Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

4S20

Structural basis for transcription reactivation by RapA

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000345	cellular_component	cytosolic DNA-directed RNA polymerase complex
A	0000428	cellular_component	DNA-directed RNA polymerase complex
A	0003677	molecular_function	DNA binding
A	0003899	molecular_function	DNA-directed RNA polymerase activity
A	0005515	molecular_function	protein binding
A	0005737	cellular_component	cytoplasm
A	0005829	cellular_component	cytosol
A	0006351	biological_process	DNA-templated transcription
A	0006352	biological_process	DNA-templated transcription initiation
A	0006879	biological_process	intracellular iron ion homeostasis
A	0008023	cellular_component	transcription elongation factor complex
A	0009408	biological_process	response to heat
A	0016020	cellular_component	membrane
A	0016740	molecular_function	transferase activity
A	0016779	molecular_function	nucleotidyltransferase activity
A	0031564	biological_process	transcription antitermination
A	0032784	biological_process	regulation of DNA-templated transcription elongation
A	0034062	molecular_function	5'-3' RNA polymerase activity
A	0036460	biological_process	cellular response to cell envelope stress
A	0042128	biological_process	nitrate assimilation
A	0044780	biological_process	bacterial-type flagellum assembly
A	0046983	molecular_function	protein dimerization activity
A	0048870	biological_process	cell motility
A	0071973	biological_process	bacterial-type flagellum-dependent cell motility
A	0090605	biological_process	submerged biofilm formation
A	2000142	biological_process	regulation of DNA-templated transcription initiation
B	0000345	cellular_component	cytosolic DNA-directed RNA polymerase complex
B	0000428	cellular_component	DNA-directed RNA polymerase complex
B	0003677	molecular_function	DNA binding
B	0003899	molecular_function	DNA-directed RNA polymerase activity
B	0005515	molecular_function	protein binding
B	0005737	cellular_component	cytoplasm
B	0005829	cellular_component	cytosol
B	0006351	biological_process	DNA-templated transcription
B	0006352	biological_process	DNA-templated transcription initiation
B	0006879	biological_process	intracellular iron ion homeostasis
B	0008023	cellular_component	transcription elongation factor complex
B	0009408	biological_process	response to heat
B	0016020	cellular_component	membrane
B	0016740	molecular_function	transferase activity
B	0016779	molecular_function	nucleotidyltransferase activity
B	0031564	biological_process	transcription antitermination
B	0032784	biological_process	regulation of DNA-templated transcription elongation
B	0034062	molecular_function	5'-3' RNA polymerase activity
B	0036460	biological_process	cellular response to cell envelope stress
B	0042128	biological_process	nitrate assimilation
B	0044780	biological_process	bacterial-type flagellum assembly
B	0046983	molecular_function	protein dimerization activity
B	0048870	biological_process	cell motility
B	0071973	biological_process	bacterial-type flagellum-dependent cell motility
B	0090605	biological_process	submerged biofilm formation
B	2000142	biological_process	regulation of DNA-templated transcription initiation
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 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	0006354	biological_process	DNA-templated transcription elongation
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	0003677	molecular_function	DNA binding
D	0003899	molecular_function	DNA-directed RNA polymerase activity
D	0006351	biological_process	DNA-templated transcription
E	0003677	molecular_function	DNA binding
E	0003899	molecular_function	DNA-directed RNA polymerase activity
E	0006351	biological_process	DNA-templated transcription
F	0000345	cellular_component	cytosolic DNA-directed RNA polymerase complex
F	0000428	cellular_component	DNA-directed RNA polymerase complex
F	0003677	molecular_function	DNA binding
F	0003899	molecular_function	DNA-directed RNA polymerase activity
F	0005515	molecular_function	protein binding
F	0005737	cellular_component	cytoplasm
F	0005829	cellular_component	cytosol
F	0006351	biological_process	DNA-templated transcription
F	0006352	biological_process	DNA-templated transcription initiation
F	0006879	biological_process	intracellular iron ion homeostasis
F	0008023	cellular_component	transcription elongation factor complex
F	0009408	biological_process	response to heat
F	0016020	cellular_component	membrane
F	0016740	molecular_function	transferase activity
F	0016779	molecular_function	nucleotidyltransferase activity
F	0031564	biological_process	transcription antitermination
F	0032784	biological_process	regulation of DNA-templated transcription elongation
F	0034062	molecular_function	5'-3' RNA polymerase activity
F	0036460	biological_process	cellular response to cell envelope stress
F	0042128	biological_process	nitrate assimilation
F	0044780	biological_process	bacterial-type flagellum assembly
F	0046983	molecular_function	protein dimerization activity
F	0048870	biological_process	cell motility
F	0071973	biological_process	bacterial-type flagellum-dependent cell motility
F	0090605	biological_process	submerged biofilm formation
F	2000142	biological_process	regulation of DNA-templated transcription initiation
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 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	0016740	molecular_function	transferase activity
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 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	0006354	biological_process	DNA-templated transcription elongation
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	0016740	molecular_function	transferase activity
H	0016779	molecular_function	nucleotidyltransferase activity
H	0031564	biological_process	transcription antitermination
H	0032549	molecular_function	ribonucleoside binding
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	0046677	biological_process	response to antibiotic
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	0003677	molecular_function	DNA binding
I	0003899	molecular_function	DNA-directed RNA polymerase activity
I	0006351	biological_process	DNA-templated transcription
J	0003677	molecular_function	DNA binding
J	0003899	molecular_function	DNA-directed RNA polymerase activity
J	0006351	biological_process	DNA-templated transcription
K	0000166	molecular_function	nucleotide binding
K	0001000	molecular_function	bacterial-type RNA polymerase core enzyme binding
K	0003676	molecular_function	nucleic acid binding
K	0003677	molecular_function	DNA binding
K	0003682	molecular_function	chromatin binding
K	0004386	molecular_function	helicase activity
K	0005515	molecular_function	protein binding
K	0005524	molecular_function	ATP binding
K	0005737	cellular_component	cytoplasm
K	0006355	biological_process	regulation of DNA-templated transcription
K	0016787	molecular_function	hydrolase activity
K	0016817	molecular_function	hydrolase activity, acting on acid anhydrides
K	0016887	molecular_function	ATP hydrolysis activity
K	0031507	biological_process	heterochromatin formation
K	0045893	biological_process	positive regulation of DNA-templated transcription
K	0045944	biological_process	positive regulation of transcription by RNA polymerase II
K	0140750	molecular_function	nucleosome array spacer activity
L	0000166	molecular_function	nucleotide binding
L	0001000	molecular_function	bacterial-type RNA polymerase core enzyme binding
L	0003676	molecular_function	nucleic acid binding
L	0003677	molecular_function	DNA binding
L	0003682	molecular_function	chromatin binding
L	0004386	molecular_function	helicase activity
L	0005515	molecular_function	protein binding
L	0005524	molecular_function	ATP binding
L	0005737	cellular_component	cytoplasm
L	0006355	biological_process	regulation of DNA-templated transcription
L	0016787	molecular_function	hydrolase activity
L	0016817	molecular_function	hydrolase activity, acting on acid anhydrides
L	0016887	molecular_function	ATP hydrolysis activity
L	0031507	biological_process	heterochromatin formation
L	0045893	biological_process	positive regulation of DNA-templated transcription
L	0045944	biological_process	positive regulation of transcription by RNA polymerase II
L	0140750	molecular_function	nucleosome array spacer activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	BINDING SITE FOR RESIDUE ZN D 1501

Chain	Residue
D	CYS70
D	CYS72
D	CYS85
D	CYS88

site_id	AC2
Number of Residues	6
Details	BINDING SITE FOR RESIDUE ZN D 1502

Chain	Residue
D	CYS898
D	CYS814
D	SER884
D	SER887
D	CYS888
D	CYS895

site_id	AC3
Number of Residues	3
Details	BINDING SITE FOR RESIDUE MG D 1503

Chain	Residue
D	ASP460
D	ASP462
P	A9

site_id	AC4
Number of Residues	5
Details	BINDING SITE FOR RESIDUE ZN I 1501

Chain	Residue
I	CYS72
I	CYS85
I	LYS87
I	CYS88
K	GLU76

site_id	AC5
Number of Residues	6
Details	BINDING SITE FOR RESIDUE ZN I 1502

Chain	Residue
I	CYS814
I	SER887
I	CYS888
I	THR890
I	CYS895
I	CYS898

site_id	AC6
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG I 1503

Chain	Residue
I	ASP460
I	ASP462
I	ASP464
N	A9

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

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	12
Details	Region: {"description":"Required for interaction with Crp at class II promoters"}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	4
Details	Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"18723842","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	340
Details	Domain: {"description":"Helicase ATP-binding"}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	344
Details	Domain: {"description":"Helicase C-terminal"}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	6
Details	Motif: {"description":"DEAH box"}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	14
Details	Binding site: {"evidences":[{"evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

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