MolNFT v1 · #107110 · protein

Structure of a eukaryotic fic domain containing protein

4U04 · Adenosine monophosphate-protein transferase ficd: “Structure of a eukaryotic fic domain containing protein”. X-ray diffraction, 12 pockets (best druggability 0.58). MolNFT v1 #107110 on GenesisL1: 3D structure, binding sites and…

PDB: 4U04
Type: protein
Length: 639 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Adenosine monophosphate-protein transferase ficd
EC: 2.7.7.-
UniProt: Q9BVA6
Pockets: 12 · best druggability 0.58

Structure

x-ray diffraction · 2 distinct chains · 71% helix, 1% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Adenosine monophosphate-protein transferase ficd (EC 2.7.7.-)	protein	315	71% helix, 1% strand	Q9BVA6
B	Adenosine monophosphate-protein transferase ficd (EC 2.7.7.-)	protein	324	70% helix, 1% strand	Q9BVA6

Ligands and binding sites

PG4 · Tetraethylene glycol · additive · 2 copies · chains A, B
TAR · D(-)-tartaric acid · additive · chains A

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

Pockets

12 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	240	0.58	0.79	36	empty
2	140	0.52	0.80	23	empty
3	168	0.49	0.77	22	empty
4	208	0.46	0.74	25	empty
5	141	0.45	0.76	21	TAR

Interfaces

1 interface between chains.

A–B · 908 Å² buried · 11 hydrogen bonds · protein-protein

Compared structures

4U04 · Structure of a eukaryotic fic domain containing protein · 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 B 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 4U04 · PDBe 4U04 · UniProt Q9BVA6

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