6OT4: Soluble cytochrome b562

Bimetallic dodecameric cage design 2 (BMC2) from cytochrome cb562. Determined by X-ray diffraction at 1.4 Å resolution. Released 29 Jan 2020.

Method: X-ray diffraction
Resolution: 1.4 Å
Organism: Escherichia coli
Chains: 4
Atoms: 4,532
Mol. weight: 50.69 kDa
Ligands: ZN, FE, HAE, HEC
Released: 29 Jan 2020

Explore 6OT4 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6OT4 contains 24 α-helices and 0 β-strands across 4 chains. 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.

Chains A, B, C and D: 6 helices, 0 β-strands

Element	Residues	Length
α-helix	3-19	17
α-helix	23-40	18
α-helix	46-48	3
α-helix	56-80	25
α-helix	84-93	10
α-helix	95-105	11

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Soluble cytochrome b562	A, B, C, D	protein	106	Escherichia coli	P0ABE7 (AlphaFold model)

Sequence of entity 1 (A, B, C, D), FASTA

>6OT4_1 Soluble cytochrome b562 (chains A, B, C, D)
ADLEDNMHTLNDNLKVIEKADNATTVKDALTKMQAAAQDAWSATPPKLEDKSPDSPEMSD
FRCGFWELIGQINAALHLAKQCKVKEAQAAAEQLKTTCNACHQKYR

Ligands and cofactors

ID	Name	Formula	Copies
ZN	Zinc ion	Zn	6
FE	FE (III) ion	Fe	4
HAE	Acetohydroxamic acid	C2 H5 N O2	8
HEC	Heme C	C34 H36 Fe N4 O4	4

Primary citation

Constructing protein polyhedra via orthogonal chemical interactions. Golub, E., Subramanian, R.H., Esselborn, J. et al. Nature (2020) 578:172-176. DOI 10.1038/s41586-019-1928-2 · PubMed

Other PDB entries of the same protein (UniProt P0ABE7 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6DYF 1.1 Å, Cu(II)-bound structure of the engineered cyt cb562 variant, CH3Y
5YO6 1.2 Å, Crystal Structure of B562RIL with engineered disulfide bond T9C-A36C
4JEA 1.22 Å, Crystal structure of an engineered Zn-RIDC1 construct with four interfacial disulfide…
7LSJ 1.26 Å, Cu-bound crystal structure of the engineered cyt cb562 variant, DiCyt2 - H63A,…
7MK4 1.27 Å, Co-bound crystal structure of the engineered cyt cb562 variant, DiCyt2
6DYC 1.33 Å, Co(II)-bound structure of the engineered cyt cb562 variant, CH3
5YO4 1.37 Å, Crystal Structure of B562RIL with engineered disulfide bond K27C-A79C
256B 1.4 Å, Improvement of the 2.5 Å resolution model of cytochrome B562 by redetermining the…
7LRV 1.4 Å, Ni-bound crystal structure of the engineered cyt cb562 variant, DiCyt2, crystallized in…
9PQ4 1.48 Å, Bi-bound structure of the H77C variant of TriCyt2
6DYG 1.49 Å, Fe(II)-bound structure of the engineered cyt cb562 variant, CH3Y
6OT8 1.5 Å, Bimetallic hexameric cage design 4 (BMC4) from cytochrome cb562

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