Structure of PDB 7zd9 Chain A Binding Site BS04

Receptor Information

>7zd9 Chain A (length=417) Species: 1148 (Synechocystis sp. PCC 6803)

KYDIKDISLAPQGRQRIEWAAREMPVLKQIRERFAQEKPFAGIRLVACCH
VTTETANLAIALHAGGADSLLIASNPLSTQDDVAACLVADYGIPVYAIKG
EDNETYHRHVQIALDHRPNIIIDDGSDVVATLVQERQHQLSDIIGTTEET
TTGIVRLRAMFNDGVLTFPAMNVNDADTKHFYDNRYGTGQSTLDGIIRAT
NILLAGKTIVVAGYGWCGKGVAMRAKGMGADVIVTEISPVPAIEAAMDGF
RVMPMAEAAHQGDIFITVTGNKHVIRPEHFAVMKDGAIVCNSGHFDIEID
LKSLKEQAKEVKEVRNFTEQYILPNGKSIIVIGEGRLVNLAAATGHPSAV
MDMSFANQALACEHLVKNKGQLEPGMHSIPVEVDQEIARLKLQAMGIAID
SLTPEQVEYINSWASGT

Ligand information

• Ligand ID: RB
• InChI: InChI=1S/Rb/q+1
• InChIKey: NCCSSGKUIKYAJD-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  CACTVS 3.341
  OpenEye OEToolkits 1.5.0: [Rb+]
• Formula: Rb
• Name: RUBIDIUM ION
• PDB chain: 7zd9 Chain A Residue 505

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7zd9 Biochemical and structural insights into an unusual, alkali-metal-independent S-adenosyl-L-homocysteine hydrolase from Synechocystis sp. PCC 6803.
• Resolution: 1.89 Å
• Binding residue (original residue number in PDB): K313 E314 A316
• Binding residue (residue number reindexed from 1): K305 E306 A308
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 3.13.2.1: adenosylhomocysteinase.

Gene Ontology

Molecular Function

• GO:0004013 adenosylhomocysteinase activity
• GO:0016787 hydrolase activity

Biological Process

• GO:0006730 one-carbon metabolic process
• GO:0033353 S-adenosylmethionine cycle
• GO:0071269 L-homocysteine biosynthetic process

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol

External links

• PDB: RCSB:7zd9, PDBe:7zd9, PDBj:7zd9
• PDBsum: 7zd9
• PubMed: 35775986
• UniProt: P74008|SAHH_SYNY3 Adenosylhomocysteinase (Gene Name=ahcY)