Structure of PDB 5lkm Chain A Binding Site BS02

Receptor Information
>5lkm Chain A (length=390) Species: 1313 (Streptococcus pneumoniae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KTKPMKLAEVTSINVNRTKTEMEEFNRVLGGGVVPGSLVLIGGDPGIGKS
TLLLQVSTQLSQVGTVLYVSGEESAQQIKLRAERLGDIDSEFYLYAETNM
QSVRAEVERIQPDFLIIDSIQTIMSPESVSQVREVTAELMQLAKTNNIAI
FIVGHVTKEGPRMLEHMVDTVLYFEGERHHTFRILRAVKNRFGSTNEIGI
FEMQSGGLVEVLNPSQVFLEERLDGATGSSIVVTMEGTRPILAEVQALVT
PTMFGNAKRTTTGLDFNRASLIMAVLEKRAGLLLQNQDAYLKSAGGVKLD
EPAIDLAVAVAIASSYKDKPTNPQECFVGELGLTGEIRRVNRIEQRINEA
AKLGFTKIYVPKNSLTGITLPKEIQVIGVTTIQEVLKKVF
Ligand information
Ligand IDMG
InChIInChI=1S/Mg/q+2
InChIKeyJLVVSXFLKOJNIY-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Mg+2]
CACTVS 3.341[Mg++]
FormulaMg
NameMAGNESIUM ION
ChEMBL
DrugBankDB01378
ZINC
PDB chain5lkm Chain A Residue 501 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB5lkm Bacterial RadA is a DnaB-type helicase interacting with RecA to promote bidirectional D-loop extension.
Resolution3.5 Å
Binding residue
(original residue number in PDB)		S102 E124
Binding residue
(residue number reindexed from 1)		S50 E72
Annotation score1
Enzymatic activity
Enzyme Commision number 3.6.4.-
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003684 damaged DNA binding
GO:0005524 ATP binding
GO:0016787 hydrolase activity
GO:0016887 ATP hydrolysis activity
GO:0046872 metal ion binding
GO:0140664 ATP-dependent DNA damage sensor activity
Biological Process
GO:0000725 recombinational repair
GO:0006281 DNA repair

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:5lkm, PDBe:5lkm, PDBj:5lkm
PDBsum5lkm
PubMed28561029
UniProtQ8DRP0|RADA_STRR6 DNA repair protein RadA (Gene Name=radA)

[Back to BioLiP]