Structure of PDB 8oyc Chain A

Receptor sequence

>8oycA (length=460) Species: 192952 (Methanosarcina mazei Go1)

IMNPKRIRALKSGKQGDGPVVYWMSRDQRAEDNWALLFSRAIAKEANVPV
VVVFCLTDEFLEAGIRQYEFMLKGLQELEVSLSRKKIPSFFLRGDPGEKI
SRFVKDYNAGTLVTDFSPLRIKNQWIEKVISGISIPFFEVDAHNVVPCWE
ASQKHEYAAHTFRPKLYALLPEFLEEFPELEPNSVTPEETLSDVLETGVK
ALLPERALLKNKDPLFEPWHFEPGEKAAKKVMESFIADRLDSYGALRNDP
TKNMLSNLSPYLHFGQISSQRVVLEVEKAESNPGSKKAFLDEILIWKEIS
DNFCYYNPGYDGFESFPSWAKESLNAHRNDVRSHIYTLEEFEAGKTHDPL
WNASQMELLSTGKMHGYMRMYWAKKILEWSESPEKALEIAICLNDRYELD
GRDPNGYAGIAWSIGGVHDRAWGEREVTGKIRYMSYEGCKRKFDVKLYIE
KYSALDKLAA

3D structure

• PDB: 8oyc Time-resolved crystallography captures light-driven DNA repair
• Chain: A
• Resolution: 2.5 Å

Enzymatic activity

• Enzyme Commision number: 4.1.99.3: deoxyribodipyrimidine photo-lyase.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	dna	A	A160 H161 R164 E301 W305 W421 W431 R441 Y442 M443 S444 E446 G447 R450 K451	A159 H160 R163 E292 W296 W412 W422 R432 Y433 M434 S435 E437 G438 R441 K442
BS02	dna	A	Y158 W328 R429 A430 W431 G432 K439 R450 F452	Y157 W319 R420 A421 W422 G423 K430 R441 F443
BS03	FDA	A	Y252 L264 S265 N266 S268 F298 E301 I302 W305 K306 K372 R378 N403 D409 N414 G415	Y243 L255 S256 N257 S259 F289 E292 I293 W296 K297 K363 R369 N394 D400 N405 G406

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0003677 DNA binding
• GO:0003904 deoxyribodipyrimidine photo-lyase activity
• GO:0016829 lyase activity

Biological Process

• GO:0000719 photoreactive repair
• GO:0006281 DNA repair

External links

• PDB: RCSB:8oyc, PDBe:8oyc, PDBj:8oyc
• PDBsum: 8oyc
• PubMed: 38033070
• UniProt: Q8PYK9