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Crystal structure of monomeric ficd mutant L258D

Analyse Crystal structure of monomeric ficd mutant L258D in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6I7J
Type: protein
Length: 337 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Adenosine monophosphate-protein transferase ficd
EC: 2.7.7.-, 3.1.4.-
UniProt: Q9BVA6
Ligands: SO4
Pockets: 5 · best druggability 0.62

Structure

x-ray diffraction · 1 distinct chain · 69% helix, 1% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Adenosine monophosphate-protein transferase ficd (EC 2.7.7.-, 3.1.4.-)	protein	337	69% helix, 1% strand	Q9BVA6

Ligands and binding sites

SO4 · Sulfate ion · ion · 7 copies · chains A
PG4 · Tetraethylene glycol · additive · 5 copies · chains A
1PE · Pentaethylene glycol · additive · 3 copies · chains A
PEG · Di(hydroxyethyl)ether · additive · 2 copies · chains A

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

Pockets

5 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	241	0.62	0.81	31	PG4
2	309	0.62	0.79	25	SO4, PG4
3	177	0.43	0.73	19	PG4
4	54	0.35	0.78	15	empty
5	56	0.33	0.77	14	empty

Compared structures

6I7J · Crystal structure of monomeric FICD mutant L258D · the same entry in another collection · chain A against A, TM-score 1.00
Q9BVA6 · AlphaFold monomer V2.0 prediction for protein adenylyltransferase ficd (Q9BVA6) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 Q9BVA6
Elsewhere: RCSB PDB 6I7J · PDBe 6I7J · UniProt Q9BVA6

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