3N56 Hydrolase Hormone date May 24, 2010
title Crystal Structure Of Human Insulin-Degrading Enzyme (Ide) In With Human B-Type Natriuretic Peptide (Bnp)
authors T.Funke, Q.Guo, W.J.Tang
compound source
Molecule: Insulin-Degrading Enzyme
Chain: A, B
Fragment: Unp Residues 42-1019
Synonym: Insulin Protease, Insulinase, Insulysin, Abeta-Deg Protease;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hcg_1810909, Ide, Rp11-366i13.1-001
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Rosetta(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pproex-H6

Molecule: Natriuretic Peptides B
Chain: C, D
Fragment: Unp Residues 103-134
Synonym: Gamma-Brain Natriuretic Peptide
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nppb
symmetry Space Group: P 65
R_factor 0.202 R_Free 0.243
length a length b length c angle alpha angle beta angle gamma
264.036 264.036 90.645 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.10 Å
ligand DIO, ZN enzyme Hydrolase E.C. BRENDA
Gene HCG
A, B
  • virus receptor activity

  • D, C

    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (318 Kb) [Save to disk]
  • Biological Unit Coordinates (3n56.pdb1.gz) 158 Kb
  • Biological Unit Coordinates (3n56.pdb2.gz) 159 Kb
  • LPC: Ligand-Protein Contacts for 3N56
  • CSU: Contacts of Structural Units for 3N56
  • Structure Factors (1811 Kb)
  • Retrieve 3N56 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3N56 from S2C, [Save to disk]
  • Re-refined 3n56 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3N56 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 3N56
  • 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 3N56, from MSDmotif at EBI
  • Fold representative 3n56 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3n56_B] [3n56] [3n56_C] [3n56_D] [3n56_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3N56: [NAT_PEP ] by SMART
  • Other resources with information on 3N56
  • Community annotation for 3N56 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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