2EF1 Hydrolase date Feb 20, 2007
title Crystal Structure Of The Extracellular Domain Of Human Cd38
authors M.Kukimoto-Niino, O.Nureki, K.Murayama, M.Shirouzu, T.Katada, M.Hara-Yokoyama, S.Yokoyama, Riken Structural Genomicsproteomics Initiative (Rsgi)
compound source
Molecule: Adp-Ribosyl Cyclase 1
Chain: A, B
Fragment: Extracellular Domain
Synonym: Cyclic Adp-Ribose Hydrolase 1, Cadpr Hydrolase 1, Lymphocyte Differentiation Antigen Cd38, T10, Acute Lymphoblastic Leukemia Cells Antigen Cd38;
Ec: 3.2.2.5
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cd38
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Jm109(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmal-Cr1
symmetry Space Group: P 1 21 1
R_factor 0.203 R_Free 0.256
crystal
cell
length a length b length c angle alpha angle beta angle gamma
57.593 51.164 101.135 90.00 97.53 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand EPE enzyme Hydrolase E.C.3.2.2.5 BRENDA
note 2EF1 supersedes 2DF1
Gene
Ontology
ChainFunctionProcessComponent
A, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (90 Kb) [Save to disk]
  • Biological Unit Coordinates (2ef1.pdb1.gz) 45 Kb
  • Biological Unit Coordinates (2ef1.pdb2.gz) 43 Kb
  • LPC: Ligand-Protein Contacts for 2EF1
  • CSU: Contacts of Structural Units for 2EF1
  • Likely Quarternary Molecular Structure file(s) for 2EF1
  • Structure Factors (177 Kb)
  • Retrieve 2EF1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2EF1 from S2C, [Save to disk]
  • Re-refined 2ef1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2EF1 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 2EF1
  • 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 2EF1, from MSDmotif at EBI
  • Fold representative 2ef1 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ef1] [2ef1_B] [2ef1_A]
  • SWISS-PROT database: [P28907]
  • Domain organization of [CD38_HUMAN] by SWISSPFAM
  • Other resources with information on 2EF1
  • Community annotation for 2EF1 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science