MolNFT v1 · #16802 · protein

Crystal structure of the S155C mutant of malonamidase E2 from bradyrhizobium japonicum

1O9Q: “Crystal structure of the S155C mutant of malonamidase E2 from bradyrhizobium japonicum”. X-ray diffraction, 7 pockets (best druggability 0.86). MolNFT v1 #16802 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1O9Q
Type: protein
Length: 824 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Malonamidase E2
UniProt: Q9ZIV5
Pockets: 7 · best druggability 0.86

Structure

x-ray diffraction · 1 distinct chain · 42% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Malonamidase E2	protein	412	42% helix, 17% strand	Q9ZIV5

Pockets

7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	437	0.86	0.94	63	empty
2	1019	0.76	0.78	98	empty
3	171	0.56	0.81	26	empty
4	131	0.52	0.81	22	empty
5	94	0.33	0.73	22	empty

Interfaces

1 interface between chains.

A–B · 1559 Å² buried · 18 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 2 modified (oxidation).

Compared structures

1O9Q · Crystal structure of the S155C mutant of Malonamidase E2 from Bradyrhizobium japonicum · 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 Q9ZIV5
Elsewhere: RCSB PDB 1O9Q · PDBe 1O9Q · UniProt Q9ZIV5

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