Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6N60

Escherichia coli RNA polymerase sigma70-holoenzyme bound to upstream fork promoter DNA and Microcin J25 (MccJ25)

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0003677	molecular_function	DNA binding
A	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
A	0006351	biological_process	DNA-templated transcription
A	0046983	molecular_function	protein dimerization activity
B	0003677	molecular_function	DNA binding
B	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
B	0006351	biological_process	DNA-templated transcription
B	0046983	molecular_function	protein dimerization activity
C	0000345	cellular_component	cytosolic DNA-directed RNA polymerase complex
C	0000428	cellular_component	DNA-directed RNA polymerase complex
C	0003677	molecular_function	DNA binding
C	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
C	0005515	molecular_function	protein binding
C	0005737	cellular_component	cytoplasm
C	0005829	cellular_component	cytosol
C	0006351	biological_process	DNA-templated transcription
C	0006352	biological_process	DNA-templated transcription initiation
C	0006879	biological_process	intracellular iron ion homeostasis
C	0008023	cellular_component	transcription elongation factor complex
C	0009408	biological_process	response to heat
C	0016020	cellular_component	membrane
C	0016740	molecular_function	transferase activity
C	0016779	molecular_function	nucleotidyltransferase activity
C	0031564	biological_process	transcription antitermination
C	0032549	molecular_function	ribonucleoside binding
C	0032784	biological_process	regulation of DNA-templated transcription elongation
C	0034062	molecular_function	5'-3' RNA polymerase activity
C	0036460	biological_process	cellular response to cell envelope stress
C	0042128	biological_process	nitrate assimilation
C	0044780	biological_process	bacterial-type flagellum assembly
C	0046677	biological_process	response to antibiotic
C	0048870	biological_process	cell motility
C	0071973	biological_process	bacterial-type flagellum-dependent cell motility
C	0090605	biological_process	submerged biofilm formation
C	2000142	biological_process	regulation of DNA-templated transcription initiation
D	0000287	molecular_function	magnesium ion binding
D	0000345	cellular_component	cytosolic DNA-directed RNA polymerase complex
D	0000428	cellular_component	DNA-directed RNA polymerase complex
D	0003677	molecular_function	DNA binding
D	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
D	0005515	molecular_function	protein binding
D	0005737	cellular_component	cytoplasm
D	0005829	cellular_component	cytosol
D	0006351	biological_process	DNA-templated transcription
D	0006352	biological_process	DNA-templated transcription initiation
D	0006879	biological_process	intracellular iron ion homeostasis
D	0008023	cellular_component	transcription elongation factor complex
D	0008270	molecular_function	zinc ion binding
D	0009408	biological_process	response to heat
D	0016020	cellular_component	membrane
D	0016740	molecular_function	transferase activity
D	0016779	molecular_function	nucleotidyltransferase activity
D	0031564	biological_process	transcription antitermination
D	0032784	biological_process	regulation of DNA-templated transcription elongation
D	0034062	molecular_function	5'-3' RNA polymerase activity
D	0036460	biological_process	cellular response to cell envelope stress
D	0042128	biological_process	nitrate assimilation
D	0044780	biological_process	bacterial-type flagellum assembly
D	0046677	biological_process	response to antibiotic
D	0046872	molecular_function	metal ion binding
D	0048870	biological_process	cell motility
D	0071973	biological_process	bacterial-type flagellum-dependent cell motility
D	0090605	biological_process	submerged biofilm formation
D	2000142	biological_process	regulation of DNA-templated transcription initiation
E	0000345	cellular_component	cytosolic DNA-directed RNA polymerase complex
E	0000428	cellular_component	DNA-directed RNA polymerase complex
E	0003677	molecular_function	DNA binding
E	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
E	0005829	cellular_component	cytosol
E	0006351	biological_process	DNA-templated transcription
E	0006352	biological_process	DNA-templated transcription initiation
E	0006879	biological_process	intracellular iron ion homeostasis
E	0008023	cellular_component	transcription elongation factor complex
E	0009408	biological_process	response to heat
E	0016740	molecular_function	transferase activity
E	0016779	molecular_function	nucleotidyltransferase activity
E	0030880	cellular_component	RNA polymerase complex
E	0031564	biological_process	transcription antitermination
E	0032784	biological_process	regulation of DNA-templated transcription elongation
E	0034062	molecular_function	5'-3' RNA polymerase activity
E	0036460	biological_process	cellular response to cell envelope stress
E	0042128	biological_process	nitrate assimilation
E	0044780	biological_process	bacterial-type flagellum assembly
E	0048870	biological_process	cell motility
E	0065003	biological_process	protein-containing complex assembly
E	0071973	biological_process	bacterial-type flagellum-dependent cell motility
E	0090605	biological_process	submerged biofilm formation
E	2000142	biological_process	regulation of DNA-templated transcription initiation
F	0003677	molecular_function	DNA binding
F	0003700	molecular_function	DNA-binding transcription factor activity
F	0005737	cellular_component	cytoplasm
F	0006351	biological_process	DNA-templated transcription
F	0006352	biological_process	DNA-templated transcription initiation
F	0006355	biological_process	regulation of DNA-templated transcription
F	0010468	biological_process	regulation of gene expression
F	0016987	molecular_function	sigma factor activity
F	0046872	molecular_function	metal ion binding
F	2000142	biological_process	regulation of DNA-templated transcription initiation

Functional Information from PDB Data

site_id	AC1
Number of Residues	3
Details	binding site for residue MG D 1501

Chain	Residue
D	ASP460
D	ASP462
D	ASP464

site_id	AC2
Number of Residues	4
Details	binding site for residue ZN D 1502

Chain	Residue
D	CYS70
D	CYS72
D	CYS85
D	CYS88

site_id	AC3
Number of Residues	6
Details	binding site for residue ZN D 1503

Chain	Residue
D	ARG883
D	CYS888
D	CYS895
D	CYS898
D	CYS814
D	THR816

Functional Information from PROSITE/UniProt

site_id	PS01166
Number of Residues	13
Details	RNA_POL_BETA RNA polymerases beta chain signature. GdKMAGrHGNKGV

Chain	Residue	Details
C	GLY1063-VAL1075

site_id	PS00715
Number of Residues	14
Details	SIGMA70_1 Sigma-70 factors family signature 1. DLIQeGnIGLMkAV

Chain	Residue	Details
F	ASP403-VAL416

site_id	PS00716
Number of Residues	27
Details	SIGMA70_2 Sigma-70 factors family signature 2. TleEVGkqfdVTrerIrQIEakaLrkL

Chain	Residue	Details
F	THR572-LEU598

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	5
Details	SITE: Essential for permeation into bacteria => ECO:0000269\|PubMed:18632663

Chain	Residue	Details
D	ASP462
D	ASP464
D	CYS814
D	CYS888
D	CYS895
D	CYS898
M	GLY4
M	PRO7
M	PHE10
M	PHE19
M	TYR20

site_id	SWS_FT_FI2
Number of Residues	1
Details	SITE: Essential for permeation into bacteria and for RNAP inhibition => ECO:0000269\|PubMed:18632663

Chain	Residue	Details
M	TYR9

site_id	SWS_FT_FI3
Number of Residues	2
Details	CROSSLNK: Isoglutamyl glycine isopeptide (Gly-Glu) => ECO:0000269\|PubMed:14531661, ECO:0000269\|PubMed:14531690, ECO:0000269\|PubMed:14531691

Chain	Residue	Details
M	GLY1
M	GLU8

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)