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Structure of PDB 7yp9 Chain C Binding Site BS03

Receptor Information >7yp9 Chain C (length=1230) Species: 83333 (Escherichia coli K-12) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure] VYSYTEKKRIRKDFGKRPQVLDVPYLLSIQLDSFQKFIEQDPEGQYGLEA AFRSVFPIQSYSGNSELQYVSYRLGEPVFDVQECQIRGVTYSAPLRVKLR LVIKEQEVYMGEIPLMTDNGTFVINGTERVIVSQLHRSPGVFFDSDKGKT HSSGKVLYNARIIPYRGSWLDFEFDPKDNLFVRIDRRRKLPATIILRALN YTTEQILDLFFEKVIFEIRDNKLQMELVPERLRGETASFDIEANGKVYVE KGRRITARHIRQLEKDDVKLIEVPVEYIAGKVVAKDYIDESTGELICAAN MELSLDLLAKLSQSGHKRIETLFTNDLDHGPYISETLRVDPTNDRLSALV EIYRMPTREAAESLFENLFFSEDRYDLSAVGRMKFNRSLLREEIEGSGIL SKDDIIDVMKKLIDIRNGKGEVDDIDHLGNRRIRSVGEMAENQFRVGLVR VERAVKERLSLGDLDTLMPQDMINAKPISAAVKEFFGSSQLSQFMDQNNP LSEITHKRRISALGPGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIG LINSLSVYAQTNEYGFLETPYRKVTDGVVTDEIHYLSAIEEGNYVIAQAN SNLDEEGHFVEDLVTCRSKGESSLFSRDQVDYMDVSTQQVVSVGASLIPF LEHDDANRALMGANMQRQAVPTLRADKPLVGTGMERAVAVDSGVTAVAKR GGVVQYVDASRIVIKVNEDEMYAGIDIYNLTKYTRSNQNTCINQMPCVSL GEPVERGDVLADGPSTDLGELALGQNMRVAFMPWNGYNFEDSILVSERVV QEDRFTTIHIQELACVSREEITADIPLSKLDESGIVYIGAEVTGGDILVG KVTPKVKDSSLRVPNGVSGTVIDVQVFTDKRALEIEEMQLKQAKKDLSEE LQILEAQYDELKHEFEKKLEAKRRKITQGDDLAPGVLKIVKVYLAVKRRI QPGDKMAGRHGNKGVISKINPIEDMPYDENGTPVDIVLNPLGVPSRMNIG QILETHLGMAAKGIGDKINAMLKQQQEVAKLREFIQRAYDLGADVRQKVD LSTFSDEEVMRLAENLRKGMPIATPVFDGAKEAEIKELLKLGDLPTSGQI RLYDGRTGEQFERPVTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLG GKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVNGRTKMYKNIVD GNHQMEPGMPESFNVLLKEIRSLGINIELE

Ligand information >7yp9 Chain H (length=11) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure] gccuuuuuauu ...........

Receptor-Ligand Complex Structure Global view Local view Structure 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] PDB 7yp9 Structural basis for intrinsic transcription termination. Resolution 3.58 Å Binding residue (original residue number in PDB) S509 Q510 Q513 L533 R540 P564 P567 I572 R687 Q688 K1065 K1073 H1237 S1250 L1253 L1259 Binding residue (residue number reindexed from 1) S489 Q490 Q493 L513 R520 P544 P547 I552 R667 Q668 K955 K963 H1127 S1140 L1143 L1149

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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