6YC5 Plant Protein date Mar 18, 2020
title Rt Structure Of Thaumatin Obtained At 1.35 A Resolution From Grown In A Kapton 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 0.127 R_Free 0.148
crystal
cell
length a length b length c angle alpha angle beta angle gamma
58.390 58.390 151.447 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.35 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] (85 Kb) [Save to disk]
  • Biological Unit Coordinates (6yc5.pdb1.gz) 81 Kb
  • LPC: Ligand-Protein Contacts for 6YC5
  • CSU: Contacts of Structural Units for 6YC5
  • Structure Factors (2032 Kb)
  • Retrieve 6YC5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6YC5 from S2C, [Save to disk]
  • View 6YC5 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 6YC5
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6yc5 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6yc5_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6YC5
  • Community annotation for 6YC5 at PDBWiki (http://pdbwiki.org)

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