Structure of PDB 6c33 Chain A Binding Site BS01

Receptor Information

>6c33 Chain A (length=317) Species: 246196 (Mycolicibacterium smegmatis MC2 155)

TAPILLLDGASMWFRSYFGVPSSIKAPDGRPVNAVRGFIDAISTLVTREK
PRRLVVCRDDDWRPQWRVDLIPSYKAHRVAEPEPDGVPDIEEVPDDLTPQ
VNMILELLDAFGIPTAGAAGFEADDVLGTLSAREERDPVVVVSGDRDLLQ
LVRDEPAPQVRVLYLGRGLAKATKWGPAEVAEQYGVPLDRAGTAYAELAL
LRGDPSDGLPGVAGIGEKTAASLLAKHGSLQNILDAAHDPKSGLSKAHRT
KLLGAVDYIAAAETVVRVATDAPVTFSTPTDTLPLAAGDPARVAELAAAY
GVSSSISRLQTALDQLP

Ligand information

• Ligand ID: MN
• InChI: InChI=1S/Mn/q+2
• InChIKey: WAEMQWOKJMHJLA-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Mn+2]
  CACTVS 3.341: [Mn++]
• Formula: Mn
• Name: MANGANESE (II) ION
• DrugBank: DB06757
• PDB chain: 6c33 Chain A Residue 402

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6c33 Crystal structure and mutational analysis of Mycobacterium smegmatis FenA highlight active site amino acids and three metal ions essential for flap endonuclease and 5' exonuclease activities.
• Resolution: 1.8 Å
• Binding residue (original residue number in PDB): D125 D146 D148
• Binding residue (residue number reindexed from 1): D124 D145 D147
• Annotation score: 4

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003824 catalytic activity
• GO:0004527 exonuclease activity
• GO:0008409 5'-3' exonuclease activity
• GO:0016788 hydrolase activity, acting on ester bonds
• GO:0017108 5'-flap endonuclease activity
• GO:0046872 metal ion binding

Biological Process

• GO:0033567 DNA replication, Okazaki fragment processing

External links

• PDB: RCSB:6c33, PDBe:6c33, PDBj:6c33
• PDBsum: 6c33
• PubMed: 29635474
• UniProt: I7GAS0