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TitleLysine relay mechanism coordinates intermediate transfer in vitamin B6 biosynthesis.
Journal, issue, pagesNat. Chem. Biol., Vol. 13, Page 290-294, Year 2017
Publish dateAug 6, 2016 (structure data deposition date)
AuthorsRodrigues, M.J. / Windeisen, V. / Zhang, Y. / Guedez, G. / Weber, S. / Strohmeier, M. / Hanes, J.W. / Royant, A. / Evans, G. / Sinning, I. ...Rodrigues, M.J. / Windeisen, V. / Zhang, Y. / Guedez, G. / Weber, S. / Strohmeier, M. / Hanes, J.W. / Royant, A. / Evans, G. / Sinning, I. / Ealick, S.E. / Begley, T.P. / Tews, I.
External linksNat. Chem. Biol. / PubMed:28092359
MethodsX-ray diffraction
Resolution1.61 - 2.32 Å
Structure data

PDB-5lnr:
Crystal structure of Arabidopsis thaliana Pdx1-PLP complex
Method: X-RAY DIFFRACTION / Resolution: 1.61 Å

PDB-5lns:
Crystal structure of Arabidopsis thaliana Pdx1-R5P complex
Method: X-RAY DIFFRACTION / Resolution: 1.91 Å

PDB-5lnt:
Crystal structure of Arabidopsis thaliana Pdx1K166R-preI320 complex
Method: X-RAY DIFFRACTION / Resolution: 2.32 Å

PDB-5lnu:
Crystal structure of Arabidopsis thaliana Pdx1-I320 complex
Method: X-RAY DIFFRACTION / Resolution: 1.73 Å

PDB-5lnv:
Crystal structure of Arabidopsis thaliana Pdx1-I320 complex from multiple crystals
Method: X-RAY DIFFRACTION / Resolution: 2.24 Å

PDB-5lnw:
Crystal structure of Arabidopsis thaliana Pdx1-I320-G3P complex
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

Chemicals

ChemComp-PLP:
PYRIDOXAL-5'-PHOSPHATE

ChemComp-GOL:
GLYCEROL

ChemComp-HOH:
WATER

ChemComp-5RP:
RIBULOSE-5-PHOSPHATE

ChemComp-PO4:
PHOSPHATE ION

ChemComp-KPR:
[(~{E},4~{S})-4-azanyl-3-oxidanylidene-pent-1-enyl] dihydrogen phosphate

ChemComp-SO4:
SULFATE ION

ChemComp-KIK:
(4~{S})-4-azanyl-5-oxidanyl-pent-1-en-3-one

ChemComp-K8P:
[(2~{R},3~{R})-2,3-bis(oxidanyl)-3-[[(2~{S})-3-oxidanylidenepent-4-en-2-yl]amino]propyl] dihydrogen phosphate

ChemComp-RP5:
5-O-phosphono-beta-D-ribofuranose

ChemComp-HG3:
[(2~{R})-2,3,3-tris(oxidanyl)propyl] dihydrogen phosphate

Source
  • arabidopsis thaliana (thale cress)
KeywordsLYASE / beta/alpha barrel / pyridoxal phosphate synthase / glutamine amidotransferase / vitamin B6 biosythesis / vitamin B6 biosynthesis

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