Structure of PDB 8dkp Chain B

Receptor sequence

>8dkpB (length=388) Species: 707241 (Sinorhizobium meliloti SM11)

SRPQSTLRRAITAAYRRPETECLPPLVEAATQSKEIRDAAASTARKLIEA
LRGKHSMMGEQFVTGETIREALKRSKELEEKGFSYSYDMLGEAATTAADA
ERYYRDYESAIHAIGKASAGRGIYEGPGISIKLSALHPRYSRAQAARVMG
ELLPRVKALALLAKNYDIGLNIDAEEADRLELSLDLLEVLCLDGDLSGWN
GMGFVVQAYGKRCPFVLDFIIDLARRSGRRIMVRLVKGAYWDAEIKRAQL
DGLADFPVFTRKIHTDVSYIACAAKLLAATDVVFPQFATHNAQTLAAIYH
MAGKDFHVGKYEFQCLHGMGEPLYEEVVGRGKLDRPCRIYAPVGTHETLL
AYLVRRLLENGANSSFVHRINDPKVSIDELIADPVEVV

3D structure

• PDB: 8dkp Structure-based engineering of minimal proline dehydrogenase domains for inhibitor discovery.
• Chain: B
• Resolution: 1.23 Å

Enzymatic activity

• Enzyme Commision number: 1.2.1.88: L-glutamate gamma-semialdehyde dehydrogenase.
  1.5.5.2: proline dehydrogenase.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	FAD	B	D306 A307 V338 Q340 R367 V369 K370 G371 A372 Y373 W374 F392 T393 R394 K395 T398 A421 T422 H423 N424 C448 L449 E492 S498 F499	D173 A174 V205 Q207 R234 V236 K237 G238 A239 Y240 W241 F259 T260 R261 K262 T265 A288 T289 H290 N291 C315 L316 E359 S365 F366
BS02	TFB	B	K265 D306 Y473 R488 R489	K132 D173 Y340 R355 R356

Gene Ontology

Molecular Function

• GO:0003842 1-pyrroline-5-carboxylate dehydrogenase activity
• GO:0004657 proline dehydrogenase activity

Biological Process

• GO:0006562 proline catabolic process

External links

• PDB: RCSB:8dkp, PDBe:8dkp, PDBj:8dkp
• PDBsum: 8dkp
• PubMed: 36448708
• UniProt: F7X6I3