Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

4V8S

Archaeal RNAP-DNA binary complex at 4.32Ang

This is a non-PDB format compatible entry.

Functional Information from GO Data

Chain	GOid	namespace	contents
AI	0000428	cellular_component	DNA-directed RNA polymerase complex
AI	0003677	molecular_function	DNA binding
AI	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
AI	0005737	cellular_component	cytoplasm
AI	0006351	biological_process	DNA-templated transcription
AI	0016779	molecular_function	nucleotidyltransferase activity
AI	0034062	molecular_function	5'-3' RNA polymerase activity
AJ	0000428	cellular_component	DNA-directed RNA polymerase complex
AJ	0003677	molecular_function	DNA binding
AJ	0005737	cellular_component	cytoplasm
AJ	0016779	molecular_function	nucleotidyltransferase activity
AJ	0070063	molecular_function	RNA polymerase binding
AM	0000428	cellular_component	DNA-directed RNA polymerase complex
AM	0003677	molecular_function	DNA binding
AM	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
AM	0005737	cellular_component	cytoplasm
AM	0006351	biological_process	DNA-templated transcription
AM	0016779	molecular_function	nucleotidyltransferase activity
AM	0034062	molecular_function	5'-3' RNA polymerase activity
AM	0046983	molecular_function	protein dimerization activity
AO	0000428	cellular_component	DNA-directed RNA polymerase complex
AO	0003677	molecular_function	DNA binding
AO	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
AO	0005737	cellular_component	cytoplasm
AO	0006351	biological_process	DNA-templated transcription
AO	0008270	molecular_function	zinc ion binding
AO	0016779	molecular_function	nucleotidyltransferase activity
AO	0034062	molecular_function	5'-3' RNA polymerase activity
AO	0046872	molecular_function	metal ion binding
AR	0000428	cellular_component	DNA-directed RNA polymerase complex
AR	0003677	molecular_function	DNA binding
AR	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
AR	0005737	cellular_component	cytoplasm
AR	0006351	biological_process	DNA-templated transcription
AR	0008270	molecular_function	zinc ion binding
AR	0016779	molecular_function	nucleotidyltransferase activity
AR	0032549	molecular_function	ribonucleoside binding
AR	0034062	molecular_function	5'-3' RNA polymerase activity
AR	0046872	molecular_function	metal ion binding
AS	0000428	cellular_component	DNA-directed RNA polymerase complex
AS	0003677	molecular_function	DNA binding
AS	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
AS	0005737	cellular_component	cytoplasm
AS	0006351	biological_process	DNA-templated transcription
AS	0016779	molecular_function	nucleotidyltransferase activity
AS	0034062	molecular_function	5'-3' RNA polymerase activity
AS	0046872	molecular_function	metal ion binding
AS	0046983	molecular_function	protein dimerization activity
AS	0051536	molecular_function	iron-sulfur cluster binding
AS	0051538	molecular_function	3 iron, 4 sulfur cluster binding
AT	0000428	cellular_component	DNA-directed RNA polymerase complex
AT	0003676	molecular_function	nucleic acid binding
AT	0003677	molecular_function	DNA binding
AT	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
AT	0005737	cellular_component	cytoplasm
AT	0006351	biological_process	DNA-templated transcription
AT	0006352	biological_process	DNA-templated transcription initiation
AT	0016779	molecular_function	nucleotidyltransferase activity
AU	0000166	molecular_function	nucleotide binding
AU	0000428	cellular_component	DNA-directed RNA polymerase complex
AU	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
AU	0005737	cellular_component	cytoplasm
AU	0006351	biological_process	DNA-templated transcription
AU	0006352	biological_process	DNA-templated transcription initiation
AU	0016779	molecular_function	nucleotidyltransferase activity
AU	0030880	cellular_component	RNA polymerase complex
AU	0044237	biological_process	cellular metabolic process
AV	0000428	cellular_component	DNA-directed RNA polymerase complex
AV	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
AV	0005737	cellular_component	cytoplasm
AV	0006351	biological_process	DNA-templated transcription
AV	0016779	molecular_function	nucleotidyltransferase activity
AW	0000287	molecular_function	magnesium ion binding
AW	0000428	cellular_component	DNA-directed RNA polymerase complex
AW	0003677	molecular_function	DNA binding
AW	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
AW	0005737	cellular_component	cytoplasm
AW	0006351	biological_process	DNA-templated transcription
AW	0008270	molecular_function	zinc ion binding
AW	0016779	molecular_function	nucleotidyltransferase activity
AW	0034062	molecular_function	5'-3' RNA polymerase activity
AW	0046872	molecular_function	metal ion binding
AX	0000428	cellular_component	DNA-directed RNA polymerase complex
AX	0003677	molecular_function	DNA binding
AX	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
AX	0005737	cellular_component	cytoplasm
AX	0006351	biological_process	DNA-templated transcription
AX	0008270	molecular_function	zinc ion binding
AX	0016779	molecular_function	nucleotidyltransferase activity
AX	0034062	molecular_function	5'-3' RNA polymerase activity
AX	0046872	molecular_function	metal ion binding
AY	0000428	cellular_component	DNA-directed RNA polymerase complex
AY	0003677	molecular_function	DNA binding
AY	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
AY	0005737	cellular_component	cytoplasm
AY	0006351	biological_process	DNA-templated transcription
AY	0016779	molecular_function	nucleotidyltransferase activity
AY	0034062	molecular_function	5'-3' RNA polymerase activity
AZ	0000428	cellular_component	DNA-directed RNA polymerase complex
AZ	0001054	molecular_function	RNA polymerase I activity
AZ	0001055	molecular_function	RNA polymerase II activity
AZ	0001056	molecular_function	RNA polymerase III activity
AZ	0003677	molecular_function	DNA binding
AZ	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
AZ	0005737	cellular_component	cytoplasm
AZ	0006351	biological_process	DNA-templated transcription
AZ	0006360	biological_process	transcription by RNA polymerase I
AZ	0006366	biological_process	transcription by RNA polymerase II
AZ	0006383	biological_process	transcription by RNA polymerase III
AZ	0016779	molecular_function	nucleotidyltransferase activity
AZ	0034062	molecular_function	5'-3' RNA polymerase activity
BA	0000287	molecular_function	magnesium ion binding
BA	0000428	cellular_component	DNA-directed RNA polymerase complex
BA	0003677	molecular_function	DNA binding
BA	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
BA	0005737	cellular_component	cytoplasm
BA	0006351	biological_process	DNA-templated transcription
BA	0008270	molecular_function	zinc ion binding
BA	0016779	molecular_function	nucleotidyltransferase activity
BA	0034062	molecular_function	5'-3' RNA polymerase activity
BA	0046872	molecular_function	metal ion binding
BB	0000428	cellular_component	DNA-directed RNA polymerase complex
BB	0003677	molecular_function	DNA binding
BB	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
BB	0005737	cellular_component	cytoplasm
BB	0006351	biological_process	DNA-templated transcription
BB	0008270	molecular_function	zinc ion binding
BB	0016779	molecular_function	nucleotidyltransferase activity
BB	0032549	molecular_function	ribonucleoside binding
BB	0034062	molecular_function	5'-3' RNA polymerase activity
BB	0046872	molecular_function	metal ion binding
BC	0000428	cellular_component	DNA-directed RNA polymerase complex
BC	0003677	molecular_function	DNA binding
BC	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
BC	0005737	cellular_component	cytoplasm
BC	0006351	biological_process	DNA-templated transcription
BC	0016779	molecular_function	nucleotidyltransferase activity
BC	0034062	molecular_function	5'-3' RNA polymerase activity
BD	0000428	cellular_component	DNA-directed RNA polymerase complex
BD	0003677	molecular_function	DNA binding
BD	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
BD	0005737	cellular_component	cytoplasm
BD	0006351	biological_process	DNA-templated transcription
BD	0016779	molecular_function	nucleotidyltransferase activity
BD	0034062	molecular_function	5'-3' RNA polymerase activity
BD	0046872	molecular_function	metal ion binding
BD	0046983	molecular_function	protein dimerization activity
BD	0051536	molecular_function	iron-sulfur cluster binding
BD	0051538	molecular_function	3 iron, 4 sulfur cluster binding
BE	0000428	cellular_component	DNA-directed RNA polymerase complex
BE	0003676	molecular_function	nucleic acid binding
BE	0003677	molecular_function	DNA binding
BE	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
BE	0005737	cellular_component	cytoplasm
BE	0006351	biological_process	DNA-templated transcription
BE	0006352	biological_process	DNA-templated transcription initiation
BE	0016779	molecular_function	nucleotidyltransferase activity
BF	0000166	molecular_function	nucleotide binding
BF	0000428	cellular_component	DNA-directed RNA polymerase complex
BF	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
BF	0005737	cellular_component	cytoplasm
BF	0006351	biological_process	DNA-templated transcription
BF	0006352	biological_process	DNA-templated transcription initiation
BF	0016779	molecular_function	nucleotidyltransferase activity
BF	0030880	cellular_component	RNA polymerase complex
BF	0044237	biological_process	cellular metabolic process
BG	0000428	cellular_component	DNA-directed RNA polymerase complex
BG	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
BG	0005737	cellular_component	cytoplasm
BG	0006351	biological_process	DNA-templated transcription
BG	0016779	molecular_function	nucleotidyltransferase activity
BH	0000428	cellular_component	DNA-directed RNA polymerase complex
BH	0001054	molecular_function	RNA polymerase I activity
BH	0001055	molecular_function	RNA polymerase II activity
BH	0001056	molecular_function	RNA polymerase III activity
BH	0003677	molecular_function	DNA binding
BH	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
BH	0005737	cellular_component	cytoplasm
BH	0006351	biological_process	DNA-templated transcription
BH	0006360	biological_process	transcription by RNA polymerase I
BH	0006366	biological_process	transcription by RNA polymerase II
BH	0006383	biological_process	transcription by RNA polymerase III
BH	0016779	molecular_function	nucleotidyltransferase activity
BH	0034062	molecular_function	5'-3' RNA polymerase activity
BK	0000428	cellular_component	DNA-directed RNA polymerase complex
BK	0003677	molecular_function	DNA binding
BK	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
BK	0005737	cellular_component	cytoplasm
BK	0006351	biological_process	DNA-templated transcription
BK	0016779	molecular_function	nucleotidyltransferase activity
BK	0034062	molecular_function	5'-3' RNA polymerase activity
BL	0000428	cellular_component	DNA-directed RNA polymerase complex
BL	0003677	molecular_function	DNA binding
BL	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
BL	0005737	cellular_component	cytoplasm
BL	0006351	biological_process	DNA-templated transcription
BL	0016779	molecular_function	nucleotidyltransferase activity
BL	0034062	molecular_function	5'-3' RNA polymerase activity
BL	0046983	molecular_function	protein dimerization activity
BN	0000428	cellular_component	DNA-directed RNA polymerase complex
BN	0003677	molecular_function	DNA binding
BN	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
BN	0005737	cellular_component	cytoplasm
BN	0006351	biological_process	DNA-templated transcription
BN	0008270	molecular_function	zinc ion binding
BN	0016779	molecular_function	nucleotidyltransferase activity
BN	0034062	molecular_function	5'-3' RNA polymerase activity
BN	0046872	molecular_function	metal ion binding
BP	0000428	cellular_component	DNA-directed RNA polymerase complex
BP	0003677	molecular_function	DNA binding
BP	0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity
BP	0005737	cellular_component	cytoplasm
BP	0006351	biological_process	DNA-templated transcription
BP	0008270	molecular_function	zinc ion binding
BP	0016779	molecular_function	nucleotidyltransferase activity
BP	0034062	molecular_function	5'-3' RNA polymerase activity
BP	0046872	molecular_function	metal ion binding
BQ	0000428	cellular_component	DNA-directed RNA polymerase complex
BQ	0003677	molecular_function	DNA binding
BQ	0005737	cellular_component	cytoplasm
BQ	0016779	molecular_function	nucleotidyltransferase activity
BQ	0070063	molecular_function	RNA polymerase binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	binding site for residue ZN AO 100

Chain	Residue
AO	CYS7
AO	CYS10
AO	CYS44
AO	CYS45

site_id	AC2
Number of Residues	4
Details	binding site for residue ZN AR 1300

Chain	Residue
AR	CYS1064
AR	CYS1067
AR	CYS1082
AR	HIS1085

site_id	AC3
Number of Residues	12
Details	binding site for residue SF4 AS 1001

Chain	Residue
AS	PRO184
AS	GLU185
AS	VAL187
AS	PHE188
AS	ALA202
AS	CYS203
AS	THR204
AS	LEU205
AS	CYS206
AS	GLU207
AS	CYS209
AS	CYS183

site_id	AC4
Number of Residues	4
Details	binding site for residue ZN AW 901

Chain	Residue
AW	CYS58
AW	CYS61
AW	CYS68
AW	HIS71

site_id	AC5
Number of Residues	4
Details	binding site for residue ZN AW 902

Chain	Residue
AW	CYS98
AW	CYS101
AW	CYS146
AW	CYS149

site_id	AC6
Number of Residues	3
Details	binding site for residue ZN AW 903

Chain	Residue
AW	HIS426
AW	THR488
AY	GLU80

site_id	AC7
Number of Residues	3
Details	binding site for residue MG AW 904

Chain	Residue
AW	ASP456
AW	ASP458
AW	ASP460

site_id	AC8
Number of Residues	5
Details	binding site for residue ZN AX 101

Chain	Residue
AX	CYS9
AX	THR12
AX	CYS26
AX	TYR28
AX	CYS29

site_id	AC9
Number of Residues	4
Details	binding site for residue ZN BA 901

Chain	Residue
BA	CYS58
BA	CYS61
BA	CYS68
BA	HIS71

site_id	AD1
Number of Residues	4
Details	binding site for residue ZN BA 902

Chain	Residue
BA	CYS98
BA	CYS101
BA	CYS146
BA	CYS149

site_id	AD2
Number of Residues	3
Details	binding site for residue ZN BA 903

Chain	Residue
BA	HIS426
BA	THR488
BC	GLU80

site_id	AD3
Number of Residues	3
Details	binding site for residue MG BA 904

Chain	Residue
BA	ASP456
BA	ASP458
BA	ASP460

site_id	AD4
Number of Residues	4
Details	binding site for residue ZN BB 1300

Chain	Residue
BB	CYS1064
BB	CYS1067
BB	CYS1082
BB	HIS1085

site_id	AD5
Number of Residues	12
Details	binding site for residue SF4 BD 1001

Chain	Residue
BD	CYS183
BD	PRO184
BD	GLU185
BD	VAL187
BD	PHE188
BD	ALA202
BD	CYS203
BD	THR204
BD	LEU205
BD	CYS206
BD	GLU207
BD	CYS209

site_id	AD6
Number of Residues	4
Details	binding site for residue ZN BN 100

Chain	Residue
BN	CYS7
BN	CYS10
BN	CYS44
BN	CYS45

site_id	AD7
Number of Residues	5
Details	binding site for residue ZN BP 101

Chain	Residue
BP	CYS9
BP	THR12
BP	CYS26
BP	TYR28
BP	CYS29

Functional Information from PROSITE/UniProt

site_id	PS00446
Number of Residues	41
Details	RNA_POL_D_30KD RNA polymerases D / 30 to 40 Kd subunits signature. NAIRRaamlyvpvmSiddVyfieNnSplyDEiLAhRLALIP

Chain	Residue	Details
AS	ASN26-PRO66

site_id	PS01110
Number of Residues	14
Details	RNA_POL_H_23KD RNA polymerases H / 23 Kd subunits signature. HYLVPKHevLsiDE

Chain	Residue	Details
AZ	HIS14-GLU27

site_id	PS01111
Number of Residues	15
Details	RNA_POL_K_14KD RNA polymerases K / 14 to 18 Kd subunits signature. TrYEiARvISaRAlQ

Chain	Residue	Details
AI	THR28-GLN42

site_id	PS01112
Number of Residues	10
Details	RNA_POL_N_8KD RNA polymerases N / 8 Kd subunits signature. MIPIrCFTCG

Chain	Residue	Details
AO	MET2-GLY11

site_id	PS01154
Number of Residues	32
Details	RNA_POL_L_13KD RNA polymerases L / 13 to 16 Kd subunits signature. IegEdHTLgNlIagtLrkisgVsfasYyqpHP

Chain	Residue	Details
AM	ILE17-PRO48

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

Chain	Residue	Details
AR	GLY878-VAL890

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	12
Details	BINDING: BINDING => ECO:0000305\|PubMed:22848102

Chain	Residue	Details
AY	GLU109
BC	LYS221
BC	GLN328
BC	GLU348
AY	LYS148
AY	LYS192
AY	LYS221
AY	GLN328
AY	GLU348
BC	GLU109
BC	LYS148
BC	LYS192

site_id	SWS_FT_FI2
Number of Residues	2
Details	BINDING: BINDING => ECO:0000269\|PubMed:19419240, ECO:0007744\|PDB:2WAQ, ECO:0007744\|PDB:2WB1, ECO:0007744\|PDB:2Y0S, ECO:0007744\|PDB:4AYB, ECO:0007744\|PDB:4V8S

Chain	Residue	Details
AX	THR12
BP	THR12
BA	CYS68
BA	HIS71
BB	CYS1067
BB	CYS1082

site_id	SWS_FT_FI3
Number of Residues	4
Details	BINDING: BINDING => ECO:0000255\|HAMAP-Rule:MF_00615, ECO:0000269\|PubMed:19419240, ECO:0007744\|PDB:2WAQ, ECO:0007744\|PDB:2WB1, ECO:0007744\|PDB:2Y0S, ECO:0007744\|PDB:4AYB, ECO:0007744\|PDB:4V8S

Chain	Residue	Details
AX	CYS26
BA	LYS88
BA	GLU92
BA	LYS138
BA	LYS303
BA	LYS305
BA	ARG323
BA	GLN422
BA	ARG812
BA	GLN815
AX	CYS29
BP	CYS26
BP	CYS29
AW	LYS305
AW	ARG323
AW	GLN422
AW	ARG812
AW	GLN815

site_id	SWS_FT_FI4
Number of Residues	4
Details	BINDING: BINDING => ECO:0000255\|HAMAP-Rule:MF_00863, ECO:0000269\|PubMed:19419240, ECO:0007744\|PDB:2WAQ, ECO:0007744\|PDB:2Y0S, ECO:0007744\|PDB:4AYB, ECO:0007744\|PDB:4V8S

Chain	Residue	Details
AW	CYS98
AW	CYS101
BA	CYS98
BA	CYS101

site_id	SWS_FT_FI5
Number of Residues	2
Details	BINDING: BINDING => ECO:0000255\|HAMAP-Rule:MF_00863, ECO:0000269\|PubMed:19419240, ECO:0007744\|PDB:2WAQ, ECO:0007744\|PDB:2Y0S, ECO:0007744\|PDB:4AYB

Chain	Residue	Details
AW	CYS146
BA	CYS146

site_id	SWS_FT_FI6
Number of Residues	2
Details	BINDING: BINDING => ECO:0000255\|HAMAP-Rule:MF_00863, ECO:0007744\|PDB:4AYB, ECO:0007744\|PDB:4V8S

Chain	Residue	Details
AW	CYS149
BA	CYS149

site_id	SWS_FT_FI7
Number of Residues	6
Details	BINDING: BINDING => ECO:0000255\|HAMAP-Rule:MF_00863, ECO:0000269\|PubMed:19419240, ECO:0007744\|PDB:2WAQ, ECO:0007744\|PDB:2WB1, ECO:0007744\|PDB:2Y0S, ECO:0007744\|PDB:4AYB, ECO:0007744\|PDB:4V8S

Chain	Residue	Details
AW	ASP456
AW	ASP458
AW	ASP460
BA	ASP456
BA	ASP458
BA	ASP460

site_id	SWS_FT_FI8
Number of Residues	8
Details	BINDING: BINDING => ECO:0000250\|UniProtKB:P11512

Chain	Residue	Details
AW	ARG573
AW	CYS575
AW	CYS580
AW	HIS582
BA	ARG573
BA	CYS575
BA	CYS580
BA	HIS582

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