Structure of PDB 8gy9 Chain B Binding Site BS01

Receptor Information

>8gy9 Chain B (length=248) Species: 2269360 (Alongshan virus)

PLGSEVYKGDGYKVWKLEPSLGDPLELGRKTKTEMNAMTHDEFDRMKYDK
PSKGYDKLRVLLDLMDRPRLGTTVDLCAGRGGWSELVKDLEGPKGITAVS
LWEEEWMADPAIHRINANVKHLRPWQVDTLLFDGGEAFKRDQNLRKEENF
NDSLLDAVDAWMMQPVPPRNFVIKIQVPYTQKAIALLEKWQVKTGKGRLV
RLAGDRLSNTVMYFLSVRLETQIRGRVTTFVRELAERRKDRSLTADPS

Ligand information

• Ligand ID: SAM
• InChI: InChI=1S/C15H22N6O5S/c1-27(3-2-7(16)15(24)25)4-8-10(22)11(23)14(26-8)21-6-20-9-12(17)18-5-19-13(9)21/h5-8,10-11,14,22-23H,2-4,16H2,1H3,(H2-,17,18,19,24,25)/t7-,8+,10+,11+,14+,27-/m0/s1
• InChIKey: MEFKEPWMEQBLKI-FCKMPRQPSA-N
• SMILES:
  CACTVS 3.341: C[S@@+](CC[C@H](N)C([O-])=O)C[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23
  OpenEye OEToolkits 1.5.0: C[S+](CCC(C(=O)[O-])N)CC1C(C(C(O1)n2cnc3c2ncnc3N)O)O
  CACTVS 3.341: C[S+](CC[CH](N)C([O-])=O)C[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23
  OpenEye OEToolkits 1.5.0: C[S@@+](CC[C@@H](C(=O)[O-])N)C[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)O
  ACDLabs 10.04: [O-]C(=O)C(N)CC[S+](C)CC3OC(n2cnc1c(ncnc12)N)C(O)C3O
• Formula: C15 H22 N6 O5 S
• Name: S-ADENOSYLMETHIONINE
• ChEMBL: CHEMBL1235831
• PDB chain: 8gy9 Chain B Residue 1001

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8gy9 Structural and functional analyses of Alongshan virus MTase reveal a low-affinity SAM/SAH-binding enzyme in the Flaviviridae family
• Resolution: 2.3 Å
• Binding residue (original residue number in PDB): S99 C124 A125 G129 W130 L148 E154 N168 V169 D183
• Binding residue (residue number reindexed from 1): S52 C77 A78 G82 W83 L101 E104 N118 V119 D133
• Annotation score: 2

Enzymatic activity

• Enzyme Commision number: 3.6.4.13: RNA helicase.

Gene Ontology

Molecular Function

• GO:0008168 methyltransferase activity

Biological Process

• GO:0032259 methylation

External links

• PDB: RCSB:8gy9, PDBe:8gy9, PDBj:8gy9
• PDBsum: 8gy9
• PubMed: 37831643
• UniProt: A0A344X2I6