Structure of PDB 8tom Chain L Binding Site BS01

Receptor Information
>8tom Chain L (length=552) Species: 83333 (Escherichia coli K-12) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVM
EEAPDDLMLAENTADEDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTV
ELLTREGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARL
SDLITGFVDPELAREKFAELRAQYVVTRDTIATAQEEILKLSEVFKQFRL
VPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNET
SDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLTIEQVKDI
NRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIG
LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETIN
KLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPI
GDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRM
RFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL
DD
Ligand information
>8tom Chain O (length=40) [Search DNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
accgtgcgtgttgactattttacctctggcggtgataatg
Receptor-Ligand Complex Structure
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PDB8tom Early intermediates in bacterial RNA polymerase promoter melting visualized by time-resolved cryo-electron microscopy.
Resolution3.1 Å
Binding residue
(original residue number in PDB)		P453 H455 T583 E585 R586 Q589
Binding residue
(residue number reindexed from 1)		P392 H394 T522 E524 R525 Q528
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0005515 protein binding
GO:0016987 sigma factor activity
Biological Process
GO:0006351 DNA-templated transcription
GO:0006352 DNA-templated transcription initiation
GO:0006355 regulation of DNA-templated transcription
GO:0009408 response to heat
GO:0010468 regulation of gene expression
GO:0045892 negative regulation of DNA-templated transcription
GO:2000142 regulation of DNA-templated transcription initiation
Cellular Component
GO:0000345 cytosolic DNA-directed RNA polymerase complex
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:1903865 sigma factor antagonist complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8tom, PDBe:8tom, PDBj:8tom
PDBsum8tom
PubMed38951624
UniProtP00579|RPOD_ECOLI RNA polymerase sigma factor RpoD (Gene Name=rpoD)

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