3NHE Hydrolase Protein Binding date Jun 14, 2010
title High Resolution Structure (1.26a) Of Usp2a In Complex With U
authors N.Schormann, L.J.Delucas, D.Powell Mccombs
compound source
Molecule: Ubiquitin Carboxyl-Terminal Hydrolase 2
Chain: A
Fragment: Unp Residues 258-605
Synonym: Ubiquitin Thioesterase 2, Ubiquitin-Specific-Proce Protease 2, Deubiquitinating Enzyme 2, 41 Kda Ubiquitin-Spe Protease;
Ec: 3.1.2.15
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ubp41, Usp2
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet24a

Molecule: Ubiquitin
Chain: B
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Rps27a, Uba52, Ubb, Ubc
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ptby2
symmetry Space Group: C 1 2 1
R_factor 0.169 R_Free 0.189
crystal
cell
length a length b length c angle alpha angle beta angle gamma
102.771 53.961 74.719 90.00 107.71 90.00
method X-Ray Diffractionresolution 1.26 Å
ligand CME, ZN enzyme Hydrolase E.C.3.1.2.15 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (163 Kb) [Save to disk]
  • Biological Unit Coordinates (3nhe.pdb1.gz) 158 Kb
  • LPC: Ligand-Protein Contacts for 3NHE
  • CSU: Contacts of Structural Units for 3NHE
  • Structure Factors (1510 Kb)
  • Retrieve 3NHE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3NHE from S2C, [Save to disk]
  • Re-refined 3nhe structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3NHE 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 3NHE
  • 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 3NHE, from MSDmotif at EBI
  • Fold representative 3nhe from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3nhe_B] [3nhe] [3nhe_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3NHE: [UBQ ] by SMART
  • Other resources with information on 3NHE
  • Community annotation for 3NHE 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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