3EBC Hydrolase Dna date Aug 27, 2008
title Structure Of N141a Hincii With Cognate Dna
authors E.J.Little, A.C.Babic, N.C.Horton
compound source
Molecule: Type-2 Restriction Enzyme Hincii
Chain: A, B
Synonym: R.Hincii, Type II Restriction Enzyme Hincii, Endon Hincii;
Ec: 3.1.21.4
Engineered: Yes
Mutation: Yes
Organism_scientific: Haemophilus Influenzae
Organism_taxid: 727
Gene: Hinciir
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet Blue2

Molecule: 5'-D(Dgpdcpdcpdgpdgpdtpdcpdgpdapdcpdgp C)-3';
Chain: E
Engineered: Yes
Other_details: Hincii Cognate Cg

Synthetic: Yes

Molecule: 5'-D(Dgpdcpdcpdcpdgpdtpdcpdgpdapdcpdcp C)-3';
Chain: F
Engineered: Yes
Other_details: Hincii Cognate Cg

Synthetic: Yes
symmetry Space Group: P 1 21 1
R_factor 0.191 R_Free 0.279
crystal
cell
length a length b length c angle alpha angle beta angle gamma
46.551 91.571 70.594 90.00 107.46 90.00
method X-Ray Diffractionresolution 2.55 Å
ligand MN enzyme Hydrolase E.C.3.1.21.4 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • nuclease activity
  • endonuclease activity


  • Primary referenceEarly interrogation and recognition of DNA sequence by indirect readout., Little EJ, Babic AC, Horton NC, Structure. 2008 Dec 12;16(12):1828-37. PMID:19081059
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (101 Kb) [Save to disk]
  • Biological Unit Coordinates (3ebc.pdb1.gz) 93 Kb
  • LPC: Ligand-Protein Contacts for 3EBC
  • CSU: Contacts of Structural Units for 3EBC
  • Structure Factors (280 Kb)
  • Retrieve 3EBC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3EBC from S2C, [Save to disk]
  • Re-refined 3ebc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3EBC 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 3EBC
  • 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 3EBC, from MSDmotif at EBI
  • Fold representative 3ebc from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ebc] [3ebc_F] [3ebc_B] [3ebc_E] [3ebc_A]
  • SWISS-PROT database: [P44413]
  • Domain organization of [T2D2_HAEIN] by SWISSPFAM
  • Other resources with information on 3EBC
  • Community annotation for 3EBC 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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