3DQI Luminescent Protein date Jul 09, 2008
title Structure Of The Yellow Fluorescent Protein Citrine Frozen A Atmospheres Number 4: Structure 8 In A Series Of 26 High Pr Structures
authors B.Barstow, C.U.Kim
compound source
Molecule: Green Fluorescent Protein
Chain: A
Engineered: Yes
Mutation: Yes
Organism_scientific: Aequorea Victoria
Organism_common: Jellyfish
Organism_taxid: 6100
Gene: Gfp
Expression_system: Escherichia Coli
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28
symmetry Space Group: P 21 21 21
R_factor 0.209 R_Free 0.266
crystal
cell
length a length b length c angle alpha angle beta angle gamma
51.475 62.935 71.664 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.42 Å
ligand CR2 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceAlteration of citrine structure by hydrostatic pressure explains the accompanying spectral shift., Barstow B, Ando N, Kim CU, Gruner SM, Proc Natl Acad Sci U S A. 2008 Sep 9;105(36):13362-6. Epub 2008 Sep 3. PMID:18768811
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (48 Kb) [Save to disk]
  • Biological Unit Coordinates (3dqi.pdb1.gz) 42 Kb
  • LPC: Ligand-Protein Contacts for 3DQI
  • CSU: Contacts of Structural Units for 3DQI
  • Likely Quarternary Molecular Structure file(s) for 3DQI
  • Structure Factors (570 Kb)
  • Retrieve 3DQI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3DQI from S2C, [Save to disk]
  • Re-refined 3dqi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3DQI 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 3DQI
  • 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 3DQI, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3dqi_A] [3dqi]
  • SWISS-PROT database: [P42212]
  • Domain organization of [GFP_AEQVI] by SWISSPFAM
  • Other resources with information on 3DQI
  • Community annotation for 3DQI 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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