1J5O Transferase Immune System Dna date May 24, 2002
title Crystal Structure Of Met184ile Mutant Of Hiv-1 Reverse Transcriptase In Complex With Double Stranded Dna Template- Primer
authors S.G.Sarafianos, K.Das, E.Arnold
compound source
Molecule: 5'- D(Aptpgpgpcpgpcpcpcpgpapapcpapgpgpgpapc) -3';
Chain: T
Engineered: Yes
Synthetic: Yes

Molecule: 5'- D(Gptpcpcpcptpgptptpcpgpgpgpcpgpcpcpa)- 3';
Chain: P
Engineered: Yes

Synthetic: Yes

Molecule: Reverse Transcriptase
Chain: A
Synonym: Hiv-1 Rt
Ec: 2.7.7.49
Engineered: Yes
Mutation: Yes

Organism_scientific: Human Immunodeficiency Virus 1
Organism_taxid: 11676
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Reverse Transcriptase
Chain: B
Synonym: Hiv-1 Rt
Ec: 2.7.7.49
Engineered: Yes
Mutation: Yes

Organism_scientific: Human Immunodeficiency Virus 1
Organism_taxid: 11676
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Antibody (Light Chain)
Chain: L
Fragment: Fab28

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090

Molecule: Antibody (Heavy Chain)
Chain: H
Fragment: Fab28

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
symmetry Space Group: P 32 1 2
R_factor 0.262 R_Free 0.338
crystal
cell
length a length b length c angle alpha angle beta angle gamma
169.180 169.180 221.910 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.50 Å
ligand
enzyme Transferase E.C.2.7.7.49 BRENDA
note 1J5O supersedes 1C9R
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceLamivudine (3TC) resistance in HIV-1 reverse transcriptase involves steric hindrance with beta-branched amino acids., Sarafianos SG, Das K, Clark AD Jr, Ding J, Boyer PL, Hughes SH, Arnold E, Proc Natl Acad Sci U S A 1999 Aug 31;96(18):10027-32. PMID:10468556
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (245 Kb) [Save to disk]
  • Biological Unit Coordinates (1j5o.pdb1.gz) 237 Kb
  • CSU: Contacts of Structural Units for 1J5O
  • Likely Quarternary Molecular Structure file(s) for 1J5O
  • Structure Factors (266 Kb)
  • Retrieve 1J5O in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1J5O from S2C, [Save to disk]
  • Re-refined 1j5o structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1J5O 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 1J5O
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1J5O, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1j5oa2, region A:1-429 [Jmol] [rasmolscript] [script source]
        - Domain d1j5oa1, region A:430-558 [Jmol] [rasmolscript] [script source]
        - Domain d1j5ob_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1j5oh1, region H:1-123 [Jmol] [rasmolscript] [script source]
        - Domain d1j5oh2, region H:124-220 [Jmol] [rasmolscript] [script source]
        - Domain d1j5ol1, region L:1-107 [Jmol] [rasmolscript] [script source]
        - Domain d1j5ol2, region L:108-214 [Jmol] [rasmolscript] [script source]
  • Fold representative 1j5o from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1j5o_A] [1j5o_L] [1j5o_H] [1j5o_P] [1j5o_B] [1j5o_T] [1j5o]
  • SWISS-PROT database: [P03366]
  • Domain organization of [POL_HV1B1] by SWISSPFAM
  • Domains found in 1J5O: [IG_like] [IGv ] by SMART
  • Other resources with information on 1J5O
  • Community annotation for 1J5O at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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