2C5R Dna-Binding Protein Dna date Oct 31, 2005
title The Structure Of Phage Phi29 Replication Organizer Protein P16.7 In Complex With Double Stranded Dna
authors A.Albert, M.Jimenez, D.Munoz-Espin, J.L.Asensio, J.A.Hermoso, M.S W.J.J.Meijer
compound source
Molecule: Early Protein P16.7
Chain: A, B, C, D, E, F
Fragment: Residues 64-130
Engineered: Yes
Other_details: Dsdna And Ssdna Binding Protein
Organism_scientific: Bacillus Phage Phi29
Organism_taxid: 10756
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: 5'-D(Tpcpcpapcpcpgpgp)-3'
Chain: Y

Synthetic: Yes

Molecule: 5'-D(Cpcpgpgptpgpgpap)-3'
Chain: Z

Synthetic: Yes
symmetry Space Group: P 21 21 21
R_factor 0.251 R_Free 0.292
crystal
cell
length a length b length c angle alpha angle beta angle gamma
65.505 72.111 127.360 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.9 Å
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceStructural basis for membrane anchorage of viral phi29 DNA during replication., Albert A, Munoz-Espin D, Jimenez M, Asensio JL, Hermoso JA, Salas M, Meijer WJ, J Biol Chem. 2005 Dec 30;280(52):42486-8. Epub 2005 Nov 7. PMID:16275651
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (76 Kb) [Save to disk]
  • Biological Unit Coordinates (2c5r.pdb1.gz) 70 Kb
  • CSU: Contacts of Structural Units for 2C5R
  • Likely Quarternary Molecular Structure file(s) for 2C5R
  • Structure Factors (93 Kb)
  • Retrieve 2C5R in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2C5R from S2C, [Save to disk]
  • Re-refined 2c5r structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2C5R 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 2C5R
  • 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 2C5R, from MSDmotif at EBI
  • Fold representative 2c5r from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2c5r_B] [2c5r_Z] [2c5r_C] [2c5r] [2c5r_D] [2c5r_F] [2c5r_A] [2c5r_E] [2c5r_Y]
  • SWISS-PROT database: [P16517]
  • Domain organization of [VG167_BPPH2] by SWISSPFAM
  • Other resources with information on 2C5R
  • Community annotation for 2C5R 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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