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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

8U3B

Cryo-EM structure of E. coli NarL-transcription activation complex at 3.2A

Functional Information from GO Data
ChainGOidnamespacecontents
A0000345cellular_componentcytosolic DNA-directed RNA polymerase complex
A0000428cellular_componentDNA-directed RNA polymerase complex
A0003677molecular_functionDNA binding
A0003899molecular_functionDNA-directed RNA polymerase activity
A0005515molecular_functionprotein binding
A0005737cellular_componentcytoplasm
A0005829cellular_componentcytosol
A0006351biological_processDNA-templated transcription
A0006352biological_processDNA-templated transcription initiation
A0006879biological_processintracellular iron ion homeostasis
A0008023cellular_componenttranscription elongation factor complex
A0009408biological_processresponse to heat
A0016020cellular_componentmembrane
A0016740molecular_functiontransferase activity
A0016779molecular_functionnucleotidyltransferase activity
A0031564biological_processtranscription antitermination
A0032784biological_processregulation of DNA-templated transcription elongation
A0034062molecular_function5'-3' RNA polymerase activity
A0036460biological_processcellular response to cell envelope stress
A0042128biological_processnitrate assimilation
A0044780biological_processbacterial-type flagellum assembly
A0046983molecular_functionprotein dimerization activity
A0048870biological_processcell motility
A0071973biological_processbacterial-type flagellum-dependent cell motility
A0090605biological_processsubmerged biofilm formation
A2000142biological_processregulation of DNA-templated transcription initiation
B0000345cellular_componentcytosolic DNA-directed RNA polymerase complex
B0000428cellular_componentDNA-directed RNA polymerase complex
B0003677molecular_functionDNA binding
B0003899molecular_functionDNA-directed RNA polymerase activity
B0005515molecular_functionprotein binding
B0005737cellular_componentcytoplasm
B0005829cellular_componentcytosol
B0006351biological_processDNA-templated transcription
B0006352biological_processDNA-templated transcription initiation
B0006879biological_processintracellular iron ion homeostasis
B0008023cellular_componenttranscription elongation factor complex
B0009408biological_processresponse to heat
B0016020cellular_componentmembrane
B0016740molecular_functiontransferase activity
B0016779molecular_functionnucleotidyltransferase activity
B0031564biological_processtranscription antitermination
B0032784biological_processregulation of DNA-templated transcription elongation
B0034062molecular_function5'-3' RNA polymerase activity
B0036460biological_processcellular response to cell envelope stress
B0042128biological_processnitrate assimilation
B0044780biological_processbacterial-type flagellum assembly
B0046983molecular_functionprotein dimerization activity
B0048870biological_processcell motility
B0071973biological_processbacterial-type flagellum-dependent cell motility
B0090605biological_processsubmerged biofilm formation
B2000142biological_processregulation of DNA-templated transcription initiation
C0000345cellular_componentcytosolic DNA-directed RNA polymerase complex
C0000428cellular_componentDNA-directed RNA polymerase complex
C0003677molecular_functionDNA binding
C0003899molecular_functionDNA-directed RNA polymerase activity
C0005515molecular_functionprotein binding
C0005737cellular_componentcytoplasm
C0005829cellular_componentcytosol
C0006351biological_processDNA-templated transcription
C0006352biological_processDNA-templated transcription initiation
C0006879biological_processintracellular iron ion homeostasis
C0008023cellular_componenttranscription elongation factor complex
C0009408biological_processresponse to heat
C0016020cellular_componentmembrane
C0016740molecular_functiontransferase activity
C0016779molecular_functionnucleotidyltransferase activity
C0031564biological_processtranscription antitermination
C0032549molecular_functionribonucleoside binding
C0032784biological_processregulation of DNA-templated transcription elongation
C0034062molecular_function5'-3' RNA polymerase activity
C0036460biological_processcellular response to cell envelope stress
C0042128biological_processnitrate assimilation
C0044780biological_processbacterial-type flagellum assembly
C0046677biological_processresponse to antibiotic
C0048870biological_processcell motility
C0071973biological_processbacterial-type flagellum-dependent cell motility
C0090605biological_processsubmerged biofilm formation
C2000142biological_processregulation of DNA-templated transcription initiation
D0000287molecular_functionmagnesium ion binding
D0000345cellular_componentcytosolic DNA-directed RNA polymerase complex
D0000428cellular_componentDNA-directed RNA polymerase complex
D0003677molecular_functionDNA binding
D0003899molecular_functionDNA-directed RNA polymerase activity
D0005515molecular_functionprotein binding
D0005737cellular_componentcytoplasm
D0005829cellular_componentcytosol
D0006351biological_processDNA-templated transcription
D0006352biological_processDNA-templated transcription initiation
D0006879biological_processintracellular iron ion homeostasis
D0008023cellular_componenttranscription elongation factor complex
D0008270molecular_functionzinc ion binding
D0009408biological_processresponse to heat
D0016020cellular_componentmembrane
D0016740molecular_functiontransferase activity
D0016779molecular_functionnucleotidyltransferase activity
D0031564biological_processtranscription antitermination
D0032784biological_processregulation of DNA-templated transcription elongation
D0034062molecular_function5'-3' RNA polymerase activity
D0036460biological_processcellular response to cell envelope stress
D0042128biological_processnitrate assimilation
D0044780biological_processbacterial-type flagellum assembly
D0046677biological_processresponse to antibiotic
D0046872molecular_functionmetal ion binding
D0048870biological_processcell motility
D0071973biological_processbacterial-type flagellum-dependent cell motility
D0090605biological_processsubmerged biofilm formation
D2000142biological_processregulation of DNA-templated transcription initiation
E0000345cellular_componentcytosolic DNA-directed RNA polymerase complex
E0000428cellular_componentDNA-directed RNA polymerase complex
E0001000molecular_functionbacterial-type RNA polymerase core enzyme binding
E0003677molecular_functionDNA binding
E0003899molecular_functionDNA-directed RNA polymerase activity
E0005829cellular_componentcytosol
E0006351biological_processDNA-templated transcription
E0006352biological_processDNA-templated transcription initiation
E0006879biological_processintracellular iron ion homeostasis
E0008023cellular_componenttranscription elongation factor complex
E0009408biological_processresponse to heat
E0016740molecular_functiontransferase activity
E0016779molecular_functionnucleotidyltransferase activity
E0030880cellular_componentRNA polymerase complex
E0031564biological_processtranscription antitermination
E0032784biological_processregulation of DNA-templated transcription elongation
E0034062molecular_function5'-3' RNA polymerase activity
E0036460biological_processcellular response to cell envelope stress
E0042128biological_processnitrate assimilation
E0044780biological_processbacterial-type flagellum assembly
E0048870biological_processcell motility
E0065003biological_processprotein-containing complex assembly
E0071973biological_processbacterial-type flagellum-dependent cell motility
E0090605biological_processsubmerged biofilm formation
E2000142biological_processregulation of DNA-templated transcription initiation
F0000345cellular_componentcytosolic DNA-directed RNA polymerase complex
F0000976molecular_functiontranscription cis-regulatory region binding
F0003677molecular_functionDNA binding
F0003700molecular_functionDNA-binding transcription factor activity
F0003899molecular_functionDNA-directed RNA polymerase activity
F0005515molecular_functionprotein binding
F0005737cellular_componentcytoplasm
F0005829cellular_componentcytosol
F0006351biological_processDNA-templated transcription
F0006352biological_processDNA-templated transcription initiation
F0006355biological_processregulation of DNA-templated transcription
F0009408biological_processresponse to heat
F0010468biological_processregulation of gene expression
F0016987molecular_functionsigma factor activity
F0045892biological_processnegative regulation of DNA-templated transcription
F1903865cellular_componentsigma factor antagonist complex
F2000142biological_processregulation of DNA-templated transcription initiation
G0003677molecular_functionDNA binding
G0006355biological_processregulation of DNA-templated transcription
H0003677molecular_functionDNA binding
H0006355biological_processregulation of DNA-templated transcription
Functional Information from PROSITE/UniProt
site_idPS00622
Number of Residues28
DetailsHTH_LUXR_1 LuxR-type HTH domain signature. GlpNkmIArrLdItesTVkvHvkHMlkK
ChainResidueDetails
GGLY170-LYS197
site_idPS00715
Number of Residues14
DetailsSIGMA70_1 Sigma-70 factors family signature 1. DLIQeGnIGLMkAV
ChainResidueDetails
FASP403-VAL416
site_idPS00716
Number of Residues27
DetailsSIGMA70_2 Sigma-70 factors family signature 2. TleEVGkqfdVTrerIrQIEakaLrkL
ChainResidueDetails
FTHR572-LEU598
site_idPS01166
Number of Residues13
DetailsRNA_POL_BETA RNA polymerases beta chain signature. GdKMAGrHGNKGV
ChainResidueDetails
CGLY1063-VAL1075
Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues6
DetailsRegion: {"description":"Required for interaction with Crp at class II promoters"}
ChainResidueDetails
site_idSWS_FT_FI2
Number of Residues1
DetailsModified residue: {"description":"ADP-ribosylarginine","evidences":[{"source":"PubMed","id":"4371081","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI3
Number of Residues1
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"21696463","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI4
Number of Residues1
DetailsModified residue: {"description":"N6-acetyllysine; by PatZ","evidences":[{"source":"PubMed","id":"21696463","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI5
Number of Residues2
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"18723842","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI6
Number of Residues11
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"32871103","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4MEX","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4MEY","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI7
Number of Residues1
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"HAMAP-Rule","id":"MF_01322","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"18723842","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI8
Number of Residues19
DetailsDNA binding: {"description":"H-T-H motif","evidences":[{"source":"HAMAP-Rule","id":"MF_00963","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI9
Number of Residues70
DetailsRegion: {"description":"Sigma-70 factor domain-2"}
ChainResidueDetails
site_idSWS_FT_FI10
Number of Residues76
DetailsRegion: {"description":"Sigma-70 factor domain-3"}
ChainResidueDetails
site_idSWS_FT_FI11
Number of Residues53
DetailsRegion: {"description":"Sigma-70 factor domain-4"}
ChainResidueDetails
site_idSWS_FT_FI12
Number of Residues15
DetailsRegion: {"description":"Interaction with anti-sigma factors"}
ChainResidueDetails
site_idSWS_FT_FI13
Number of Residues3
DetailsMotif: {"description":"Interaction with polymerase core subunit RpoC"}
ChainResidueDetails
site_idSWS_FT_FI14
Number of Residues1
DetailsSite: {"description":"Interaction with anti-sigma factors"}
ChainResidueDetails
site_idSWS_FT_FI15
Number of Residues38
DetailsDNA binding: {"description":"H-T-H motif","evidences":[{"source":"PROSITE-ProRule","id":"PRU00411","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails

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PDB entries from 2025-10-22

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