6YBX Plant Protein date Mar 18, 2020
title Rt Structure Of Thaumatin Obtained At 1.14 A Resolution From Grown In A Mylar Microchip.
authors J.A.Gavira, S.Martinez-Rodriguez
compound source
Molecule: Thaumatin-1
Chain: A
Synonym: Thaumatin I
 Organism_scientific: Thaumatococcus Daniellii
Organism_taxid: 4621
symmetry Space Group: P 41 21 2
R_factor 0.135 R_Free 0.157
crystal
cell
length a length b length c angle alpha angle beta angle gamma
58.570 58.570 151.520 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.14 Å
ligand NA, TLA enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceAttaining atomic resolution from in situ data collection at room temperature using counter-diffusion-based low-cost microchips., Gavira JA, Rodriguez-Ruiz I, Martinez-Rodriguez S, Basu S, Teychene S, McCarthy AA, Mueller-Dieckman C, Acta Crystallogr D Struct Biol. 2020 Aug 1;76(Pt 8):751-758. doi:, 10.1107/S2059798320008475. Epub 2020 Jul 27. PMID:32744257
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (84 Kb) [Save to disk]
  • Biological Unit Coordinates (6ybx.pdb1.gz) 79 Kb
  • LPC: Ligand-Protein Contacts for 6YBX
  • CSU: Contacts of Structural Units for 6YBX
  • Structure Factors (2407 Kb)
  • Retrieve 6YBX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6YBX from S2C, [Save to disk]
    • View 6YBX 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 6YBX
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6ybx_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6YBX
  • Community annotation for 6YBX at PDBWiki (http://pdbwiki.org)

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