MolNFT v1 · #99805 · RNA

In vitro evolved glms ribozyme triple mutant, calcium ion complex

4MEH · Glms triple mutant ribozyme: “In vitro evolved glms ribozyme triple mutant, calcium ion complex”. X-ray diffraction, 1 ligand (CA), 6 pockets (best druggability 0.73). MolNFT v1 #99805 on GenesisL1: 3D structure, binding sites and…

PDB: 4MEH
Type: RNA
Length: 140 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Glms triple mutant ribozyme; (122-mer) ribozyme
Ligands: CA
Pockets: 6 · best druggability 0.73

Structure

x-ray diffraction · 2 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Glms triple mutant ribozyme	rna	20	—	—
B	(122-mer) ribozyme	rna	120	—	—

Ligands and binding sites

CA · Calcium ion · metal · 9 copies · chains A, B

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

Pockets

6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	622	0.73	0.81	44	CA
2	196	0.50	0.78	17	empty
3	250	0.50	0.76	23	empty
4	166	0.49	0.79	17	empty
5	123	0.49	0.81	15	CA

Interfaces

1 interface between chains.

A–B · 1361 Å² buried · 92 hydrogen bonds · nucleic-nucleic

Compared structures

4MEH · In vitro evolved glmS ribozyme triple mutant, calcium ion complex · 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 4MEH · PDBe 4MEH

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