MolNFT v1 · #61309 · RNA

Mapping metal-binding sites in the catalytic domain of bacterial RNase P RNA

3DHS: “Mapping metal-binding sites in the catalytic domain of bacterial RNase P RNA”. X-ray diffraction, 1 ligand (OS), 10 pockets (best druggability 0.69). MolNFT v1 #61309 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 3DHS
Type: RNA
Length: 215 nucleotides
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNase P RNA
EC: 3.1.26.5
Ligands: OS
Pockets: 10 · best druggability 0.69

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	RNase P RNA (EC 3.1.26.5)	rna	215	—	—

Ligands and binding sites

OS · Osmium ion · metal · 15 copies · chains A

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

Pockets

10 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	718	0.69	0.77	47	OS
2	512	0.64	0.77	31	OS
3	660	0.62	0.74	29	empty
4	678	0.61	0.74	37	OS
5	319	0.50	0.73	18	OS

Compared structures

3DHS · Mapping metal-binding sites in the catalytic domain of bacterial RNase P RNA · the same entry in another collection · 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
Elsewhere: RCSB PDB 3DHS · PDBe 3DHS

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