1VDL Structural Genomics, Unknown Function date Mar 23, 2004
title Solution Structure Of Rsgi Ruh-013, A Uba Domain In Mouse Cd
authors Y.Doi-Katayama, H.Hirota, K.Saito, S.Koshiba, T.Kigawa, S.Yokoyam Structural Genomicsproteomics Initiative (Rsgi)
compound source
Molecule: Ubiquitin Carboxyl-Terminal Hydrolase 25
Chain: A
Fragment: Uba Domain
Synonym: Rsgi Ruh-013, Ubiquitin Thiolesterase 25, Ubiquiti Processing Protease 25, Deubiquitinating Enzyme 25, Musp25;
Ec: 3.1.2.15
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Gene: Riken Cdna 2610101o11
Expression_system_vector_type: Plasmid
Expression_system_plasmid: P030324-44
Other_details: Cell-Free Protein Synthesis (E.Coli)
methodSolution NMR
ligand
enzyme Hydrolase E.C.3.1.2.15 BRENDA
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (380 Kb) [Save to disk]
  • Biological Unit Coordinates (1vdl.pdb1.gz) 19 Kb
  • CSU: Contacts of Structural Units for 1VDL
  • Original NMR restraints for 1VDL from PDB
  • Retrieve 1VDL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1VDL from S2C, [Save to disk]
  • View 1VDL 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 1VDL
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1VDL, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1vdla_, region A [Jmol] [rasmolscript] [script source]
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1vdl_A] [1vdl]
  • SWISS-PROT database: [P57080]
  • Domain organization of [UBP25_MOUSE] by SWISSPFAM
  • Other resources with information on 1VDL
  • Community annotation for 1VDL at PDBWiki (http://pdbwiki.org)
  • NMR Ensemble (OLDERADO: core, domain and representative structure database)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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