Structure of PDB 6lrd Chain A

Receptor sequence

>6lrdA (length=698) Species: 1299 (Deinococcus radiodurans)

RPAHWLLAPPASRDALLATMREWQVSPPVAQVLCGRDLRTELLALPLELT
PNPALREAARHIVAAVREGKRIRIHGDYDADGVSATATLVLGLRAIGANV
HGFIPHRLNEGYGIHPDRVPEHAAAADLVVTVDCGVSNLDEVKSLLATGT
EVVVTDHHAPGENFPECLVVHPHLTPDYDPDRHNLTGAGVAYHLLWAVYE
ELGRPEPRALLPLATLGTVADVAPLLGENRALVRAGLAEMARTELPGLRA
LMNEKRVRQPTARDVAFILAPRINAAGRMGEADRALELLTTPSDHEAKSL
AAYLEIRNQERRKIQDDMFAQALQLADPNDPALVLTHDDWHAGVMGIVAS
KLVETFNRPVYIVAQGKGSVRSTPGISAVQGLRESRDLLGRFGGHPGAAG
FSLDPQNFGALRERIHGYVRQFPTPVPAVRLDAPLPVAALTPELLSELSI
LEPFGEGNPRPLWHLRGPLTDTRLVGKQGDVLQFRFGGVKGMKYSERDDA
AGERDVAAELALNTSLELHAAALRPLAPLALAGTEEGLPTLPRLNPREAM
TFLKTGAAAYAEQGVATYLRDNVPGLTLLDTNAPHPGGDLILYGLPPESA
LRRWLHEAQEQGGRVAFALGPKTLAELDAALTLAKLLPDSHTEAAQEAAA
DAYRSWQWAHHYRVLNDAGWSASVYAMLGLPVPAALPKAAEALALAAG

3D structure

• PDB: 6lrd Participation of RecJ in the base excision repair pathway of Deinococcus radiodurans.
• Chain: A
• Resolution: 1.90134 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	D81 R109 Y114 D223 V224 F269 P273 R274 N276 R280 R313 R314 A344 M347 G348 I349 K353 E356 K369 G370 S371 R373 F394 G395 G396 H397 A400 A401 G402	D79 R107 Y112 D221 V222 F267 P271 R272 N274 R278 R311 R312 A342 M345 G346 I347 K351 E354 K367 G368 S369 R371 F392 G393 G394 H395 A398 A399 G400
BS02	peptide	A	P553 V572 Y575 Y600 G627 P628 K629	P546 V565 Y568 Y593 G620 P621 K622
BS03	MN	A	D83 D135 H159 D223	D81 D133 H157 D221
BS04	MN	A	D79 D81 D135	D77 D79 D133

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0004527 exonuclease activity
• GO:0008409 5'-3' exonuclease activity
• GO:0046872 metal ion binding

Biological Process

• GO:0006281 DNA repair
• GO:0006310 DNA recombination

External links

• PDB: RCSB:6lrd, PDBe:6lrd, PDBj:6lrd
• PDBsum: 6lrd
• PubMed: 32870272
• UniProt: D0EM60