MolNFT v1 · #166092 · RNA

Cocrystal structure of the nocardia farcinica iles T-box riboswitch in complex with its cognate tRNA

6UFM · RNA (77-mer): “Cocrystal structure of the nocardia farcinica iles T-box riboswitch in complex with its cognate tRNA”. X-ray diffraction, 1 ligand (SO4), 7 pockets (best druggability 0.72). MolNFT v1 #166092 on GenesisL1: 3D…

PDB: 6UFM
Type: RNA
Length: 175 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNA (77-mer); RNA (98-mer)
Ligands: SO4
Pockets: 7 · best druggability 0.72

Structure

x-ray diffraction · 2 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	RNA (77-mer)	rna	77	—	—
B	RNA (98-mer)	rna	98	—	—

Ligands and binding sites

SO4 · Sulfate ion · ion · chains B

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

Pockets

7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	718	0.72	0.80	46	empty
2	508	0.67	0.79	32	empty
3	692	0.65	0.76	33	empty
4	72	0.46	0.83	9	empty
5	105	0.43	0.79	14	empty

Interfaces

1 interface between chains.

A–B · 526 Å² buried · 20 hydrogen bonds · nucleic-nucleic

Compared structures

6UFM · Cocrystal Structure of the Nocardia farcinica ileS T-box riboswitch in complex with its… · 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 6UFM · PDBe 6UFM

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