Structure of PDB 6jde Chain B Binding Site BS01

Receptor Information
>6jde Chain B (length=567) Species: 83333 (Escherichia coli K-12) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
IFTLRPYQQEAVDATLNHFRRHKTPAVIVLPTGAGKSLVIAELARLARGR
VLVLAHVKELVAQNHAKYQALGLEADIFAAGESHGKVVFGSVQSVARNLD
AFQGEFSLLIVDECHRIGDESQYQQILTHLTKVNPHLRLLGLTATPFRLG
KGWIYQFHYHGMVRGDEKALFRDCIYELPLRYMIKHGYLTPPERLDMPVV
QYDFSRLQAQSNGLFSEADLNRELKKQQRITPHIISQIMEFAATRKGVMI
FAATVEHAKEIVGLLPAEDAALITGDTPGAERDVLIENFKAQRFRYLVNV
AVLTTGFDAPHVDLIAILRPTESVSLYQQIVGRGLRLAPGKTDCLILDYA
GNPHDLYAPEVGTPKKSDNVPVQVFCPACGFANTFWGKTTADGTLIEHFG
RRCQGWFEDDDGHREQCDFRFRFKNCQCNAENDIAARRCCDTVLVDPDDM
LKAALRLKDALVLRCSGMSLQHGHDEKGEWLKITYYDEDGADVSERFRLQ
TPAQRTAFEQLFIRPHTRTPGIPLRWITAADILAQQALLRHPDFVVARMK
GQYWQVREKVFDYEGRF
Ligand information
Ligand IDZN
InChIInChI=1S/Zn/q+2
InChIKeyPTFCDOFLOPIGGS-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Zn++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Zn+2]
FormulaZn
NameZINC ION
ChEMBLCHEMBL1236970
DrugBankDB14532
ZINC
PDB chain6jde Chain B Residue 601 [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]
PDB6jde Crystal structure of a novel ATPase RadD from Escherichia coli.
Resolution2.8 Å
Binding residue
(original residue number in PDB)		C384 C387 C411 C425
Binding residue
(residue number reindexed from 1)		C376 C379 C403 C417
Annotation score1
Enzymatic activity
Enzyme Commision number 3.6.4.12: DNA helicase.
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003697 single-stranded DNA binding
GO:0004386 helicase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008270 zinc ion binding
GO:0016787 hydrolase activity
GO:0016887 ATP hydrolysis activity
GO:0046872 metal ion binding
Biological Process
GO:0006281 DNA repair
GO:0006301 postreplication repair
GO:0006302 double-strand break repair
GO:0006412 translation
GO:0009410 response to xenobiotic stimulus
GO:0010212 response to ionizing radiation
GO:0051301 cell division

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:6jde, PDBe:6jde, PDBj:6jde
PDBsum6jde
PubMed31035307
UniProtP33919|RADD_ECOLI Putative DNA repair helicase RadD (Gene Name=radD)

[Back to BioLiP]