Structure of PDB 1smy Chain F Binding Site BS01

Receptor Information
>1smy Chain F (length=345) Species: 274 (Thermus thermophilus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KISTSDPVRQYLHEIGQVPLLTLEEEVELARKVEEGMEAIKKLSEITGLD
PDLIREVVRAKILGSARVRHIPGLKETLDPKTVEEIDQKLKSLPKEHKRY
LHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRA
VEKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSR
TARQLQQELGREPTYEEIAEAMGPGWDAKRVEETLKIAQEPVSLETPIGD
EKDSFYGDFIPDEHLPSPVDAATQSLLSEELEKALSKLSEREAMVLKLRK
GLIDGEEVGAFFGVTRERIRQIENKALRKLKYHESRTRKLRDFLD
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 chain1smy Chain F Residue 9251 [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]
PDB1smy Structural basis for transcription regulation by alarmone ppGpp
Resolution2.7 Å
Binding residue
(original residue number in PDB)		K409 S413 R416
Binding residue
(residue number reindexed from 1)		K331 S335 R338
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003700 DNA-binding transcription factor activity
GO:0016987 sigma factor activity
Biological Process
GO:0006352 DNA-templated transcription initiation
GO:0006355 regulation of DNA-templated transcription
GO:0010468 regulation of gene expression
GO:2000142 regulation of DNA-templated transcription initiation
Cellular Component
GO:0005737 cytoplasm

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:1smy, PDBe:1smy, PDBj:1smy
PDBsum1smy
PubMed15109491
UniProtQ72L95|SIGA_THET2 RNA polymerase sigma factor SigA (Gene Name=sigA)

[Back to BioLiP]