MolNFT v1 · #108819 · protein + RNA

Crystal structure of the asparagine transamidosome from pseudomonas aeruginosa

4WJ3 · Glutamyl-TRNA(GLN) amidotransferase subunit a: “Crystal structure of the asparagine transamidosome from pseudomonas aeruginosa”. X-ray diffraction, 20 pockets (best druggability 0.81). MolNFT v1 #108819 on GenesisL1: 3D structure…

PDB: 4WJ3
Type: protein + RNA
Length: 6,797 residues
Chains: 20
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Glutamyl-TRNA(GLN) amidotransferase subunit a; ASPARTYL/GLUTAMYL-TRNA(ASN/GLN)…
EC: 6.3.5.7, 6.3.5.-, 6.1.1.23
UniProt: Q9HVT8, Q9HVT7, Q9HVT9, Q51422
Pockets: 20 · best druggability 0.81

Structure

x-ray diffraction · 6 distinct chains · 37% helix, 20% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, D, G, J	Glutamyl-TRNA(GLN) amidotransferase subunit a (EC 6.3.5.7)	protein	483	39% helix, 15% strand	Q9HVT8
B	ASPARTYL/GLUTAMYL-TRNA(ASN/GLN) amidotransferase subunit B (EC 6.3.5.-)	protein	456	37% helix, 20% strand	Q9HVT7
C, F, I, L	Glutamyl-TRNA(GLN) amidotransferase subunit C (EC 6.3.5.-)	protein	96	38% helix, 7% strand	Q9HVT9
E, H, K	ASPARTYL/GLUTAMYL-TRNA(ASN/GLN) amidotransferase subunit B (EC 6.3.5.-)	protein	455	39% helix, 21% strand	Q9HVT7
M, N, O, P	Aspartate--TRNA(ASP/ASN) ligase (EC 6.1.1.23)	protein	589	34% helix, 25% strand	Q51422
Q, R, S, T	76MER-tRNA	rna	76	—	—

Pockets

20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	740	0.81	0.85	80	empty
2	598	0.80	0.86	63	empty
3	1120	0.79	0.80	98	empty
4	167	0.79	0.95	32	empty
5	1050	0.78	0.80	90	empty

Interfaces

44 interfaces between chains.

O–P · 5510 Å² buried · 66 hydrogen bonds · protein-protein
M–N · 5487 Å² buried · 72 hydrogen bonds · protein-protein
J–L · 2602 Å² buried · 9 hydrogen bonds · protein-protein
A–C · 2602 Å² buried · 10 hydrogen bonds · protein-protein
D–F · 2579 Å² buried · 12 hydrogen bonds · protein-protein

Compared structures

4WJ3 · Crystal structure of the asparagine transamidosome from Pseudomonas aeruginosa · the same entry in another collection · chain K against K, 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 Q9HVT8
Every structure of UniProt Q9HVT7
Every structure of UniProt Q9HVT9
Every structure of UniProt Q51422
Elsewhere: RCSB PDB 4WJ3 · PDBe 4WJ3 · UniProt Q9HVT8 · UniProt Q9HVT7 · UniProt Q9HVT9 · UniProt Q51422

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