Structure of PDB 7my9 Chain B

Receptor sequence

>7my9B (length=1216) Species: 707241 (Sinorhizobium meliloti SM11)

APAPFADFAPPVRPQSTLRRAITAAYRRPETECLPPLVEAATQSKEIRDA
AASTARKLIEALRGKHSGSGVEGLVQEYSLSSQEGVALMCLAEALLRIPD
TATRDALIRDKIADGNWKSHRSLFVNAATWGLVVTGKLTSTVNDRSLAAA
LTRLISRCGEPVIRRGVDMAMRMMGEQFVTGETIREALKRSKELEEKGFS
YSYDMLGEAATTAADAERYYRDYESAIHAIGKASAGRGIYEGPGISIKLS
ALHPRYSRAQAARVMGELLPRVKALALLAKNYDIGLNIDAEEADRLELSL
DLLEVLCLDGDLSGWNGMGFVVQAYGKRCPFVLDFIIDLARRSGRRIMVR
LVKGAYWDAEIKRAQLDGLADFPVFTRKIHTDVSYIACAAKLLAATDVVF
PQFATHNAQTLAAIYHMAGKDFHVGKYEFQCLHGMGEPLYEEVVGRGKLD
RPCRIYAPVGTHETLLAYLVRRLLENGANSSFVHRINDPKVSIDELIADP
VEVVRAMPVVGAKHDRIALPAELFGDARTNSAGLDLSNEETLASLTEALR
ESAAMKWTALPQLATGPAAGETRTVLNPGDHRDVVGSVTETSEEDARRAV
RLAADAAPDWAAVPPSERAACLDRAAELMQARMPTLLGLIIREAGKSALN
AIAEVREAIDFLRYYAEQTRRTLGPGHGPLGPIVCISPWNFPLAIFTGQI
AAALVAGNPVLAKPAEETPLIAAEGVRILREAGIPASALQLLPGDGRVGA
ALVAAAETAGVMFTGSTEVARLIQAQLADRLSPAGRPIPLIAETGGQNAM
IVDSSALAEQVVGDVITSAFDSAGQRCSALRVLCLQEDVADRILTMLKGA
LHELHIGRTDRLSVDVGPVITSEAKDNIEKHIERMRGLGRKVEQIGLASE
TGVGTFVPPTIIELEKLSDLQREVFGPVLHVIRYRRDDLDRLVDDVNATG
YGLTFGLHTRLDETIAHVTSRIKAGNLYINRNIIGAVVGVQPFGGRGLSG
TGPKAGGPLYLGRLVTTAPVPPQHSSVHTDPVLLDFAKWLDGKGARAEAE
AARNAGSSSALGLDLELPGPVGERNLYTLHARGRILLVPATESGLYHQLA
AALATGNSVAIDAASGLQASLKNLPQTVGLRVSWSKDWAADGPFAGALVE
GDAERIRAVNKAIAALPGPLLLVQAASSGEIARNPDAYCLNWLVEEVSAS
INTAAAGGNASLMAIG

3D structure

• PDB: 7my9 Photoinduced Covalent Irreversible Inactivation of Proline Dehydrogenase by S-Heterocycles.
• Chain: B
• Resolution: 1.628 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	UJD	B	K265 D306 Y473 Y485 R488 R489	K248 D289 Y456 Y468 R471 R472
BS02	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	D289 A290 V321 Q323 R350 V352 K353 G354 A355 Y356 W357 F375 T376 R377 K378 T381 A404 T405 H406 N407 C431 L432 E475 S481 F482
BS03	NAD	B	I703 S704 P705 W706 N707 I712 K730 A732 E733 G763 G766 A767 T781 G782 S783 V786 I790 E810 T811 C844 E940 F942 F1010	I686 S687 P688 W689 N690 I695 K713 A715 E716 G746 G749 A750 T764 G765 S766 V769 I773 E793 T794 C827 E923 F925 F993

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0003677 DNA binding
• GO:0003700 DNA-binding transcription factor activity
• GO:0003842 1-pyrroline-5-carboxylate dehydrogenase activity
• GO:0004657 proline dehydrogenase activity
• GO:0016491 oxidoreductase activity
• GO:0016620 oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor

Biological Process

• GO:0006355 regulation of DNA-templated transcription
• GO:0006560 proline metabolic process
• GO:0006561 proline biosynthetic process
• GO:0006562 proline catabolic process
• GO:0010133 proline catabolic process to glutamate

Cellular Component

• GO:0009898 cytoplasmic side of plasma membrane

External links

• PDB: RCSB:7my9, PDBe:7my9, PDBj:7my9
• PDBsum: 7my9
• PubMed: 34542291
• UniProt: F7X6I3