Structure of PDB 8u0j Chain A

Receptor sequence

>8u0jA (length=569) Species: 666 (Vibrio cholerae)

QGPLSTLIEQIRFESEGLYYLVKSKKLPKDHSGYELTTVEIDLAPCAALG
FKQTLSMGTKTFSPLSWFTLENGEVQKKARFATRYQLDDVGKLVSKSIKG
DYIKKPLYSNAKNRIQAIDITKESYSGFQLSKVGILEQFMQDLKQAYGDS
VSVKLQRIPGEKHRFVSDTIVKNHYVGLFDALKEHRLVICDLTENQDTDA
ALTLLHGIEHLDINAEIAEVPIRGALNILIVGNKDTYKSDEEDPYQVYRK
KYQDTVFQSCYPERLWNRQGQPNRHVVEVLLKELLIKLEVHTRKHLIEYP
SGPERCVYYMPQRPKDESSEVRDEPWPVYASKLVGDEWQYTQATQEELED
IELDLGNDKRHVFHGFERSPVIYWPETGDYAIFIDTGIQMLPEFEAVAER
LRELKEGRSQDVPIALLAQFIEENPESKVINKLRAILSEWDDVAPLPFDE
FSTIAYKSSDEKQFYDWLREQGFFLKTSIRGQSEGFFNASLGFFYNREQG
MYFAGGKGSPQSKIETFSHLYLIKHSFDALPEEVENLFDVYHLRHRLPTV
TPYPFKHLREYVEMQRFRS

3D structure

• PDB: 8u0j Plasmid targeting and destruction by the DdmDE bacterial defence system.
• Chain: A
• Resolution: 3.1 Å

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	T177 K178 T179 S227 K230 K250 K352 D361 Y363 Q376 S377 C378 Y379 R382 V394 V397 L398 K405 Q507 F635 S636 H637 L661 R662 V668 K674	T59 K60 T61 S109 K112 K132 K234 D243 Y245 Q258 S259 C260 Y261 R264 V276 V279 L280 K287 Q389 F517 S518 H519 L543 R544 V550 K556
BS02	dna	A	N228 K230 R232 R392 H393 R431 F484 E485 K575 S576 S577 K625 S627 P628 Q629 K631 E633 H663	N110 K112 R114 R274 H275 R313 F366 E367 K457 S458 S459 K507 S509 P510 Q511 K513 E515 H545
BS03	dna	A	Y574 K575 K594 S596 R598 Q600 S627 S630	Y456 K457 K476 S478 R480 Q482 S509 S512

Gene Ontology

Molecular Function

• GO:0003674 molecular_function

Biological Process

• GO:0008150 biological_process

Cellular Component

• GO:0005575 cellular_component

External links

• PDB: RCSB:8u0j, PDBe:8u0j, PDBj:8u0j
• PDBsum: 8u0j
• PubMed: 38740055
• UniProt: Q9KR73