3BXB Fluorescent Protein date Jan 12, 2008
title Monomeric Far-Red Fluorescent Protein Mkate Crystallized At
authors S.Pletnev, N.Pletneva, V.Pletnev
compound source
Molecule: Far-Red Fluorescent Protein Mkate
Chain: A, B, C, D, E, F, G, H
Engineered: Yes
Organism_scientific: Entacmaea Quadricolor
Organism_taxid: 6118
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Xl1 Blue
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pqe30
symmetry Space Group: P 1 21 1
R_factor 0.170 R_Free 0.263
crystal
cell
length a length b length c angle alpha angle beta angle gamma
74.176 104.967 123.028 90.00 105.81 90.00
method X-Ray Diffractionresolution 2.60 Å
ligand NRQ enzyme
Gene
Ontology
ChainFunctionProcessComponent
F, A, E, B, H, C, D, G


Primary referenceA Crystallographic Study of Bright Far-Red Fluorescent Protein mKate Reveals pH-induced cis-trans Isomerization of the Chromophore., Pletnev S, Shcherbo D, Chudakov DM, Pletneva N, Merzlyak EM, Wlodawer A, Dauter Z, Pletnev V, J Biol Chem. 2008 Oct 24;283(43):28980-7. Epub 2008 Aug 4. PMID:18682399
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (303 Kb) [Save to disk]
  • Biological Unit Coordinates (3bxb.pdb1.gz) 41 Kb
  • Biological Unit Coordinates (3bxb.pdb2.gz) 41 Kb
  • Biological Unit Coordinates (3bxb.pdb3.gz) 41 Kb
  • Biological Unit Coordinates (3bxb.pdb4.gz) 42 Kb
  • Biological Unit Coordinates (3bxb.pdb5.gz) 41 Kb
  • Biological Unit Coordinates (3bxb.pdb6.gz) 41 Kb
  • Biological Unit Coordinates (3bxb.pdb7.gz) 41 Kb
  • Biological Unit Coordinates (3bxb.pdb8.gz) 41 Kb
  • LPC: Ligand-Protein Contacts for 3BXB
  • CSU: Contacts of Structural Units for 3BXB
  • Likely Quarternary Molecular Structure file(s) for 3BXB
  • Structure Factors (430 Kb)
  • Retrieve 3BXB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3BXB from S2C, [Save to disk]
  • Re-refined 3bxb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3BXB 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 3BXB
  • 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 3BXB, from MSDmotif at EBI
  • Fold representative 3bxb from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3bxb_D] [3bxb] [3bxb_E] [3bxb_A] [3bxb_C] [3bxb_B] [3bxb_H] [3bxb_F] [3bxb_G]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3BXB
  • Community annotation for 3BXB 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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