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E. COLI L-asparaginase II mutant (T12V) in complex with L-asn at pH 7.0

Analyse E. COLI L-asparaginase II mutant (T12V) in complex with L-asn at pH 7.0 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6PA9
Type: protein
Length: 638 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: L-asparaginase 2
EC: 3.5.1.1
UniProt: P00805
Ligands: ASN
Pockets: 4 · best druggability 0.57

Structure

x-ray diffraction · 2 distinct chains · 34% helix, 23% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	L-asparaginase 2 (EC 3.5.1.1)	protein	326	34% helix, 22% strand	P00805
B	L-asparaginase 2 (EC 3.5.1.1)	protein	312	35% helix, 23% strand	P00805

Ligands and binding sites

ASN · Asparagine · ligand · 2 copies · chains A, B
GOL · Glycerol · additive · chains B

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

Pockets

4 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	273	0.57	0.78	31	empty
2	238	0.56	0.78	28	empty
3	172	0.45	0.75	28	empty
4	56	0.26	0.73	15	empty

Interfaces

1 interface between chains.

A–B · 1029 Å² buried · 14 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 2 disulfide (disulfide).

Compared structures

6PA9 · E. coli L-asparaginase II mutant (T12V) in complex with L-Asn at pH 7.0 · the same entry in another collection · chain A against A, TM-score 1.00
P00805 · AlphaFold monomer V2.0 prediction for L-asparaginase 2 (P00805) · a predicted model of the same protein · chain B 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 P00805
Elsewhere: RCSB PDB 6PA9 · PDBe 6PA9 · UniProt P00805

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