Crystal structure of bacillus halodurans ribonuclease H1 in complex with an RNA/DNA hybrid: reaction in 2 mm MG2+ and 200 mm K+ for 240 S at 21 C

Structure

x-ray diffraction · 4 distinct chains · 35% helix, 26% strand (DSSP).

Ligands and binding sites

• K · Potassium ion · metal · 3 copies · chains A, b, B, C
• MG · Magnesium ion · metal · 2 copies · chains A, b, B
• IOD · Iodide ion · ion · 4 copies · chains A
• GOL · Glycerol · additive · 5 copies · chains A, C
• EDO · 1,2-ethanediol · additive · 4 copies · chains A, C
• PGE · Triethylene glycol · additive · chains A, B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Interfaces

6 interfaces between chains.

• A–C · 432 Ų buried · 13 hydrogen bonds · protein-nucleic
• A–b · 319 Ų buried · 12 hydrogen bonds · protein-nucleic
• A–B · 270 Ų buried · 13 hydrogen bonds · protein-nucleic
• B–C · 189 Ų buried · 15 hydrogen bonds · nucleic-nucleic
• b–C · 145 Ų buried · 10 hydrogen bonds · nucleic-nucleic

Compared structures

• 6DOC · Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with an RNA/DNA… · the same entry in another collection · chain A against A, TM-score 1.00
• Q9KEI9 · AlphaFold monomer V2.0 prediction for ribonuclease H (Q9KEI9) · a predicted model of the same protein · chain A against A, TM-score 1.00

Analyse

• Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
• Every structure of UniProt Q9KEI9
• Elsewhere: RCSB PDB 6DOC · PDBe 6DOC · UniProt Q9KEI9