2G56 Hydrolase date Feb 22, 2006
title Crystal Structure Of Human Insulin-Degrading Enzyme In Complex With Insulin B Chain
authors Y.Shen, W.J.Tang
compound source
Molecule: Insulin-Degrading Enzyme
Chain: A, B
Synonym: Insulysin, Insulinase, Insulin Protease
Ec: 3.4.24.56
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ide
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pproex

Molecule: Insulin
Chain: C, D
Fragment: Insulin B Chain, Residues 25-54
Engineered: Yes

Synthetic: Yes
Other_details: This Sequence Occurs Naturally In Homo Sapiens (Humans)
symmetry Space Group: P 65
R_factor 0.205 R_Free 0.225
crystal
cell
length a length b length c angle alpha angle beta angle gamma
262.250 262.250 90.610 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.20 Å
ligand DIO enzyme Hydrolase E.C.3.4.24.56 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructures of human insulin-degrading enzyme reveal a new substrate recognition mechanism., Shen Y, Joachimiak A, Rosner MR, Tang WJ, Nature. 2006 Oct 19;443(7113):870-4. Epub 2006 Oct 11. PMID:17051221
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (346 Kb) [Save to disk]
  • Biological Unit Coordinates (2g56.pdb1.gz) 172 Kb
  • Biological Unit Coordinates (2g56.pdb2.gz) 173 Kb
  • LPC: Ligand-Protein Contacts for 2G56
  • CSU: Contacts of Structural Units for 2G56
  • Likely Quarternary Molecular Structure file(s) for 2G56
  • Structure Factors (2160 Kb)
  • Retrieve 2G56 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2G56 from S2C, [Save to disk]
  • Re-refined 2g56 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2G56 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 2G56
  • 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 2G56, from MSDmotif at EBI
  • Fold representative 2g56 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2g56] [2g56_B] [2g56_A] [2g56_C] [2g56_D]
  • SWISS-PROT database: [P14735] [P01308]
  • Domain organization of [IDE_HUMAN] [INS_HUMAN] by SWISSPFAM
  • Domain found in 2G56: [IlGF ] by SMART
  • Alignments of the sequence of 2G56 with the sequences similar proteins can be viewed for 2G56's classification [IDE_HUMAN] [INS_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [IDE_HUMAN] [INS_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2G56
  • Community annotation for 2G56 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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