3NDY Hydrolase date Jun 08, 2010
title The Structure Of The Catalytic And Carbohydrate Binding Doma Endoglucanase D From Clostridium Cellulovorans
authors C.M.Bianchetti, R.W.Smith, C.A.Bingman, G.N.Phillips Jr.
compound source
Molecule: Endoglucanase D
Chain: A, B, C, D
Fragment: Unp Residues 32-376
Synonym: Endo-1,4-Beta-Glucanase D, Cellulase D
Ec: 3.2.1.4
Engineered: Yes
Organism_scientific: Clostridium Cellulovorans
Organism_taxid: 1493
Gene: Engd
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Top10
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pbadthio-Topo

Molecule: Endoglucanase D
Chain: E, F, G, H
Fragment: Unp Residues 409-515
Synonym: Endo-1,4-Beta-Glucanase D, Cellulase D
Ec: 3.2.1.4
Engineered: Yes

Organism_scientific: Clostridium Cellulovorans
Organism_taxid: 1493
Gene: Engd
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Top10
symmetry Space Group: P 21 21 21
R_factor 0.147 R_Free 0.195
crystal
cell
length a length b length c angle alpha angle beta angle gamma
85.297 119.050 198.487 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand BTB enzyme Hydrolase E.C.3.2.1.4 BRENDA
note 3NDY supersedes 3ICG
Gene
Ontology
ChainFunctionProcessComponent
A, B, C, D


F, E, H, G


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (319 Kb) [Save to disk]
  • Biological Unit Coordinates (3ndy.pdb1.gz) 314 Kb
  • LPC: Ligand-Protein Contacts for 3NDY
  • CSU: Contacts of Structural Units for 3NDY
  • Structure Factors (1438 Kb)
  • Retrieve 3NDY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3NDY from S2C, [Save to disk]
  • Re-refined 3ndy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3NDY 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 3NDY
  • 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 3NDY, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ndy_G] [3ndy_C] [3ndy_A] [3ndy_D] [3ndy_E] [3ndy] [3ndy_F] [3ndy_B] [3ndy_H]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3NDY: [CBD_II ] by SMART
  • Other resources with information on 3NDY
  • Community annotation for 3NDY 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