2IC8 Membrane Protein date Sep 12, 2006
title Crystal Structure Of Glpg
authors Y.Ha
compound source
Molecule: Protein Glpg
Chain: A
Fragment: Residues 92-272
Engineered: Yes
 Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Glpg, B3424
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet41b(+)
symmetry Space Group: H 3 2
R_factor 0.236 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
110.822 110.822 127.611 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.10 Å
ligand BNG enzyme
note 2IC8 (Molecule of the Month:pdb140)
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal structure of a rhomboid family intramembrane protease., Wang Y, Zhang Y, Ha Y, Nature. 2006 Nov 9;444(7116):179-80. Epub 2006 Oct 11. PMID:17051161
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (38 Kb) [Save to disk]
  • Biological Unit Coordinates (2ic8.pdb1.gz) 33 Kb
  • LPC: Ligand-Protein Contacts for 2IC8
  • CSU: Contacts of Structural Units for 2IC8
  • Likely Quarternary Molecular Structure file(s) for 2IC8
  • Structure Factors (243 Kb)
  • Retrieve 2IC8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2IC8 from S2C, [Save to disk]
  • Re-refined 2ic8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2IC8 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 2IC8
  • 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
  • 3D motif for 2IC8, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ic8_A] [2ic8]
  • SWISS-PROT database: [P09391]
  • Belongs to the rhomboid protease (rhomboid) family according to TCDB.
  • Domain organization of [GLPG_ECOLI] by SWISSPFAM
    • Other resources with information on 2IC8
  • Community annotation for 2IC8 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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