (783 Kb) [Save to disk]
  • Biological Unit Coordinates (6an8.pdb1.gz) 390 Kb
  • Biological Unit Coordinates (6an8.pdb2.gz) 385 Kb
  • LPC: Ligand-Protein Contacts for 6AN8
  • CSU: Contacts of Structural Units for 6AN8
  • Structure Factors (735 Kb)
  • Retrieve 6AN8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6AN8 from S2C, [Save to disk]
  • View 6AN8 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 6AN8
  • 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 6an8 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6an8_F] [6an8_P] [6an8_D] [6an8_C] [6an8_E] [6an8_B] [6an8_T] [6an8_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6AN8
  • Community annotation for 6AN8 at PDBWiki (http://pdbwiki.org)

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