Structure of PDB 6vmf Chain D Binding Site BS01

Receptor Information

>6vmf Chain D (length=778) Species: 1365250 (Pseudoalteromonas luteoviolacea DSM 6061)

CQYKIYPPLGIARVGNGPAIKPLSLSTPEVPWAHLYDTNVQYLVTQQELE
QLLEEAFGGNVINEISQIKTKLDEKFKQEEIETITGLLGLSHLVPQQQLS
RSLDNLEDDIVQQIKGALLKVLSDHYLHAVKKQAQNFYIYKCDNPVEKLK
LTDGDKVTWRVEVANKKSFWYDYNNALDLSLHTQGSGNLSKNVSKHRLAP
AMTAKRRNPNVITNSLRKQLVISSQGSVSSDNNTQVPLRGKFPANERHNV
LQGSIECDNEGVLRFYAGNGISQALSPSSLNTDFADNSNWFDDICDGRVT
AVVELKNGDTFEIQDEQSSAWVATTPPDYAPQIEPIVTMYDMVSGAALKE
QDLDNLTTQFSDVFPILYRLYRMQWVNQADFTDNAVNTQIRELNSELGFA
QLLDNSASAKSLREGIFNQFRNPLFDQDIDVDNEWVSNSRIIPSKDETNI
AAKPATSSLKLPFYPNDGIDYPGSPVQWFAIPPFMYQHLQNWAAGDFSVT
QVEKESANTIEELGLFYSEQFKNSPNSALLCARGALDALYGGGFHPGVEL
TWPMRHNLIYSQNDYVSSVTPEINLLGLREFRLKQDLQGLNSPNMYQDFG
HVIAVDNVTASIDPNSDAAWLWRSTPGDLTKWMGIPWQSDAASCQAVYTP
EDFPIPSWWAANLPVHVLPLARYNKFKDSQSADLPEINGMTHSIAQGMSE
ETFEHLRLEQFSQRLDWLHTADLGFVGFHAEGGYTNGLIQMVSQWKNMAM
VMARPVENPGSSGIPNVVYVAYSQADKD

Ligand information

• Ligand ID: MG
• InChI: InChI=1S/Mg/q+2
• InChIKey: JLVVSXFLKOJNIY-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Mg+2]
  CACTVS 3.341: [Mg++]
• Formula: Mg
• Name: MAGNESIUM ION
• DrugBank: DB01378
• PDB chain: 6vmf Chain D Residue 901

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6vmf Roles of active-site residues in catalysis, substrate binding, cooperativity, and the reaction mechanism of the quinoprotein glycine oxidase.
• Resolution: 2.24 Å
• Binding residue (original residue number in PDB): D360 A362 I365 A699 N700
• Binding residue (residue number reindexed from 1): D328 A330 I333 A661 N662
• Annotation score: 4

Gene Ontology

Molecular Function

• GO:0046872 metal ion binding

External links

• PDB: RCSB:6vmf, PDBe:6vmf, PDBj:6vmf
• PDBsum: 6vmf
• PubMed: 32234764
• UniProt: A0A161XU12