3E1U Hydrolase date Aug 04, 2008
title The Crystal Structure Of The Anti-Viral Apobec3g Catalytic Domain
authors L.Holden, C.Prochnow, Y.P.Chang, R.Bransteitter, L.Chelico, U.Sen, R.C.Stevens, R.F.Goodman, X.S.Chen
compound source
Molecule: Dna Dc->Du-Editing Enzyme Apobec-3g
Chain: A
Fragment: Apobec3g Catalytic Domain (Unp Residues 197-380)
Synonym: Apobec-Related Cytidine Deaminase, Arcd, Apobec- Related Protein, Arp-9, Cem-15, Cem15;
Ec: 3.5.4.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Apobec3g, Mds019
Expression_system: Escherichia Coli
Expression_system_strain: Xa-90
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex6p-1
symmetry Space Group: C 1 2 1
R_factor 0.251 R_Free 0.267
length a length b length c angle alpha angle beta angle gamma
83.464 57.329 40.578 90.00 96.46 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand ZN enzyme Hydrolase E.C.3.5.4 BRENDA

Primary referenceCrystal structure of the anti-viral APOBEC3G catalytic domain and functional implications., Holden LG, Prochnow C, Chang YP, Bransteitter R, Chelico L, Sen U, Stevens RC, Goodman MF, Chen XS, Nature. 2008 Nov 6;456(7218):121-4. Epub 2008 Oct 12. PMID:18849968
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (35 Kb) [Save to disk]
  • Biological Unit Coordinates (3e1u.pdb1.gz) 32 Kb
  • LPC: Ligand-Protein Contacts for 3E1U
  • CSU: Contacts of Structural Units for 3E1U
  • Likely Quarternary Molecular Structure file(s) for 3E1U
  • Structure Factors (135 Kb)
  • Retrieve 3E1U in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3E1U from S2C, [Save to disk]
  • Re-refined 3e1u structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3E1U 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 3E1U
  • 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 3E1U, from MSDmotif at EBI
  • Fold representative 3e1u from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3e1u] [3e1u_A]
  • SWISS-PROT database: [Q9HC16]
  • Domain organization of [ABC3G_HUMAN] by SWISSPFAM
  • Other resources with information on 3E1U
  • Community annotation for 3E1U 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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