Structure of PDB 7yem Chain B

Receptor sequence

>7yemB (length=431) Species: 192952 (Methanosarcina mazei Go1) [Search protein sequence]

LVPRGSHMNPKRIRALKSGKQGDGPVVYWMSRDQRAEDNWALLFSRAIAK
EANVPVVVVFCLTDEFGIRQYEFMLKGLQELEVSLSRKKIPSFFLRGDPG
EKISRFVKDYNAGTLVTDFSPLRIKNQWIEKVISGISIPFFEVDAHNVVP
CWEASQKHEYAAHTFRPKLYALLPEFLEEFPELEPNSVTPDPLFEPWHFE
PGEKAAKKVMESFIADRLDSYGALRNDPTKNMLSNLSPYLHFGQISSQRV
VLEVEKAESNPGSKKAFLDEILIWKEISDNFCYYNPGYDGFESFPSWAKE
SLNAHRNDVRSHIYTLEEFEAGKTHDPLWNASQMELLSTGKMHGYTRMYW
AKKILEWSESPEKALEIAICLNDRYELDGRDPNGYAGIAWSIGGVHDRAW
GEREVTGKIRYMSYEGCKRKFDVKLYIEKYS

3D structure

PDB

7yem Visualizing the DNA repair process by a photolyase at atomic resolution

Chain

Resolution

2.6 Å

3D
structure

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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)
BS01	dna	B	H161 R164 R256 W305 M379 W431 R441 Y442 M443 S444 R450 K451	H163 R166 R225 W274 M348 W400 R410 Y411 M412 S413 R419 K420
BS02	dna	B	Y158 T162 W328 A430 W431 K439	Y160 T164 W297 A399 W400 K408
BS03	FAD	B	Y252 L264 S265 S268 F298 E301 W305 K372 R378 N403 D409 N414 G415 G418	Y221 L233 S234 S237 F267 E270 W274 K341 R347 N372 D378 N383 G384 G387

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

View graph for
Molecular Function

View graph for
Biological Process

External links

PDB	RCSB:7yem, PDBe:7yem, PDBj:7yem
PDBsum	7yem
PubMed	38033054
UniProt	Q8PYK9

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