Structure of PDB 7ypa Chain C Binding Site BS03

Receptor Information
>7ypa Chain C (length=1285) Species: 83333 (Escherichia coli K-12) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
YSYTEKKRIRKDFGKRPQVLDVPYLLSIQLDSFQKFIEQDPEGQYGLEAA
FRSVFPIQSYSGNSELQYVSYRLGEPVFDVQECQIRGVTYSAPLRVKLRL
VIYEGTVKDIKEQEVYMGEIPLMTDNGTFVINGTERVIVSQLHRSPGVFF
DSDKGKTHSSGKVLYNARIIPYRGSWLDFEFDPKDNLFVRIDRRRKLPAT
IILRALNYTTEQILDLFFEKVIFEIRDNKLQMELVPERLRGETASFDIEA
NGKVYVEKGRRITARHIRQLEKDDVKLIEVPVEYIAGKVVAKDYIDESTG
ELICAANMELSLDLLAKLSQSGHKRIETLFTNDLDHGPYISETLRVDPTN
DRLSALVEIYRMMRPGEPPTREAAESLFENLFFSEDRYDLSAVGRMKFNR
SLLREEIEGSGILSKDDIIDVMKKLIDIRNGKGEVDDIDHLGNRRIRSVG
EMAENQFRVGLVRVERAVKERLSLGDLDTLMPQDMINAKPISAAVKEFFG
SSQLSQFMDQNNPLSEITHKRRISALGPGGLTRERAGFEVRDVHPTHYGR
VCPIETPEGPNIGLINSLSVYAQTNEYGFLETPYRKVTDGVVTDEIHYLS
AIEEGNYVIAQANSNLDEEGHFVEDLVTCRSKGESSLFSRDQVDYMDVST
QQVVSVGASLIPFLEHDDANRALMGANMQRQAVPTLRADKPLVGTGMERA
VAVDSGVTAVAKRGGVVQYVDASRIVIKVNEDEMYPGEAGIDIYNLTKYT
RSNQNTCINQMPCVSLGEPVERGDVLADGPSTDLGELALGQNMRVAFMPW
NGYNFEDSILVSERVVQEDRFTTIHIQELACVSRDTKLGPEEITADIPNV
GEAALSKLDESGIVYIGAEVTGGDILVGKVTPKVKDSSLRVPNGVSGTVI
DVQVFTRDGVEKDKRALEIEEMQLKQAKKDLSEELQILEAGLFSRIRAVL
VQNQLEQLAEQYDELKHEFEKKLEAKRRKITQGDDLAPGVLKIVKVYLAV
KRRIQPGDKMAGRHGNKGVISKINPIEDMPYDENGTPVDIVLNPLGVPSR
MNIGQILETHLGMAAKGIGDKINAMLKQQQEVAKLREFIQRAYDLGADVR
QKVDLSTFSDEEVMRLAENLRKGMPIATPVFDGAKEAEIKELLKLGDLPT
SGQIRLYDGRTGEQFERPVTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQ
QPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVNGRTKMYK
NIVDGNHQMEPGMPESFNVLLKEIRSLGINIELED
Ligand information
>7ypa Chain H (length=20) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
gcgucgcaggccuuuuuauu
....................
Receptor-Ligand Complex Structure
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PDB7ypa Structural basis for intrinsic transcription termination.
Resolution3.05 Å
Binding residue
(original residue number in PDB)		R540 K914 Y1251 S1252 L1253 L1259
Binding residue
(residue number reindexed from 1)		R533 K885 Y1195 S1196 L1197 L1203
Enzymatic activity
Enzyme Commision number 2.7.7.6: DNA-directed RNA polymerase.
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:0032549 ribonucleoside binding
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:7ypa, PDBe:7ypa, PDBj:7ypa
PDBsum7ypa
PubMed36631609
UniProtP0A8V2|RPOB_ECOLI DNA-directed RNA polymerase subunit beta (Gene Name=rpoB)

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