1PT3 Hydrolase Dna date Jun 22, 2003
title Crystal Structures Of Nuclease-Cole7 Complexed With Octamer
authors K.C.Hsia, K.F.Chak, Y.S.Cheng, W.Y.Ku, H.S.Yuan
compound source
Molecule: 5'-Gcgatcgc-3'
Chain: C, D, G, H, E, F
Engineered: Yes
Synthetic: Yes
Other_details: This Sequence Occurs Naturally In E. Coli.

Molecule: Colicin E7
Chain: A, B
Fragment: Residues 449-576
Ec: 3.1.-.-
Engineered: Yes

Organism_scientific: Escherichia Coli Str. K12 Substr.
Organism_taxid: 316407
Strain: W3110
Gene: Cole7
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: M15
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pqe70
symmetry Space Group: P 1 21 1
R_factor 0.216 R_Free 0.289
crystal
cell
length a length b length c angle alpha angle beta angle gamma
59.430 46.470 78.450 90.00 90.39 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand
enzyme Hydrolase E.C.3.1 BRENDA
related structures by homologous chain: 1V14, 1V15
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceDNA binding and degradation by the HNH protein ColE7., Hsia KC, Chak KF, Liang PH, Cheng YS, Ku WY, Yuan HS, Structure (Camb) 2004 Feb;12(2):205-14. PMID:14962381
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (69 Kb) [Save to disk]
  • Biological Unit Coordinates (1pt3.pdb1.gz) 65 Kb
  • CSU: Contacts of Structural Units for 1PT3
  • Likely Quarternary Molecular Structure file(s) for 1PT3
  • Structure Factors (169 Kb)
  • Retrieve 1PT3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PT3 from S2C, [Save to disk]
  • Re-refined 1pt3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1PT3 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 1PT3
  • 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 1PT3, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pt3a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1pt3b_, region B [Jmol] [rasmolscript] [script source]
  • 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: [1pt3_A] [1pt3_G] [1pt3_E] [1pt3_H] [1pt3_B] [1pt3_D] [1pt3_F] [1pt3_C] [1pt3]
  • SWISS-PROT database: [Q47112]
  • Domain organization of [CEA7_ECOLX] by SWISSPFAM
  • Domain found in 1PT3: [HNHc ] by SMART
  • Other resources with information on 1PT3
  • Community annotation for 1PT3 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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