3MTN Hydrolase date Apr 30, 2010
title Usp21 In Complex With A Ubiquitin-Based, Usp21-Specific Inhi
authors J.R.Walker, G.V.Avvakumov, S.Xue, Y.Li, A.Ernst, S.Sidhu, J.Weigel C.Bountra, A.M.Edwards, C.H.Arrowsmith, A.Bochkarev, S.Dhe-Paga Structural Genomics Consortium (Sgc)
compound source
Molecule: Ubiquitin Carboxyl-Terminal Hydrolase 21
Chain: A, C
Fragment: Catalytic Domain: Unp Residues 209-562
Synonym: Ubiquitin Thioesterase 21, Ubiquitin-Specific-Proc Protease 21, Deubiquitinating Enzyme 21;
Ec: 3.1.2.15
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pp1490, Usp21, Usp23
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28alic

Molecule: Ubiquitin Variant Ubv.21.4
Chain: B, D
Synonym: Uba80, Ubcep1
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Rps27a, Uba52, Uba80, Ubb, Ubc, Ubcep1, Ubcep2, Ubq
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28alic
symmetry Space Group: C 1 2 1
R_factor 0.218 R_Free 0.273
crystal
cell
length a length b length c angle alpha angle beta angle gamma
169.065 58.235 133.596 90.00 121.19 90.00
method X-Ray Diffractionresolution 2.70 Å
ligand CL, GOL, ZN enzyme Hydrolase E.C.3.1.2.15 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C


Primary referenceA strategy for modulation of enzymes in the ubiquitin system., Ernst A, Avvakumov G, Tong J, Fan Y, Zhao Y, Alberts P, Persaud A, Walker JR, Neculai AM, Neculai D, Vorobyov A, Garg P, Beatty L, Chan PK, Juang YC, Landry MC, Yeh C, Zeqiraj E, Karamboulas K, Allali-Hassani A, Vedadi M, Tyers M, Moffat J, Sicheri F, Pelletier L, Durocher D, Raught B, Rotin D, Yang J, Moran MF, Dhe-Paganon S, Sidhu SS, Science. 2013 Feb 1;339(6119):590-5. doi: 10.1126/science.1230161. Epub 2013 Jan , 3. PMID:23287719
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (274 Kb) [Save to disk]
  • Biological Unit Coordinates (3mtn.pdb1.gz) 135 Kb
  • Biological Unit Coordinates (3mtn.pdb2.gz) 136 Kb
  • LPC: Ligand-Protein Contacts for 3MTN
  • CSU: Contacts of Structural Units for 3MTN
  • Structure Factors (432 Kb)
  • Retrieve 3MTN in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3MTN from S2C, [Save to disk]
  • Re-refined 3mtn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3MTN 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 3MTN
  • 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 3MTN, from MSDmotif at EBI
  • Fold representative 3mtn from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3mtn_D] [3mtn_C] [3mtn_B] [3mtn] [3mtn_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3MTN: [UBQ ] by SMART
  • Other resources with information on 3MTN
  • Community annotation for 3MTN 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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