Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6PSU

Escherichia coli RNA polymerase promoter unwinding intermediate (TRPi2) with TraR and rpsT P2 promoter

Functional Information from GO Data

Chain	GOid	namespace	contents
G	0000345	cellular_component	cytosolic DNA-directed RNA polymerase complex
G	0000428	cellular_component	DNA-directed RNA polymerase complex
G	0003677	molecular_function	DNA binding
G	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
G	0005515	molecular_function	protein binding
G	0005737	cellular_component	cytoplasm
G	0005829	cellular_component	cytosol
G	0006351	biological_process	DNA-templated transcription
G	0006352	biological_process	DNA-templated transcription initiation
G	0006879	biological_process	intracellular iron ion homeostasis
G	0008023	cellular_component	transcription elongation factor complex
G	0009408	biological_process	response to heat
G	0016020	cellular_component	membrane
G	0016779	molecular_function	nucleotidyltransferase activity
G	0031564	biological_process	transcription antitermination
G	0032784	biological_process	regulation of DNA-templated transcription elongation
G	0034062	molecular_function	5'-3' RNA polymerase activity
G	0036460	biological_process	cellular response to cell envelope stress
G	0042128	biological_process	nitrate assimilation
G	0044780	biological_process	bacterial-type flagellum assembly
G	0046983	molecular_function	protein dimerization activity
G	0048870	biological_process	cell motility
G	0071973	biological_process	bacterial-type flagellum-dependent cell motility
G	0090605	biological_process	submerged biofilm formation
G	2000142	biological_process	regulation of DNA-templated transcription initiation
H	0000345	cellular_component	cytosolic DNA-directed RNA polymerase complex
H	0000428	cellular_component	DNA-directed RNA polymerase complex
H	0003677	molecular_function	DNA binding
H	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
H	0005515	molecular_function	protein binding
H	0005737	cellular_component	cytoplasm
H	0005829	cellular_component	cytosol
H	0006351	biological_process	DNA-templated transcription
H	0006352	biological_process	DNA-templated transcription initiation
H	0006879	biological_process	intracellular iron ion homeostasis
H	0008023	cellular_component	transcription elongation factor complex
H	0009408	biological_process	response to heat
H	0016020	cellular_component	membrane
H	0016779	molecular_function	nucleotidyltransferase activity
H	0031564	biological_process	transcription antitermination
H	0032784	biological_process	regulation of DNA-templated transcription elongation
H	0034062	molecular_function	5'-3' RNA polymerase activity
H	0036460	biological_process	cellular response to cell envelope stress
H	0042128	biological_process	nitrate assimilation
H	0044780	biological_process	bacterial-type flagellum assembly
H	0046983	molecular_function	protein dimerization activity
H	0048870	biological_process	cell motility
H	0071973	biological_process	bacterial-type flagellum-dependent cell motility
H	0090605	biological_process	submerged biofilm formation
H	2000142	biological_process	regulation of DNA-templated transcription initiation
I	0000345	cellular_component	cytosolic DNA-directed RNA polymerase complex
I	0000428	cellular_component	DNA-directed RNA polymerase complex
I	0003677	molecular_function	DNA binding
I	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
I	0005515	molecular_function	protein binding
I	0005737	cellular_component	cytoplasm
I	0005829	cellular_component	cytosol
I	0006351	biological_process	DNA-templated transcription
I	0006352	biological_process	DNA-templated transcription initiation
I	0006879	biological_process	intracellular iron ion homeostasis
I	0008023	cellular_component	transcription elongation factor complex
I	0009408	biological_process	response to heat
I	0016020	cellular_component	membrane
I	0016779	molecular_function	nucleotidyltransferase activity
I	0031564	biological_process	transcription antitermination
I	0032549	molecular_function	ribonucleoside binding
I	0032784	biological_process	regulation of DNA-templated transcription elongation
I	0034062	molecular_function	5'-3' RNA polymerase activity
I	0036460	biological_process	cellular response to cell envelope stress
I	0042128	biological_process	nitrate assimilation
I	0044780	biological_process	bacterial-type flagellum assembly
I	0046677	biological_process	response to antibiotic
I	0048870	biological_process	cell motility
I	0071973	biological_process	bacterial-type flagellum-dependent cell motility
I	0090605	biological_process	submerged biofilm formation
I	2000142	biological_process	regulation of DNA-templated transcription initiation
J	0000287	molecular_function	magnesium ion binding
J	0000345	cellular_component	cytosolic DNA-directed RNA polymerase complex
J	0000428	cellular_component	DNA-directed RNA polymerase complex
J	0003677	molecular_function	DNA binding
J	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
J	0005515	molecular_function	protein binding
J	0005737	cellular_component	cytoplasm
J	0005829	cellular_component	cytosol
J	0006351	biological_process	DNA-templated transcription
J	0006352	biological_process	DNA-templated transcription initiation
J	0006879	biological_process	intracellular iron ion homeostasis
J	0008023	cellular_component	transcription elongation factor complex
J	0008270	molecular_function	zinc ion binding
J	0009408	biological_process	response to heat
J	0016020	cellular_component	membrane
J	0016779	molecular_function	nucleotidyltransferase activity
J	0031564	biological_process	transcription antitermination
J	0032784	biological_process	regulation of DNA-templated transcription elongation
J	0034062	molecular_function	5'-3' RNA polymerase activity
J	0036460	biological_process	cellular response to cell envelope stress
J	0042128	biological_process	nitrate assimilation
J	0044780	biological_process	bacterial-type flagellum assembly
J	0046677	biological_process	response to antibiotic
J	0046872	molecular_function	metal ion binding
J	0048870	biological_process	cell motility
J	0071973	biological_process	bacterial-type flagellum-dependent cell motility
J	0090605	biological_process	submerged biofilm formation
J	2000142	biological_process	regulation of DNA-templated transcription initiation
K	0000345	cellular_component	cytosolic DNA-directed RNA polymerase complex
K	0000428	cellular_component	DNA-directed RNA polymerase complex
K	0001000	molecular_function	bacterial-type RNA polymerase core enzyme binding
K	0003677	molecular_function	DNA binding
K	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
K	0005829	cellular_component	cytosol
K	0006351	biological_process	DNA-templated transcription
K	0006352	biological_process	DNA-templated transcription initiation
K	0006879	biological_process	intracellular iron ion homeostasis
K	0008023	cellular_component	transcription elongation factor complex
K	0009408	biological_process	response to heat
K	0016779	molecular_function	nucleotidyltransferase activity
K	0030880	cellular_component	RNA polymerase complex
K	0031564	biological_process	transcription antitermination
K	0032784	biological_process	regulation of DNA-templated transcription elongation
K	0034062	molecular_function	5'-3' RNA polymerase activity
K	0036460	biological_process	cellular response to cell envelope stress
K	0042128	biological_process	nitrate assimilation
K	0044780	biological_process	bacterial-type flagellum assembly
K	0048870	biological_process	cell motility
K	0065003	biological_process	protein-containing complex assembly
K	0071973	biological_process	bacterial-type flagellum-dependent cell motility
K	0090605	biological_process	submerged biofilm formation
K	2000142	biological_process	regulation of DNA-templated transcription initiation
L	0000345	cellular_component	cytosolic DNA-directed RNA polymerase complex
L	0003677	molecular_function	DNA binding
L	0003700	molecular_function	DNA-binding transcription factor activity
L	0005515	molecular_function	protein binding
L	0005737	cellular_component	cytoplasm
L	0005829	cellular_component	cytosol
L	0006351	biological_process	DNA-templated transcription
L	0006352	biological_process	DNA-templated transcription initiation
L	0006355	biological_process	regulation of DNA-templated transcription
L	0009408	biological_process	response to heat
L	0010468	biological_process	regulation of gene expression
L	0016987	molecular_function	sigma factor activity
L	0045892	biological_process	negative regulation of DNA-templated transcription
L	1903865	cellular_component	sigma factor antagonist complex
L	2000142	biological_process	regulation of DNA-templated transcription initiation
M	0000345	cellular_component	cytosolic DNA-directed RNA polymerase complex
M	0000428	cellular_component	DNA-directed RNA polymerase complex
M	0003677	molecular_function	DNA binding
M	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
M	0005515	molecular_function	protein binding
M	0005737	cellular_component	cytoplasm
M	0005829	cellular_component	cytosol
M	0006351	biological_process	DNA-templated transcription
M	0006352	biological_process	DNA-templated transcription initiation
M	0006879	biological_process	intracellular iron ion homeostasis
M	0008023	cellular_component	transcription elongation factor complex
M	0009408	biological_process	response to heat
M	0016020	cellular_component	membrane
M	0016779	molecular_function	nucleotidyltransferase activity
M	0031564	biological_process	transcription antitermination
M	0032784	biological_process	regulation of DNA-templated transcription elongation
M	0034062	molecular_function	5'-3' RNA polymerase activity
M	0036460	biological_process	cellular response to cell envelope stress
M	0042128	biological_process	nitrate assimilation
M	0044780	biological_process	bacterial-type flagellum assembly
M	0046983	molecular_function	protein dimerization activity
M	0048870	biological_process	cell motility
M	0071973	biological_process	bacterial-type flagellum-dependent cell motility
M	0090605	biological_process	submerged biofilm formation
M	2000142	biological_process	regulation of DNA-templated transcription initiation
N	0008270	molecular_function	zinc ion binding
N	0046872	molecular_function	metal ion binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	binding site for residue ZN N 101

Chain	Residue
N	CYS37
N	CYS40
N	CYS58
N	CYS61

site_id	AC2
Number of Residues	7
Details	binding site for residue 1N7 N 102

Chain	Residue
N	GLN14
N	ASN21
J	PHE935
J	LEU1243
J	GLN1244
N	SER10
N	GLU13

site_id	AC3
Number of Residues	7
Details	binding site for residue 1N7 I 1401

Chain	Residue
G	ASP135
I	GLN725
I	TYR726
I	GLU962
I	GLN965
I	ILE966
I	ALA969

site_id	AC4
Number of Residues	4
Details	binding site for residue MG J 1501

Chain	Residue
J	ARG425
J	ASP460
J	ASP462
J	ASP464

site_id	AC5
Number of Residues	4
Details	binding site for residue ZN J 1502

Chain	Residue
J	CYS70
J	CYS72
J	CYS85
J	CYS88

site_id	AC6
Number of Residues	4
Details	binding site for residue ZN J 1503

Chain	Residue
J	CYS888
J	VAL894
J	CYS895
J	CYS898

site_id	AC7
Number of Residues	5
Details	binding site for residue 1N7 J 1504

Chain	Residue
I	GLN1264
J	ASP256
L	ASP513
L	PHE522
L	1N7701

site_id	AC8
Number of Residues	6
Details	binding site for residue 1N7 L 701

Chain	Residue
J	ARG259
J	1N71504
L	ILE505
L	PRO510
L	ILE511
L	LEU519

Functional Information from PROSITE/UniProt

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

Chain	Residue	Details
L	ASP403-VAL416

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

Chain	Residue	Details
L	THR572-LEU598

site_id	PS01102
Number of Residues	25
Details	ZF_DKSA_1 Prokaryotic dksA C4-type zinc finger. CEaCgnpIpeaRrkifPgvtlCveC

Chain	Residue	Details
N	CYS37-CYS61

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

Chain	Residue	Details
I	GLY1063-VAL1075

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	19
Details	DNA_BIND: H-T-H motif => ECO:0000255\|HAMAP-Rule:MF_00963

Chain	Residue	Details
L	LEU573-ALA592
J	CYS895
J	CYS898
J	CYS72
J	CYS85
J	CYS88
J	ASP460
J	ASP462
J	ASP464
J	CYS814
J	CYS888

site_id	SWS_FT_FI2
Number of Residues	1
Details	SITE: Interaction with anti-sigma factors

Chain	Residue	Details
L	ARG562
H	LYS297
M	LYS297

site_id	SWS_FT_FI3
Number of Residues	3
Details	MOD_RES: N6-acetyllysine; by PatZ => ECO:0000269\|PubMed:21696463

Chain	Residue	Details
G	LYS298
H	LYS298
M	LYS298

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)