› 7dvf

X-ray diffraction
1.21Å resolution

Crystal structure of the computationally designed reDPBB_sym2 protein

Released:
DOI: 10.2210/pdb7dvf/pdb
PDB entry 7dvf coloured by chain, front view.
PDB entry 7dvf coloured by chain, side view.
PDB entry 7dvf coloured by chain, top view.
Source organism: synthetic construct
Primary publication:
Seven Amino Acid Types Suffice to Create the Core Fold of RNA Polymerase.
Yagi S, Padhi AK, Vucinic J, Barbe S, Schiex T, Nakagawa R, Simoncini D, Zhang KYJ, Tagami S
J Am Chem Soc 143 15998-16006 (2021)
PMID: 34559526

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-168175 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
reDPBB_sym2 protein Chain: A
Molecule details ›
Chain: A
Length: 87 amino acids
Theoretical weight: 9.42 KDa
Source organism: synthetic construct
Expression system: Escherichia coli BL21(DE3)

Ligands and Environments

1 bound ligand:
Ligand MPD 1 x MPD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL26B2
Spacegroup: P212121
Unit cell:
a: 26.28Å b: 33.536Å c: 79.184Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.157 0.154 0.195
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

2 review citations

Peptides before and during the nucleotide world: an origins story emphasizing cooperation between proteins and nucleic acids.
Fried et al. (2022)
1 more

1 mention without citation

Structural basis of SARM1 activation, substrate recognition, and inhibition by small molecules.
Shi et al. (2022)