MolNFT v1 · #151296 · protein

Myxococcus xanthus mglb

6HJM: “Myxococcus xanthus mglb”. X-ray diffraction, 20 pockets (best druggability 0.78). MolNFT v1 #151296 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6HJM
Type: protein
Length: 2,500 residues
Chains: 20
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Mglb
UniProt: Q50883
Pockets: 20 · best druggability 0.78

Structure

x-ray diffraction · 15 distinct chains · 44% helix, 26% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Mglb	protein	128	45% helix, 25% strand	Q50883
B	Mglb	protein	126	45% helix, 26% strand	Q50883
E, N	Mglb	protein	123	44% helix, 27% strand	Q50883
F, I, M	Mglb	protein	127	44% helix, 26% strand	Q50883
C, G, T	Mglb	protein	126	44% helix, 26% strand	Q50883
D	Mglb	protein	120	45% helix, 28% strand	Q50883
H	Mglb	protein	121	45% helix, 27% strand	Q50883
J	Mglb	protein	124	44% helix, 27% strand	Q50883
Q	Mglb	protein	125	43% helix, 26% strand	Q50883
R	Mglb	protein	125	43% helix, 26% strand	Q50883
K	Mglb	protein	119	43% helix, 28% strand	Q50883
L	Mglb	protein	125	43% helix, 26% strand	Q50883
O	Mglb	protein	122	46% helix, 27% strand	Q50883
P	Mglb	protein	133	41% helix, 25% strand	Q50883
S	Mglb	protein	127	43% helix, 26% strand	Q50883

Pockets

20 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	797	0.78	0.82	80	empty
2	846	0.77	0.80	104	empty
3	898	0.76	0.79	105	empty
4	870	0.74	0.78	91	empty
5	1168	0.74	0.77	105	empty

Interfaces

55 interfaces between chains.

K–L · 1380 Å² buried · 13 hydrogen bonds · protein-protein
I–J · 1345 Å² buried · 14 hydrogen bonds · protein-protein
O–P · 1343 Å² buried · 12 hydrogen bonds · protein-protein
G–H · 1340 Å² buried · 11 hydrogen bonds · protein-protein
C–D · 1334 Å² buried · 8 hydrogen bonds · protein-protein

Compared structures

6HJM · Myxococcus xanthus MglB · 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 Q50883
Elsewhere: RCSB PDB 6HJM · PDBe 6HJM · UniProt Q50883

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