Structure of PDB 4cdn Chain A

Receptor sequence

>4cdnA (length=463) Species: 192952 (Methanosarcina mazei Go1)

LVPRGSHMNPKRIRALKSGKQGDGPVVYWMSRDQRAEDNWALLFSRAIAK
EANVPVVVVFCLTDEFLEAGIRQYEFMLKGLQELEVSLSRKKIPSFFLRG
DPGEKISRFVKDYNAGTLVTDFSPLRIKNQWIEKVISGISIPFFEVDAHN
VVPCWEASQKHEYAAHTFRPKLYALLPEFLEEFPELEPNSVTPELGMVET
LSDVLETGVKALLPERALLKNKDPLFEPWHFEPGEKAAKKVMESFIADRL
DSYGALRNDPTKNMLSNLSPYLHFGQISSQRVVLEVEKAESNPGSKKAFL
DEILIWKEISDNFCYYNPGYDGFESFPSWAKESLNAHRNDVRSHIYTLEE
FEAGKTHDPLWNASQMELLSTGKMHGYTRMYWAKKILEWSESPEKALEIA
ICLNDRYELDGRDPNGYAGIAWSIGGVHDRAWGEREVTGKIRYMSYEGCK
RKFDVKLYIEKYS

3D structure

• PDB: 4cdn Structural and Evolutionary Aspects of Antenna Chromophore Usage by Class II Photolyases.
• Chain: A
• Resolution: 1.9 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): E301 W305 A335 G375
• Catalytic site (residue number reindexed from 1): E302 W306 A336 G376
• 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	FAD	A	Y252 S265 N266 S268 L271 F298 E301 I302 W305 K306 K372 G375 R378 N403 D409 N414 G415 G418	Y253 S266 N267 S269 L272 F299 E302 I303 W306 K307 K373 G376 R379 N404 D410 N415 G416 G419
BS02	FO1	A	S26 R27 F55 C56 L57 T58 F61 M72 S118 K123 H272 F273 R411	S31 R32 F60 C61 L62 T63 F66 M77 S123 K128 H273 F274 R412

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:4cdn, PDBe:4cdn, PDBj:4cdn
• PDBsum: 4cdn
• PubMed: 24849603
• UniProt: Q8PYK9