3FDS Transferase date Nov 26, 2008
title Structural Insight Into Recruitment Of Translesion Dna Polym To Sliding Clamp Pcna
authors H.Ling
compound source
Molecule: Dna Polymerase Iv
Chain: A
Synonym: Pol Iv
Ec: 2.7.7.7
Engineered: Yes
Organism_scientific: Sulfolobus Solfataricus
Organism_taxid: 2287
Gene: Dbh, Dpo4, Sso2448
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet26

Molecule: Dna Polymerase Sliding Clamp B
Chain: C
Synonym: Proliferating Cell Nuclear Antigen Homolog B, Pcna
Engineered: Yes

Organism_scientific: Sulfolobus Solfataricus
Organism_taxid: 2287
Gene: Pcnb, Pcna-2, Sso0397, C41_008
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet26

Molecule: Dna Polymerase Sliding Clamp C
Chain: D
Synonym: Proliferating Cell Nuclear Antigen Homolog C, Pcna
Engineered: Yes

Organism_scientific: Sulfolobus Solfataricus
Organism_taxid: 2287
Gene: Pcnc, Pcna-2, Sso1047
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet26
symmetry Space Group: P 1 21 1
R_factor 0.190 R_Free 0.240
crystal
cell
length a length b length c angle alpha angle beta angle gamma
65.986 86.414 97.582 90.00 107.30 90.00
method X-Ray Diffractionresolution 2.05 Å
ligand 1PE, EDO, GOL, PEG, PGE enzyme Transferase E.C.2.7.7.7 BRENDA
Gene C41
Gene
Ontology
ChainFunctionProcessComponent
A


C


D


Primary referenceStructural insight into recruitment of translesion DNA polymerase Dpo4 to sliding clamp PCNA., Xing G, Kirouac K, Shin YJ, Bell SD, Ling H, Mol Microbiol. 2008 Dec 1. PMID:19054331
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (154 Kb) [Save to disk]
  • Biological Unit Coordinates (3fds.pdb1.gz) 145 Kb
  • LPC: Ligand-Protein Contacts for 3FDS
  • CSU: Contacts of Structural Units for 3FDS
  • Likely Quarternary Molecular Structure file(s) for 3FDS
  • Structure Factors (1043 Kb)
  • Retrieve 3FDS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3FDS from S2C, [Save to disk]
  • Re-refined 3fds structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3FDS 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 3FDS
  • 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
  • 3D motif for 3FDS, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3fds_C] [3fds] [3fds_A] [3fds_D]
  • SWISS-PROT database: [Q97W02] [P57766] [Q97Z84]
  • Domain organization of [DPO42_SULSO] [PCNA2_SULSO] [PCNA3_SULSO] by SWISSPFAM
  • Other resources with information on 3FDS
  • Community annotation for 3FDS 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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