1ZNS: N-ColE7/12-bp DNA/Zn complex

Crystal structure of N-ColE7/12-bp DNA/Zn complex. Determined by X-ray diffraction at 2.5 Å resolution. Released 14 Mar 2006.

Method: X-ray diffraction
Resolution: 2.5 Å
Organism: Escherichia coli str. K12 substr.
Chains: 3
Atoms: 1,482
Mol. weight: 22.79 kDa
Ligands: ZN
Released: 14 Mar 2006

Explore 1ZNS in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

1ZNS contains 8 α-helices and 11 β-strands across 1 chain. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 8 helices, 11 β-strands

Element	Residues	Length	Sheet
β-strand	451-452	2	1
β-strand	454	1	2
β-strand	474-475	2	3
α-helix	478-484	7
β-strand	488-489	2	1
α-helix	492-505	14
α-helix	507-510	4
α-helix	515-522	8
α-helix	525-527	3
β-strand	528	1	4
α-helix	529-530	2
α-helix	531-533	3
β-strand	535	1	5
β-strand	538	1	5
β-strand	540	1	4
β-strand	542-545	4	3
β-strand	557	1	2
β-strand	561-564	4	3
α-helix	566-573	8

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
5'-d(cpgpgpgpaptpaptpcpcpcpg)-3'	B, C	DNA	12
Colicin E7	A	protein	134	Escherichia coli str. K12 substr.	Q47112 (AlphaFold model)

Sequence of entity 1 (B, C), FASTA

>1ZNS_1 5'-D(*CP*GP*GP*GP*AP*TP*AP*TP*CP*CP*CP*G)-3' (chains B, C)
CGGGATATCCCG

Sequence of entity 2 (A), FASTA

>1ZNS_2 Colicin E7 (chains A)
MESKRNKPGKATGKGKPVNNKWLNNAGKDLGSPVPDRIANKLRDKEFKSFDDFRKKFWEE
VSKDPELSKQFSRNNNDRMKVGKAPKTRTQDVSGKRTSFELHEEKPISQNGGVYDMDNIS
VVTPKRHIDIHRGK

Ligands and cofactors

ID	Name	Formula	Copies
ZN	Zinc ion	Zn	1

Primary citation

Crystal structural analysis and metal-dependent stability and activity studies of the ColE7 endonuclease domain in complex with DNA/Zn2+ or inhibitor/Ni2+. Doudeva, L.G., Huang, H., Hsia, K.C. et al. Protein Sci (2006) 15:269-280. DOI 10.1110/ps.051903406 · PubMed

Other PDB entries of the same protein (UniProt Q47112 (AlphaFold model), which also has an AlphaFold model), best resolution first:

2AXC 1.7 Å, Crystal structure of ColE7 translocation domain
3ZFK 1.7 Å, N-terminal truncated Nuclease Domain of Colicin E7
2JB0 1.91 Å, Crystal structure of the mutant H573A of the nuclease domain of COLE7 in complex with IM7
1MZ8 2.0 Å, Crystal structures of the nuclease domain of COLE7/IM7 in complex with a phosphate ion…
1ZNV 2.0 Å, How a His-metal finger endonuclease ColE7 binds and cleaves DNA with a transition metal…
2ERH 2.0 Å, Crystal Structure of the E7_G/Im7_G complex; a designed interface between the colicin E7…
2JAZ 2.03 Å, Crystal structure of the mutant N560D of the nuclease domain of COLE7 in complex with IM7
1M08 2.1 Å, Crystal structure of the unbound nuclease domain of ColE7
1UJZ 2.1 Å, Crystal structure of the E7_C/Im7_C complex; a computationally designed interface…
2JBG 2.2 Å, crystal structure of the mutant N560A of the nuclease domain of ColE7 in complex with Im7
3GKL 2.2 Å, Following evolutionary paths to high affinity and selectivity protein-protein…
7CEI 2.3 Å, The endonuclease domain of colicin E7 in complex with its inhibitor IM7 protein

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