Structure of PDB 5wmb Chain A

Receptor sequence

>5wmbA (length=433) Species: 559292 (Saccharomyces cerevisiae S288C)

RIVACDDPDFLTSYFAHSRLHHLSAWKANLKDKFLNENIHKYTKITDKDT
YIIFHIDFDCFFATVAYLCRSSSFSACDFKRDPIVVCHGTKNSDIASCNY
VARSYGIKNGMWVSQAEKMLPNGIKLISLPYTFEQFQLKSEAFYSTLKRL
NIFNLILPISIDEAVCVRIIPDNIHNTNTLNARLCEEIRQEIFQGTNGCT
VSIGCSDSLVLARLALKMAKPNGYNITFKSNLSEEFWSSFKLDDLPGVGH
STLSRLESTFDSPHSLNDLRKRYTLDALKASVGSKLGMKIHLALQGQDDE
ESLKILYDPKEVLQRKSLSIDINWGIRFKNITQVDLFIERGCQYLLEKLN
EINKTTSQITLKLMRRCKDAPIEPPKYMGMGRCDSFSRSSRLGIPTNEFG
IIATEMKSLYRTLGCPPMELRGLALQFNKLVDV

3D structure

• PDB: 5wmb Mechanism of error-free replication across benzo[a]pyrene stereoisomers by Rev1 DNA polymerase.
• Chain: A
• Resolution: 2.25 Å

Enzymatic activity

• Enzyme Commision number: 2.7.7.-

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	I464 P551 G552 G554 S556 T557 F691 S692 R693 S694	I159 P246 G247 G249 S251 T252 F386 S387 R388 S389
BS02	dna	A	I307 Y319 F320 H322 S323 R324 L325 H326 S329 H393 G394 K396 N397 S398 D399 K590 R620 K621 L623 S624 I625 D626 I627 N628 W629 K681 Y682 G684 M685	I2 Y14 F15 H17 S18 R19 L20 H21 S24 H88 G89 K91 N92 S93 D94 K285 R315 K316 L318 S319 I320 D321 I322 N323 W324 K376 Y377 G379 M380
BS03	MG	A	D548 V553	D243 V248
BS04	MG	A	D362 D467 E468	D57 D162 E163
BS05	MG	A	D362 F363 D467	D57 F58 D162
BS06	DCP	A	R324 L328 D362 F363 C365 F366 F367 A401 S402 Y405 R408 N414 D467 K525	R19 L23 D57 F58 C60 F61 F62 A96 S97 Y100 R103 N109 D162 K220

Gene Ontology

Molecular Function

• GO:0003684 damaged DNA binding
• GO:0003887 DNA-directed DNA polymerase activity

Biological Process

• GO:0006281 DNA repair

External links

• PDB: RCSB:5wmb, PDBe:5wmb, PDBj:5wmb
• PDBsum: 5wmb
• PubMed: 29042535
• UniProt: P12689|REV1_YEAST DNA repair protein REV1 (Gene Name=REV1)