3NGO Hydrolase Dna date Jun 12, 2010
title Crystal Structure Of The Human Cnot6l Nuclease Domain In Com Poly(A) Dna
authors H.Wang, M.Morita, W.Yang, M.Bartlam, T.Yamamoto, Z.Rao
compound source
Molecule: Ccr4-Not Transcription Complex Subunit 6-Like
Chain: A
Fragment: Nuclease Domain (Unp Residues 158-555)
Synonym: Cnot6l, Carbon Catabolite Repressor Protein 4 Homo
Ec: 3.1.-.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cnot6l, Ccr4b
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-6p-1

Molecule: 5'-D(Apapapa)-3'
Chain: B
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 32 2 1
R_factor 0.215 R_Free 0.263
crystal
cell
length a length b length c angle alpha angle beta angle gamma
77.373 77.373 167.177 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.20 Å
ligand MG enzyme Hydrolase E.C.3.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal structure of the human CNOT6L nuclease domain reveals strict poly(A) substrate specificity., Wang H, Morita M, Yang X, Suzuki T, Yang W, Wang J, Ito K, Wang Q, Zhao C, Bartlam M, Yamamoto T, Rao Z, EMBO J. 2010 Jul 13. PMID:20628353
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (63 Kb) [Save to disk]
  • Biological Unit Coordinates (3ngo.pdb1.gz) 58 Kb
  • LPC: Ligand-Protein Contacts for 3NGO
  • CSU: Contacts of Structural Units for 3NGO
  • Structure Factors (485 Kb)
  • Retrieve 3NGO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3NGO from S2C, [Save to disk]
  • Re-refined 3ngo structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3NGO 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 3NGO
  • 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 3NGO, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ngo_B] [3ngo] [3ngo_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3NGO
  • Community annotation for 3NGO at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science