› 6l8u

X-ray diffraction
2.92Å resolution

Crystal structure of human BCDIN3D in complex with SAH

Released:
DOI: 10.2210/pdb6l8u/pdb
PDB 6l8u coloured by chain and viewed from the front.
PDB 6l8u coloured by chain and viewed from the side.
PDB 6l8u coloured by chain and viewed from the top.
Source organism: Homo sapiens
Primary publication:
Crystal structure of human cytoplasmic tRNAHis-specific 5'-monomethylphosphate capping enzyme.
Liu Y, Martinez A, Yamashita S, Tomita K
Nucleic Acids Res. (2020)
PMID: 31919512

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
RNA 5'-monophosphate methyltransferase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 284 amino acids
Theoretical weight: 32.45 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q7Z5W3 (Residues: 14-284; Coverage: 90%)
Gene name: BCDIN3D
Sequence domains: Bicoid-interacting protein 3 (Bin3)

Ligands and Environments

1 bound ligand:
Ligand SAH 4 x SAH
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-17A
Spacegroup: P21
Unit cell:
a: 48.14Å b: 140.34Å c: 86.42Å
α: 90° β: 105.44° γ: 90°
R-values:
R R work R free
0.215 0.212 0.27
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

1 review citation

Unboxing the T-box riboswitches-A glimpse into multivalent and multimodal RNA-RNA interactions.
Zhang J. (2020)

1 mention without citation

Crystal structure of human cytoplasmic tRNAHis-specific 5'-monomethylphosphate capping enzyme.
Liu et al. (2020)