Structure of PDB 8to1 Chain I

Receptor sequence
>8to1I (length=1337) Species: 83333 (Escherichia coli K-12) [Search protein sequence]
VYSYTEKKRIRKDFGKRPQVLDVPYLLSIQLDSFQKFIEQDPEGQYGLEA
AFRSVFPIQSYSGNSELQYVSYRLGEPVFDVQECQIRGVTYSAPLRVKLR
LVIYEREAPEGTVKDIKEQEVYMGEIPLMTDNGTFVINGTERVIVSQLHR
SPGVFFDSDKGKTHSSGKVLYNARIIPYRGSWLDFEFDPKDNLFVRIDRR
RKLPATIILRALNYTTEQILDLFFEKVIFEIKLQMELVPERLRGTASFDI
EANGKVYVEKGRRITARHIRQLEKDDVKLIEVPVEYIAGKVVAKDYIDES
TGELICAANMELSLDLLAKLSQSGHKRIETLFTNDLDHGPYISETLRVDP
TNDRLSALVEIYRMMRPGEPPTREAAESLFENLFFSEDRYDLSAVGRMKF
NRSLLREEIEGSGILSKDDIIDVMKKLIDIRNGKGEVDDIDHLGNRRIRS
VGEMAENQFRVGLVRVERAVKERLSLGDLDTLMPQDMINAKPISAAVKEF
FGSSQLSQFMDQNNPLSEITHKRRISALGPGGLTRERAGFEVRDVHPTHY
GRVCPIETPEGPNIGLINSLSVYAQTNEYGFLETPYRKVTDGVVTDEIHY
LSAIEEGNYVIAQANSNLDEEGHFVEDLVTCRSKGESSLFSRDQVDYMDV
STQQVVSVGASLIPFLEHDDANRALMGANMQRQAVPTLRADKPLVGTGME
RAVAVDSGVTAVAKRGGVVQYVDASRIVIKVNEDEMYPGEAGIDIYNLTK
YTRSNQNTCINQMPCVSLGEPVERGDVLADGPSTDLGELALGQNMRVAFM
PWNGYNFEDSILVSERVVQEDRFTTIHIQELACVSRDTKLGPEEITADIP
NVGEAALSKLDESGIVYIGAEVTGGDILVGKVTPKGETQLTPEEKLLRAI
FGEKASDVKDSSLRVPNGVSGTVIDVQVFTRDGVEKDKRALEIEEMQLKQ
AKKDLSEELQILEAGLFSRIRAVLVAGGVEAEKLDKLPRDRWLELGLTDE
EKQNQLEQLAEQYDELKHEFEKKLEAKRRKITQGDDLAPGVLKIVKVYLA
VKRRIQPGDKMAGRHGNKGVISKINPIEDMPYDENGTPVDIVLNPLGVPS
RMNIGQILETHLGMAAKGIGDKINAMLKQQQEVAKLREFIQRAYDLGADV
RQKVDLSTFSDEEVMRLAENLRKGMPIATPVFDGAKEAEIKELLKLGDLP
TSGQIRLYDGRTGEQFERPVTVGYMYMLKLNHLVDDKMHARSTGSYSLVT
QQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVNGRTKMY
KNIVDGNHQMEPGMPESFNVLLKEIRSLGINIELEDE
3D structure
PDB8to1 Early intermediates in bacterial RNA polymerase promoter melting visualized by time-resolved cryo-electron microscopy.
ChainI
Resolution2.8 Å
3D
structure
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Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 4QM I Y726 E962 I966 Y721 E957 I961
BS02 4QM I Q46 Y47 Y179 S398 V400 E458 E583 Y584 Q45 Y46 Y178 S393 V395 E453 E578 Y579
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003899 DNA-directed 5'-3' RNA polymerase activity
GO:0005515 protein binding
GO:0016779 nucleotidyltransferase activity
GO:0034062 5'-3' RNA polymerase activity
Biological Process
GO:0006351 DNA-templated transcription
GO:0006352 DNA-templated transcription initiation
GO:0006879 intracellular iron ion homeostasis
GO:0009408 response to heat
GO:0031564 transcription antitermination
GO:0032784 regulation of DNA-templated transcription elongation
GO:0036460 cellular response to cell envelope stress
GO:0042128 nitrate assimilation
GO:0044780 bacterial-type flagellum assembly
GO:0046677 response to antibiotic
GO:0048870 cell motility
GO:0071973 bacterial-type flagellum-dependent cell motility
GO:0090605 submerged biofilm formation
GO:2000142 regulation of DNA-templated transcription initiation
Cellular Component
GO:0000345 cytosolic DNA-directed RNA polymerase complex
GO:0000428 DNA-directed RNA polymerase complex
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0008023 transcription elongation factor complex
GO:0016020 membrane

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8to1, PDBe:8to1, PDBj:8to1
PDBsum8to1
PubMed38951624
UniProtP0A8V2|RPOB_ECOLI DNA-directed RNA polymerase subunit beta (Gene Name=rpoB)

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