6EEM Lyase date Aug 14, 2018
title Crystal Structure Of Papaver Somniferum Tyrosine Decarboxyla Complex With L-Tyrosine
authors M.P.Torrens-Spence, Y.Chiang, T.Smith, M.A.Vicent, Y.Wang, J.K.We
compound source
Molecule: Tyrosinedopa Decarboxylase
Chain: A
Ec: 4.1.1.28
Engineered: Yes
Organism_scientific: Papaver Somniferum
Organism_common: Opium Poppy
Organism_taxid: 3469
Gene: Tydc9
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Tyrosinedopa Decarboxylase
Chain: B
Ec: 4.1.1.28
Engineered: Yes

Organism_scientific: Papaver Somniferum
Organism_common: Opium Poppy
Organism_taxid: 3469
Gene: Tydc9
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 41 21 2
R_factor 0.187 R_Free 0.235
crystal
cell
length a length b length c angle alpha angle beta angle gamma
122.771 122.771 166.998 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.61 Å
ligand 0PR, LLP, SO4, TYR enzyme Lyase E.C.4.1.1.28 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructural basis for divergent and convergent evolution of catalytic machineries in plant aromatic amino acid decarboxylase proteins., Torrens-Spence MP, Chiang YC, Smith T, Vicent MA, Wang Y, Weng JK, Proc Natl Acad Sci U S A. 2020 May 5. pii: 1920097117. doi:, 10.1073/pnas.1920097117. PMID:32371491
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (323 Kb) [Save to disk]
  • Biological Unit Coordinates (6eem.pdb1.gz) 317 Kb
  • LPC: Ligand-Protein Contacts for 6EEM
  • CSU: Contacts of Structural Units for 6EEM
  • Structure Factors (1838 Kb)
  • Retrieve 6EEM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6EEM from S2C, [Save to disk]
  • View 6EEM 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 6EEM
  • 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: [6eem_B] [6eem_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6EEM
  • Community annotation for 6EEM at PDBWiki (http://pdbwiki.org)

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