Structure of PDB 6dcb Chain A Binding Site BS02

Receptor Information

>6dcb Chain A (length=225) Species: 9606 (Homo sapiens)

RKFQYGNYCKYYGYRNPSCEDGRLRVLKPEWFRGRDVLDLGCNVGHLTLS
IACKWGPSRMVGLDIDSRLIHSARQNIRHYLSTSVFPNNVVFVTGNYVLD
RDDLVEAQTPEYDVVLCLSLTKWVHLNWGDEGLKRMFRRIYRHLRPGGIL
VLEPQPWSSYGKRKTLTETIYKNYYRIQLKPEQFSSYLTSPDVGFSSYEL
VATPHNTSKGFQRPVYLFHKARSPS

Ligand information

• Ligand ID: SAH
• InChI: InChI=1S/C14H20N6O5S/c15-6(14(23)24)1-2-26-3-7-9(21)10(22)13(25-7)20-5-19-8-11(16)17-4-18-12(8)20/h4-7,9-10,13,21-22H,1-3,15H2,(H,23,24)(H2,16,17,18)/t6-,7+,9+,10+,13+/m0/s1
• InChIKey: ZJUKTBDSGOFHSH-WFMPWKQPSA-N
• SMILES:
  CACTVS 3.341: N[CH](CCSC[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23)C(O)=O
  OpenEye OEToolkits 1.5.0: c1nc(c2c(n1)n(cn2)C3C(C(C(O3)CSCCC(C(=O)O)N)O)O)N
  CACTVS 3.341: N[C@@H](CCSC[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23)C(O)=O
  ACDLabs 10.04: O=C(O)C(N)CCSCC3OC(n2cnc1c(ncnc12)N)C(O)C3O
  OpenEye OEToolkits 1.5.0: c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CSCC[C@@H](C(=O)O)N)O)O)N
• Formula: C14 H20 N6 O5 S
• Name: S-ADENOSYL-L-HOMOCYSTEINE
• ChEMBL: CHEMBL418052
• DrugBank: DB01752
• ZINC: ZINC000004228232
• PDB chain: 6dcb Chain A Residue 701

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6dcb Structural basis of 7SK RNA 5'-gamma-phosphate methylation and retention by MePCE.
• Resolution: 1.998 Å
• Binding residue (original residue number in PDB): Y415 G416 N417 Y421 Y422 R433 G451 N453 D474 I475 N559 L581 S582 L583 W591
• Binding residue (residue number reindexed from 1): Y5 G6 N7 Y11 Y12 R23 G41 N43 D64 I65 N96 L118 S119 L120 W128
• Annotation score: 5

Enzymatic activity

• Enzyme Commision number: 2.1.1.-

Gene Ontology

Molecular Function

• GO:0008168 methyltransferase activity

External links

• PDB: RCSB:6dcb, PDBe:6dcb, PDBj:6dcb
• PDBsum: 6dcb
• PubMed: 30559425
• UniProt: Q7L2J0|MEPCE_HUMAN 7SK snRNA methylphosphate capping enzyme (Gene Name=MEPCE)