1M08 Crystal structure of the unbound nuclease domain of ColE7 date
authors Cheng, Y.S., Hsia, K.C., Doudeva, L.G., Chak, K.F., Yuan, H.S.
compound source
symmetry
R_factor
R_Free 0.24
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.10
ligand PO4, ZN enzyme
related structures by homologous chain: 1BXI, 1UJZ
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceThe crystal structure of the nuclease domain of colicin E7 suggests a mechanism for binding to double-stranded DNA by the H-N-H endonucleases., Cheng YS, Hsia KC, Doudeva LG, Chak KF, Yuan HS, J Mol Biol 2002 Nov 22;324(2):227-36. PMID:12441102
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (51 Kb) [Save to disk]
  • Biological Unit Coordinates (1m08.pdb1.gz) 47 Kb
  • LPC: Ligand-Protein Contacts for 1M08
  • CSU: Contacts of Structural Units for 1M08
  • Likely Quarternary Molecular Structure file(s) for 1M08
  • Retrieve 1M08 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1M08 from S2C, [Save to disk]
  • View 1M08 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 1M08
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1M08, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1m08a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1m08b_, 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: [1m08_B] [1m08] [1m08_A]
  • SWISS-PROT database: [Q47112]
  • Domain organization of [CEA7_ECOLX] by SWISSPFAM
  • Domain found in 1M08: [HNHc ] by SMART
  • Other resources with information on 1M08
  • Community annotation for 1M08 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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