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TitleVisualization of covalent intermediates and conformational states of proline utilization A by X-ray crystallography and molecular dynamics simulations.
Journal, issue, pagesJ. Biol. Chem., Vol. 301, Page 110532-110532, Year 2025
Publish dateApr 6, 2024 (structure data deposition date)
AuthorsBuckley, D.P. / Becker, D.F. / Tanner, J.J.
External linksJ. Biol. Chem. / PubMed:40738191
MethodsX-ray diffraction
Resolution1.47 - 1.88 Å
Structure data

PDB-9bbo:
Proline utilization A complexed with the product L-glutamate in the aldehyde dehydrogenase active site
Method: X-RAY DIFFRACTION / Resolution: 1.5 Å

PDB-9c34:
Proline utilization A with the FADH- N5 atom covalently modified by proline
Method: X-RAY DIFFRACTION / Resolution: 1.88 Å

PDB-9c35:
Proline utilization A with the covalent acyl-enzyme intermediate in the aldehyde dehydrogenase active site
Method: X-RAY DIFFRACTION / Resolution: 1.74 Å

PDB-9c36:
Proline utilization A complexed with the substrate L-glutamate gamma-semialdehyde in the aldehyde dehydrogenase active site
Method: X-RAY DIFFRACTION / Resolution: 1.47 Å

Chemicals

ChemComp-GGL:
GAMMA-L-GLUTAMIC ACID

ChemComp-SO4:
SULFATE ION

ChemComp-PGE:
TRIETHYLENE GLYCOL

ChemComp-FAD:
FLAVIN-ADENINE DINUCLEOTIDE / FAD*YM

ChemComp-PEG:
DI(HYDROXYETHYL)ETHER

ChemComp-HOH:
WATER

ChemComp-NAD:
NICOTINAMIDE-ADENINE-DINUCLEOTIDE / NAD*YM

ChemComp-FDA:
DIHYDROFLAVINE-ADENINE DINUCLEOTIDE


PDB Unreleased entry

PDB-1cab: Unknown entry

ChemComp-PRO:
PROLINE

ChemComp-MG:
Unknown entry

PDB-1at4:
INTRAMOLECULAR DNA TRIPLEX CONTAINING A NON-NUCLEOTIDE LINKER (GAGAGA-X-TCTCCT-X-CTCTCT), NMR, 7 STRUCTURES

PDB-1aug:
CRYSTAL STRUCTURE OF THE PYROGLUTAMYL PEPTIDASE I FROM BACILLUS AMYLOLIQUEFACIENS

ChemComp-FMT:
FORMIC ACID

Source
  • sinorhizobium meliloti (bacteria)
  • sinorhizobium meliloti sm11 (bacteria)
KeywordsOXIDOREDUCTASE / FLAVOENZYME / ROSSMANN FOLD / PROLINE DEHYDROGNEASE / ALDEHYDE DEHYDROGENASE / PROLINE CATABOLISM / SUBSTRATE CHANNELING / BIFUNCTIONAL ENZYME

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