Het-PDB Navi2 (PDB: 4JK2)

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Ligands
Code	Name		Style	Show	Link
ZN	Zinc ion				PoSSuM
0O2	Guanosine 5'-(tetrahydrogen triphosphate) 3'-(trihydrogen diphosphate)				PoSSuM

Non-standard Residues
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Glycosylation
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Download interaction data: 4JK2

Code :

4JK2 PDBj RCSB PDB PDBe

Header :

TRANSCRIPTION, TRANSFERASE

Title :

X-ray crystal structure of Escherichia coli sigma70 holoenzyme in complex with guanosine pentaphosphate (pppGpp)

Release Data :

2013-04-17

Compound :

mol_id	molecule	chains	synonym
1	Escherichia coli RNA polymerase alpha subunit	A,B,F,G	RNAP subunit alpha, RNA polymerase subunit alpha, Transcriptase subunit alpha
	ec: 2.7.7.6

mol_id	molecule	chains	synonym
2	Escherichia coli RNA polymerase beta subunit	C,H	RNAP subunit beta, RNA polymerase subunit beta, Transcriptase subunit beta
	ec: 2.7.7.6

mol_id	molecule	chains	synonym
3	Escherichia coli RNA polymerase beta' subunit	D,I	RNAP subunit beta', RNA polymerase subunit beta', Transcriptase subunit beta'
	ec: 2.7.7.6

mol_id	molecule	chains	synonym
4	Escherichia coli RNA polymerase omega subunit	E,J	RNAP omega subunit, RNA polymerase omega subunit, Transcriptase subunit omega
	ec: 2.7.7.6

mol_id	molecule	chains	synonym
5	Escherichia coli RNA polymerase sigma70 subunit	X,Y	Sigma-70

Source :

mol_id	organism_scientific	expression_system
1	Escherichia coli (taxid:83333)	Escherichia coli (taxid:469008)
	strain: K12 gene: rpoA, pez, phs, sez, b3295, JW3257 expression_system_strain: BL21(DE3) expression_system_vector_type: plasmid expression_system_plasmid: pGEMABC

mol_id	organism_scientific	expression_system
2	Escherichia coli (taxid:83333)	Escherichia coli (taxid:469008)
	strain: K12 gene: rpoB, groN, nitB, rif, ron, stl, stv, tabD, b3987, JW3950 expression_system_strain: BL21(DE3) expression_system_vector_type: plasmid expression_system_plasmid: pGEMABC

mol_id	organism_scientific	expression_system
3	Escherichia coli (taxid:83333)	Escherichia coli (taxid:469008)
	strain: K12 gene: rpoC, tabB, b3988, JW3951 expression_system_strain: BL21(DE3) expression_system_vector_type: plasmid expression_system_plasmid: pGEMABC

mol_id	organism_scientific	expression_system
4	Escherichia coli (taxid:1110693)	Escherichia coli (taxid:469008)
	strain: K-12 substr. MDS42 gene: rpoZ, ECMDS42_3083 expression_system_strain: BL21(DE3) expression_system_vector_type: plasmid

mol_id	organism_scientific	expression_system
5	Escherichia coli (taxid:83333)	Escherichia coli (taxid:469008)
	strain: K12 gene: rpoD, alt, b3067, JW3039 expression_system_strain: BL21(DE3) expression_system_vector_type: plasmid expression_system_plasmid: pGEMD

Authors :

Murakami, K.S.

Keywords :

transcription, DNA, TRANSFERASE

Exp. method :

X-RAY DIFFRACTION ( 4.201 Å )

Citation :

Differential regulation by ppGpp versus pppGpp in Escherichia coli.

Mechold, U.,Potrykus, K.,Murphy, H. et al.
(2013) Nucleic Acids Res. 41 : 6175 - 6189

PubMed: 23620295
DOI: 10.1093/nar/gkt302

Chain :

A, B, F, G

UniProt :

P0A7Z4 (RPOA_ECOLI)

Reaction:	EC:	Evidence:
Reaction:	Physiological Direction:	Evidence:
RNA(n) + a ribonucleoside 5'-triphosphate = RNA(n+1) + diphosphate	2.7.7.6	-
	-	-

Chain :

C, H

UniProt :

P0A8V2 (RPOB_ECOLI)

Reaction:	EC:	Evidence:
Reaction:	Physiological Direction:	Evidence:
RNA(n) + a ribonucleoside 5'-triphosphate = RNA(n+1) + diphosphate	2.7.7.6	-
	-	-

Chain :

D, I

UniProt :

P0A8T7 (RPOC_ECOLI)

Reaction:	EC:	Evidence:
Reaction:	Physiological Direction:	Evidence:
RNA(n) + a ribonucleoside 5'-triphosphate = RNA(n+1) + diphosphate	2.7.7.6	HAMAP-Rule:MF_01322
	-	HAMAP-Rule:MF_01322
Cofactor:	Evidence:	Note:
Mg(2+)	ECO:0000269 \| PubMed:24843001 ECO:0000269 \| PubMed:32871103 ECO:0007744 \| PDB:4MEX ECO:0007744 \| PDB:4MEY	Binds 1 Mg(2+) ion per subunit.
Zn(2+)	ECO:0000269 \| PubMed:24843001 ECO:0000269 \| PubMed:32871103 ECO:0007744 \| PDB:4MEX ECO:0007744 \| PDB:4MEY	Binds 2 Zn(2+) ions per subunit.

Chain :	E, J
UniProt :	H0QDQ9
Reaction :	-

Chain :	X, Y
UniProt :	P00579 (RPOD_ECOLI)
Reaction :	-

PDB ID: 4JK2

Hetero Atom Contents

Structure summary

Reaction