2CY7 Hydrolase date Jul 05, 2005
title The Crystal Structure Of Human Atg4b
authors K.Sugawara, N.N.Suzuki, Y.Fujioka, N.Mizushima, Y.Ohsumi, F.Inagaki
compound source
Molecule: Cysteine Protease Apg4b
Chain: A
Synonym: Atg4b, Autophagy 4 Homolog B, Hapg4b, Autophagin- 1, Autophagy-Related Cysteine Endopeptidase 1, Aut-Like 1 Cysteine Endopeptidase;
Ec: 3.4.22.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 2 2 21
R_factor 0.215 R_Free 0.247
crystal
cell
length a length b length c angle alpha angle beta angle gamma
51.913 88.339 160.139 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand
enzyme Hydrolase E.C.3.4.22 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural Basis for the Specificity and Catalysis of Human Atg4B Responsible for Mammalian Autophagy., Sugawara K, Suzuki NN, Fujioka Y, Mizushima N, Ohsumi Y, Inagaki F, J Biol Chem 2005 Dec 2;280(48):40058-65. Epub 2005 Sep 23. PMID:16183633
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (61 Kb) [Save to disk]
  • Biological Unit Coordinates (2cy7.pdb1.gz) 57 Kb
  • CSU: Contacts of Structural Units for 2CY7
  • Likely Quarternary Molecular Structure file(s) for 2CY7
  • Structure Factors (213 Kb)
  • Retrieve 2CY7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2CY7 from S2C, [Save to disk]
  • Re-refined 2cy7 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2CY7 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 2CY7
  • 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 2CY7, from MSDmotif at EBI
  • Fold representative 2cy7 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2cy7] [2cy7_A]
  • SWISS-PROT database: [Q9Y4P1]
  • Domain organization of [ATG4B_HUMAN] by SWISSPFAM
  • Other resources with information on 2CY7
  • Community annotation for 2CY7 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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