1XHX Transferase date Sep 21, 2004
title Phi29 Dna Polymerase, Orthorhombic Crystal Form
authors S.Kamtekar, A.J.Berman, J.Wang, J.M.Lazaro, M.De Vega, L.Blanco, M.Salas, T.A.Steitz
compound source
Molecule: Dna Polymerase
Chain: A, B, C, D
Synonym: Early Protein Gp2
Engineered: Yes
Mutation: Yes
Organism_scientific: Bacillus Phage Phi29
Organism_taxid: 10756
Gene: 2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.206 R_Free 0.257
length a length b length c angle alpha angle beta angle gamma
96.256 149.911 199.024 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.35 Å
ligand MG, SO4 enzyme Transferase E.C. BRENDA
related structures by homologous chain: 1XHZ, 1XI1
A, D, C, B
  • DNA-directed DNA polymerase ...
  • nuclease activity
  • exonuclease activity

  • Primary referenceInsights into strand displacement and processivity from the crystal structure of the protein-primed DNA polymerase of bacteriophage phi29., Kamtekar S, Berman AJ, Wang J, Lazaro JM, de Vega M, Blanco L, Salas M, Steitz TA, Mol Cell 2004 Nov 19;16(4):609-18. PMID:15546620
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (416 Kb) [Save to disk]
  • Biological Unit Coordinates (1xhx.pdb1.gz) 105 Kb
  • Biological Unit Coordinates (1xhx.pdb2.gz) 107 Kb
  • Biological Unit Coordinates (1xhx.pdb3.gz) 107 Kb
  • Biological Unit Coordinates (1xhx.pdb4.gz) 108 Kb
  • LPC: Ligand-Protein Contacts for 1XHX
  • CSU: Contacts of Structural Units for 1XHX
  • Likely Quarternary Molecular Structure file(s) for 1XHX
  • Structure Factors (1038 Kb)
  • Retrieve 1XHX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1XHX from S2C, [Save to disk]
  • Re-refined 1xhx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1XHX 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 1XHX
  • 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 1XHX, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1xhxa2, region A:188-575 [Jmol] [rasmolscript] [script source]
        - Domain d1xhxa1, region A:5-187 [Jmol] [rasmolscript] [script source]
  • Fold representative 1xhx from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1xhx_B] [1xhx_A] [1xhx_C] [1xhx] [1xhx_D]
  • SWISS-PROT database: [P03680]
  • Domain organization of [DPOL_BPPH2] by SWISSPFAM
  • Domain found in 1XHX: [POLBc ] by SMART
  • Other resources with information on 1XHX
  • Community annotation for 1XHX 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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