1PFI Virus date Apr 06, 1994
title Pf1 Virus Structure: Helical Coat Protein And Dna With Parax Phosphates
authors D.J.Liu, L.A.Day
compound source
Molecule: Major Coat Protein Of Pf1 Virus
Chain: A, B
Engineered: Yes
Organism_scientific: Pseudomonas Phage Pf1
Organism_taxid: 10871
Strain: G8p

Molecule: 2'-Deoxycytidine-5'-Monophosphate
Chain: C, D
Engineered: Yes

Organism_scientific: Pseudomonas Phage Pf1
Organism_taxid: 10871
Strain: G8p
symmetry Space Group: P 1
R_factor
R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Fiber Diffractionresolution 3.00 Å
ligand DC enzyme
note 1PFI is a representative structure
related structures by homologous chain: 1PJF
Primary referencePf1 virus structure: helical coat protein and DNA with paraxial phosphates., Liu DJ, Day LA, Science 1994 Jul 29;265(5172):671-4. PMID:8036516
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (29 Kb) [Save to disk]
  • Biological Unit Coordinates (1pfi.pdb1.gz) 831 Kb
  • LPC: Ligand-Protein Contacts for 1PFI
  • CSU: Contacts of Structural Units for 1PFI
  • Likely Quarternary Molecular Structure file(s) for 1PFI
  • Retrieve 1PFI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PFI from S2C, [Save to disk]
  • View 1PFI 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 1PFI
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1PFI, from MSDmotif at EBI
  • Genome occurence of 1PFI's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pfia_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1pfi 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: [1pfi_D] [1pfi_B] [1pfi_C] [1pfi] [1pfi_A]
  • SWISS-PROT database: [P03621]
  • Domain organization of [CAPSD_BPPF1] by SWISSPFAM
  • Other resources with information on 1PFI
  • Community annotation for 1PFI 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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