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X-ray structure of the Y222F mutant of TCAB9, a C-3'- methyltransferase, in complex with S-adenosyl-L-homocysteine and dtdp

Analyse X-ray structure of the Y222F mutant of TCAB9, a C-3'- methyltransferase, in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4E2X
Type: protein
Length: 405 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: TCAB9
EC: 2.1.1.-
UniProt: B5L6K6
Ligands: SAH, TYD, ZN
Pockets: 3 · best druggability 0.84

Structure

x-ray diffraction · 1 distinct chain · 38% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	TCAB9 (EC 2.1.1.-)	protein	405	38% helix, 25% strand	B5L6K6

Ligands and binding sites

SAH · S-adenosyl-L-homocysteine · ligand · chains A
TYD · Thymidine-5'-diphosphate · ligand · chains A
ZN · Zinc ion · metal · chains A
EDO · 1,2-ethanediol · additive · 4 copies · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	379	0.84	0.93	57	SAH, TYD
2	53	0.37	0.80	19	empty
3	77	0.33	0.75	14	EDO

Compared structures

4E2X · X-ray Structure of the Y222F mutant of TcaB9, a C-3'-Methyltransferase, in Complex with… · 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 B5L6K6
Elsewhere: RCSB PDB 4E2X · PDBe 4E2X · UniProt B5L6K6

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