MolNFT v1 · #75504 · protein

Crystal structure of mnmc from E. COLI

3PS9 · TRNA 5-methylaminomethyl-2-thiouridine biosynthesis…: “Crystal structure of mnmc from E. COLI”. X-ray diffraction, 3 ligands (FAD, SAM, CL), 7 pockets (best druggability 0.82). MolNFT v1 #75504 on GenesisL1: 3D structure, binding…

PDB: 3PS9
Type: protein
Length: 668 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: TRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein mnmc
EC: 2.1.1.61
UniProt: C5W761
Ligands: FAD, SAM, CL
Pockets: 7 · best druggability 0.82

Structure

x-ray diffraction · 1 distinct chain · 34% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	TRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein mnmc (EC 2.1.1.61)	protein	668	34% helix, 25% strand	C5W761

Ligands and binding sites

FAD · Flavin-adenine dinucleotide · ligand · chains A
SAM · S-adenosylmethionine · ligand · chains A
CL · Chloride ion · ion · chains A

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

Pockets

7 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	845	0.82	0.84	93	FAD, CL
2	318	0.76	0.87	46	SAM
3	63	0.48	0.84	16	empty
4	156	0.47	0.76	25	empty
5	136	0.45	0.77	30	empty

Compared structures

3PS9 · Crystal structure of MnmC from E. coli · 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
Every structure of UniProt C5W761
Elsewhere: RCSB PDB 3PS9 · PDBe 3PS9 · UniProt C5W761

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