1N48 Transferase Dna date Oct 30, 2002
title Y-Family Dna Polymerase Dpo4 In Complex With Dna Containing Lesion
authors H.Ling, F.Boudsocq, R.Woodgate, W.Yang
compound source
Molecule: 5'-D(Gpgpgpgpgpapapgpgpapcptpa)-3'
Chain: B
Engineered: Yes
Other_details: Template
Synthetic: Yes

Molecule: 5'-D(Cpap(3dr)Ptpapgptpcpcptptpcpcp 3';
Chain: C
Engineered: Yes
Other_details: Primer

Synthetic: Yes

Molecule: Dna Polymerase Iv
Chain: A
Synonym: Dpo4, Dna Polymerase Iv, Repair Dna Polymerase Of Dinbumuc Superfamily, Dinp;
Ec: 2.7.7.7
Engineered: Yes

Organism_scientific: Sulfolobus Solfataricus
Organism_taxid: 273057
Strain: P2
Gene: Dpo4
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet22bb
symmetry Space Group: P 21 21 21
R_factor 0.204 R_Free 0.230
crystal
cell
length a length b length c angle alpha angle beta angle gamma
75.546 88.458 92.389 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand 3DR, ATP, CA enzyme Transferase E.C.2.7.7.7 BRENDA
related structures by homologous chain: 1RYR, 1S0O
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (83 Kb) [Save to disk]
  • Biological Unit Coordinates (1n48.pdb1.gz) 77 Kb
  • LPC: Ligand-Protein Contacts for 1N48
  • CSU: Contacts of Structural Units for 1N48
  • Likely Quarternary Molecular Structure file(s) for 1N48
  • Structure Factors (292 Kb)
  • Retrieve 1N48 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1N48 from S2C, [Save to disk]
  • Re-refined 1n48 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1N48 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 1N48
  • 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 1N48, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1n48a2, region A:1-240 [Jmol] [rasmolscript] [script source]
        - Domain d1n48a1, region A:241-342 [Jmol] [rasmolscript] [script source]
  • Fold representative 1n48 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: [1n48_C] [1n48_B] [1n48] [1n48_A]
  • SWISS-PROT database: [Q97W02]
  • Domain organization of [DPO42_SULSO] by SWISSPFAM
  • Other resources with information on 1N48
  • Community annotation for 1N48 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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