Structure of PDB 6kij Chain B

Receptor sequence
>6kijB (length=226) Species: 562 (Escherichia coli) [Search protein sequence]
CGRFAQSQTREDYLALLAEDIERDIPYDPEPIGRYNVAPGTKVLLLSERD
EHLHLDPVFWGYAPGWWDKPPLINARVETAATSRMFKPLWQHGRAICFAD
GWFEWKKEGDKKQPFFIYRADGQPIFMAAIGSTPFERGDEAEGFLIVTAA
ADQGLVDIHDRRPLVLSPEAAREWMRQEISGKEASEIAASGCVPANQFSW
HPVSRAVGNVKNQGAELIQPVLEVLF
3D structure
PDB6kij Molecular basis of abasic site sensing in single-stranded DNA by the SRAP domain of E. coli yedK.
ChainB
Resolution1.58 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 3.4.-.-
4.-.-.-
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 B W67 W68 N75 R77 S84 R85 M86 F87 W66 W67 N74 R76 S83 R84 M85 F86
BS02 PED B C2 N75 R77 T149 H160 R162 C1 N74 R76 T148 H159 R161
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003697 single-stranded DNA binding
GO:0008233 peptidase activity
GO:0016829 lyase activity
GO:0160129 protein-DNA covalent cross-linking activity
Biological Process
GO:0006508 proteolysis
GO:0006974 DNA damage response
GO:0009432 SOS response
GO:0106300 protein-DNA covalent cross-linking repair

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Molecular Function
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Biological Process
External links
PDB RCSB:6kij, PDBe:6kij, PDBj:6kij
PDBsum6kij
PubMed31504793
UniProtP76318|YEDK_ECOLI Abasic site processing protein YedK (Gene Name=yedK)

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