Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

5MS0

pseudo-atomic model of the RNA polymerase lambda-based antitermination complex solved by cryo-EM

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	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 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	0000049	molecular_function	tRNA binding
E	0001072	molecular_function	transcription antitermination factor activity, RNA binding
E	0002181	biological_process	cytoplasmic translation
E	0003723	molecular_function	RNA binding
E	0003735	molecular_function	structural constituent of ribosome
E	0005515	molecular_function	protein binding
E	0005737	cellular_component	cytoplasm
E	0005829	cellular_component	cytosol
E	0005840	cellular_component	ribosome
E	0006412	biological_process	translation
E	0008023	cellular_component	transcription elongation factor complex
E	0015935	cellular_component	small ribosomal subunit
E	0022627	cellular_component	cytosolic small ribosomal subunit
E	0031564	biological_process	transcription antitermination
E	0032784	biological_process	regulation of DNA-templated transcription elongation
E	0042254	biological_process	ribosome biogenesis
E	1990904	cellular_component	ribonucleoprotein complex
F	0005515	molecular_function	protein binding
F	0005829	cellular_component	cytosol
F	0006353	biological_process	DNA-templated transcription termination
F	0006354	biological_process	DNA-templated transcription elongation
F	0008023	cellular_component	transcription elongation factor complex
F	0031564	biological_process	transcription antitermination
F	0032784	biological_process	regulation of DNA-templated transcription elongation
F	0042254	biological_process	ribosome biogenesis
L	0003723	molecular_function	RNA binding
L	0005515	molecular_function	protein binding
L	0005829	cellular_component	cytosol
L	0006353	biological_process	DNA-templated transcription termination
L	0006355	biological_process	regulation of DNA-templated transcription
L	0008023	cellular_component	transcription elongation factor complex
L	0031564	biological_process	transcription antitermination
L	0032784	biological_process	regulation of DNA-templated transcription elongation
L	0042254	biological_process	ribosome biogenesis
M	0000166	molecular_function	nucleotide binding
M	0001000	molecular_function	bacterial-type RNA polymerase core enzyme binding
M	0003676	molecular_function	nucleic acid binding
M	0003700	molecular_function	DNA-binding transcription factor activity
M	0003723	molecular_function	RNA binding
M	0005515	molecular_function	protein binding
M	0005737	cellular_component	cytoplasm
M	0005829	cellular_component	cytosol
M	0006353	biological_process	DNA-templated transcription termination
M	0008023	cellular_component	transcription elongation factor complex
M	0019904	molecular_function	protein domain specific binding
M	0031554	biological_process	regulation of termination of DNA-templated transcription
M	0031564	biological_process	transcription antitermination
M	0032784	biological_process	regulation of DNA-templated transcription elongation
M	0042254	biological_process	ribosome biogenesis
M	0051259	biological_process	protein complex oligomerization
O	0000345	cellular_component	cytosolic DNA-directed RNA polymerase complex
O	0000428	cellular_component	DNA-directed RNA polymerase complex
O	0001000	molecular_function	bacterial-type RNA polymerase core enzyme binding
O	0003677	molecular_function	DNA binding
O	0003899	molecular_function	DNA-directed RNA polymerase activity
O	0005829	cellular_component	cytosol
O	0006351	biological_process	DNA-templated transcription
O	0006352	biological_process	DNA-templated transcription initiation
O	0006879	biological_process	intracellular iron ion homeostasis
O	0008023	cellular_component	transcription elongation factor complex
O	0009408	biological_process	response to heat
O	0016740	molecular_function	transferase activity
O	0016779	molecular_function	nucleotidyltransferase activity
O	0030880	cellular_component	RNA polymerase complex
O	0031564	biological_process	transcription antitermination
O	0032784	biological_process	regulation of DNA-templated transcription elongation
O	0034062	molecular_function	5'-3' RNA polymerase activity
O	0036460	biological_process	cellular response to cell envelope stress
O	0042128	biological_process	nitrate assimilation
O	0044780	biological_process	bacterial-type flagellum assembly
O	0048870	biological_process	cell motility
O	0065003	biological_process	protein-containing complex assembly
O	0071973	biological_process	bacterial-type flagellum-dependent cell motility
O	0090605	biological_process	submerged biofilm formation
O	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	ASP464
H	C20

site_id	AC2
Number of Residues	2
Details	binding site for residue ZN D 1502

Chain	Residue
D	CYS72
D	CYS88

site_id	AC3
Number of Residues	2
Details	binding site for residue ZN D 1503

Chain	Residue
D	CYS888
D	CYS898

Functional Information from PROSITE/UniProt

site_id	PS00361
Number of Residues	16
Details	RIBOSOMAL_S10 Ribosomal protein S10 signature. AkrtGAqvrGPIpLPT

Chain	Residue	Details
E	ALA29-THR44

site_id	PS01014
Number of Residues	10
Details	NUSG Transcription termination factor nusG signature. IFGRaTPVeL

Chain	Residue	Details
F	ILE164-LEU173

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	468
Details	Region: {"description":"Alpha N-terminal domain (alpha-NTD)"}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	6
Details	Region: {"description":"Required for interaction with Crp at class II promoters"}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	2
Details	Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"18723842","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	11
Details	Binding site: {"evidences":[{"source":"PubMed","id":"32871103","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4MEX","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4MEY","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	1
Details	Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"HAMAP-Rule","id":"MF_01322","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"18723842","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	31
Details	Domain: {"description":"KOW","evidences":[{"source":"HAMAP-Rule","id":"MF_00948","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI7
Number of Residues	65
Details	Domain: {"description":"S1 motif","evidences":[{"source":"HAMAP-Rule","id":"MF_00945","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI8
Number of Residues	63
Details	Domain: {"description":"KH 1","evidences":[{"source":"HAMAP-Rule","id":"MF_00945","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI9
Number of Residues	66
Details	Domain: {"description":"KH 2","evidences":[{"source":"HAMAP-Rule","id":"MF_00945","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI10
Number of Residues	50
Details	Repeat: {"description":"1"}

Chain

Residue

Details

site_id	SWS_FT_FI11
Number of Residues	136
Details	Region: {"description":"N-terminal domain (NTD) interacts with RNAP","evidences":[{"source":"PubMed","id":"21922055","evidenceCode":"ECO:0000305"}]}

Chain

Residue

Details

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