5YM7: B562RIL without disulfide bond

Crystal Structure of B562RIL without disulfide bond. Determined by X-ray diffraction at 1.56 Å resolution. Released 22 Nov 2017.

Method: X-ray diffraction
Resolution: 1.56 Å
Organism: Escherichia coli
Chains: 1
Atoms: 972
Mol. weight: 11.79 kDa
Released: 22 Nov 2017

Explore 5YM7 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5YM7 contains 7 α-helices and 0 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: 7 helices, 0 β-strands

Element	Residues	Length
α-helix	3-19	17
α-helix	23-41	19
α-helix	46-48	3
α-helix	56-80	25
α-helix	84-97	14
α-helix	98-102	5
α-helix	103-105	3

Molecules and chains

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

Sequence of entity 1 (A), FASTA

>5YM7_1 Soluble cytochrome b562 (chains A)
ADLEDNWETLNDNLKVIEKADNAAQVKDALTKMRAAALDAQKATPPKLEDKSPDSPEMKD
FRHGFDILVGQIDDALKLANEGKVKEAQAAAEQLKTTRNAYIQKYL

Primary citation

Protein crystal quality oriented disulfide bond engineering. Pu, M., Xu, Z., Peng, Y. et al. Protein Cell (2018) 9:659-663. DOI 10.1007/s13238-017-0482-7 · 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…
6OT4 1.4 Å, Bimetallic dodecameric cage design 2 (BMC2) from cytochrome cb562
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

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