MolNFT v1 · #61155 · protein

Crystal structure of rph, an exoribonuclease from bacillus anthracis at 1.7 a resolution

3DD6 · Ribonuclease pH: “Crystal structure of rph, an exoribonuclease from bacillus anthracis at 1.7 a resolution”. X-ray diffraction, 1 ligand (SO4), 1 pocket (best druggability 0.56). MolNFT v1 #61155 on GenesisL1: 3D structure, binding…

PDB: 3DD6
Type: protein
Length: 244 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ribonuclease pH
EC: 2.7.7.56
UniProt: Q81LA9
Ligands: SO4
Pockets: 1 · best druggability 0.56

Structure

x-ray diffraction · 1 distinct chain · 34% helix, 30% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Ribonuclease pH (EC 2.7.7.56)	protein	244	34% helix, 30% strand	Q81LA9

Ligands and binding sites

SO4 · Sulfate ion · ion · 5 copies · chains A

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

Pockets

1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	198	0.56	0.80	33	SO4

Compared structures

3DD6 · Crystal structure of Rph, an exoribonuclease from Bacillus anthracis at 1.7 A resolution · the same entry in another collection · chain A against A, TM-score 1.00
Q81LA9 · AlphaFold monomer V2.0 prediction for ribonuclease pH (Q81LA9) · a predicted model of the same protein · chain A against A, TM-score 0.98

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 Q81LA9
Elsewhere: RCSB PDB 3DD6 · PDBe 3DD6 · UniProt Q81LA9

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