Structure of PDB 5of3 Chain D Binding Site BS03

Receptor Information
>5of3 Chain D (length=319) Species: 273057 (Saccharolobus solfataricus P2) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TNLIKSFFRNYYLNAELELPKDMELREFALQPFGSDTYVRHLSFSSSEEL
RDYLVNRNLPLHLFYSSARYQLPSARNMEEKAWMGSDLLFDIDADHLCKL
RSIRFCPVCGNAVVSEKCERDNVETLEYVEMTSECIKRGLEQTRNLVEIL
EDDFGLKPKVYFSGNRGFHVQVDCYGNCALLDSDERKEIAEYVMGIGVPG
YPGGSENAPGWVGRKNRGINGVTIDEQVTIDVKRLIRIPNSLHGKSGLIV
KRVPNLDDFEFNETLSPFTGYTIFLPYITIETEVLGSIIKLNRGIPIKIK
SSIGIYLHLRNLGEVKAYV
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 chain5of3 Chain D Residue 1003 [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]
PDB5of3 Primer synthesis by a eukaryotic-like archaeal primase is independent of its Fe-S cluster.
Resolution2.906 Å
Binding residue
(original residue number in PDB)		C116 C119 C128 D131
Binding residue
(residue number reindexed from 1)		C106 C109 C118 D121
Annotation score1
Enzymatic activity
Enzyme Commision number 2.7.7.-
Gene Ontology
Molecular Function
GO:0003896 DNA primase activity
GO:0005515 protein binding
GO:0016779 nucleotidyltransferase activity
GO:0046872 metal ion binding
Biological Process
GO:0006259 DNA metabolic process
GO:0006260 DNA replication
GO:0006269 DNA replication, synthesis of primer
Cellular Component
GO:0000428 DNA-directed RNA polymerase complex
GO:1990077 primosome complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:5of3, PDBe:5of3, PDBj:5of3
PDBsum5of3
PubMed29167441
UniProtQ97Z83|PRIS_SACS2 DNA primase small subunit PriS (Gene Name=priS)

[Back to BioLiP]