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
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
enzyme Hydrolase E.C.3.4.22 BRENDA

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]
  • Belongs to the autophagy-related phagophore-formation transporter (apt) family according to TCDB.
  • 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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