5D4P Signaling Protein date Aug 08, 2015
title Structure Of Cpii Bound To Adp And Bicarbonate, From Thiomon Intermedia K12
authors N.M.Wheatley, J.Ngo, D.Cascio, M.R.Sawaya, T.O.Yeates
compound source
Molecule: Putative Nitrogen Regulatory Protein P-II Glnb
Chain: A, B, C
Engineered: Yes
Organism_scientific: Thiomonas Arsenitoxydans (Strain Dsm 2 Cip 110005 3as);
Organism_taxid: 426114
Strain: Dsm 22701 Cip 110005 3as
Gene: Thi_0133
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28
symmetry Space Group: P 21 21 21
R_factor 0.191 R_Free 0.247
crystal
cell
length a length b length c angle alpha angle beta angle gamma
49.810 76.160 87.920 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand ADP, BCT enzyme
Gene THI
Gene
Ontology
ChainFunctionProcessComponent
A, C, B
  • enzyme regulator activity


  • Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (109 Kb) [Save to disk]
  • Biological Unit Coordinates (5d4p.pdb1.gz) 103 Kb
  • LPC: Ligand-Protein Contacts for 5D4P
  • CSU: Contacts of Structural Units for 5D4P
  • Structure Factors (273 Kb)
  • Retrieve 5D4P in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5D4P from S2C, [Save to disk]
  • Re-refined 5d4p structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5D4P 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 5D4P
  • 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
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5d4p_A] [5d4p_B] [5d4p] [5d4p_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5D4P
  • Community annotation for 5D4P at PDBWiki (http://pdbwiki.org)

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