2ONI Ligase date Jan 24, 2007
title Catalytic Domain Of The Human Nedd4-Like E3 Ligase
authors J.R.Walker, G.V.Avvakumov, S.Xue, C.Butler-Cole, J.Weigelt, M.Sun C.H.Arrowsmith, A.M.Edwards, A.Bochkarev, S.Dhe-Paganon, Struct Genomics Consortium (Sgc)
compound source
Molecule: E3 Ubiquitin-Protein Ligase Nedd4-Like Protein
Chain: A
Fragment: Hect Domain (Ubiquitin Transferase)
Synonym: Nedd4-2, Nedd4.2, Nedd4-Like Ubiquitin-Protein Lig Neural Precursor Cell Expressed, Developmentally Down-Re Like, Ubiquitin-Protein Ligase Nedd4-Like, Developmentally Regulated Gene 4-Like, Ubiquitin-Protein Ligase Rsp5;
Ec: 6.3.2.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nedd4l, Kiaa0439, Nedl3
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a-Lic-Tev
symmetry Space Group: P 63 2 2
R_factor 0.206 R_Free 0.259
length a length b length c angle alpha angle beta angle gamma
103.058 103.058 182.214 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.20 Å
ligand MSE, NA enzyme Ligase E.C.6.3.2 BRENDA

Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (146 Kb) [Save to disk]
  • Biological Unit Coordinates (2oni.pdb1.gz) 269 Kb
  • Biological Unit Coordinates (2oni.pdb2.gz) 803 Kb
  • Biological Unit Coordinates (2oni.pdb3.gz) 135 Kb
  • LPC: Ligand-Protein Contacts for 2ONI
  • CSU: Contacts of Structural Units for 2ONI
  • Likely Quarternary Molecular Structure file(s) for 2ONI
  • Structure Factors (463 Kb)
  • Retrieve 2ONI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2ONI from S2C, [Save to disk]
  • Re-refined 2oni structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2ONI 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 2ONI
  • 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 2ONI, from MSDmotif at EBI
  • Fold representative 2oni from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2oni] [2oni_A]
  • SWISS-PROT database: [Q96PU5]
  • Domain organization of [NED4L_HUMAN] by SWISSPFAM
  • Domain found in 2ONI: [HECTc ] by SMART
  • Other resources with information on 2ONI
  • Community annotation for 2ONI 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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