Structure of PDB 1kfv Chain B Binding Site BS01
Receptor Information
>1kfv Chain B (length=260) Species:
1358
(Lactococcus lactis) [
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GELPEVETVRRELEKRIVGQKIISIEATYPRMVLTGFEQLKKELTGKTIQ
GISRRGKYLIFEIGDDFRLISHLRMEGKYRLATLDAPREKHDHLTMKFAD
GQLIYADVRKFGTWELISTDQVLPYFLKKKIGPEPTYEDFDEKLFREKLR
KSTKKIKPYLLEQTLVAGLGNIYVDEVLWLAKIHPEKETNQLIESSIHLL
HDSIIEILQKAIKLGGSGKMQNELQVYGKTGEKCSRCGAEIQKIKVAGRG
THFCPVCQQK
Ligand information
>1kfv Chain G (length=13) [
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ctctttStttctc
Receptor-Ligand Complex Structure
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PDB
1kfv
Crystal structure of the Lactococcus lactis formamidopyrimidine-DNA glycosylase bound to an abasic site analogue-containing DNA.
Resolution
2.55 Å
Binding residue
(original residue number in PDB)
G1 E2 K57 H72 R74 M75 R109 K129 G170 N171 Y238 K254 K256 R260
Binding residue
(residue number reindexed from 1)
G1 E2 K57 H72 R74 M75 R109 K129 G170 N171 Y227 K243 K245 R249
Binding affinity
PDBbind-CN
: Kd=6nM
Enzymatic activity
Catalytic site (original residue number in PDB)
G1
Catalytic site (residue number reindexed from 1)
G1
Enzyme Commision number
3.2.2.23
: DNA-formamidopyrimidine glycosylase.
4.2.99.18
: DNA-(apurinic or apyrimidinic site) lyase.
Gene Ontology
Molecular Function
GO:0003676
nucleic acid binding
GO:0003677
DNA binding
GO:0003684
damaged DNA binding
GO:0003906
DNA-(apurinic or apyrimidinic site) endonuclease activity
GO:0008270
zinc ion binding
GO:0008534
oxidized purine nucleobase lesion DNA N-glycosylase activity
GO:0016787
hydrolase activity
GO:0016798
hydrolase activity, acting on glycosyl bonds
GO:0016799
hydrolase activity, hydrolyzing N-glycosyl compounds
GO:0016829
lyase activity
GO:0019104
DNA N-glycosylase activity
GO:0034039
8-oxo-7,8-dihydroguanine DNA N-glycosylase activity
GO:0046872
metal ion binding
GO:0140078
class I DNA-(apurinic or apyrimidinic site) endonuclease activity
Biological Process
GO:0006281
DNA repair
GO:0006284
base-excision repair
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Molecular Function
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Biological Process
External links
PDB
RCSB:1kfv
,
PDBe:1kfv
,
PDBj:1kfv
PDBsum
1kfv
PubMed
12065399
UniProt
P42371
|FPG_LACLC Formamidopyrimidine-DNA glycosylase (Gene Name=mutM)
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