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Structure of the GH99 endo-alpha-mannanase from bacteroides xylanisolvens in complex with mannose-alpha-1,3-noeuromycin and 1,2- alpha-mannobiose

Analyse Structure of the GH99 endo-alpha-mannanase from bacteroides xylanisolvens in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5M03
Type: protein
Length: 349 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Glycosyl hydrolase family 71
UniProt: D6D1V7
Ligands: MNM, MAN
Pockets: 2 · best druggability 0.49

Structure

x-ray diffraction · 1 distinct chain · 34% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Glycosyl hydrolase family 71	protein	349	34% helix, 17% strand	D6D1V7

Ligands and binding sites

MNM · (2S,3S,4R,5R)-2,3,4-trihydroxy-5-hydroxymethyl-piperidine · ligand · chains A
MAN · alpha-D-mannopyranose · sugar · 3 copies · chains A
ACT · Acetate ion · additive · chains A

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

Pockets

2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	154	0.49	0.78	30	MAN, MNM
2	55	0.34	0.78	16	empty

Compared structures

5M03 · Structure of the GH99 endo-alpha-mannanase from Bacteroides xylanisolvens in complex with… · 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 D6D1V7
Elsewhere: RCSB PDB 5M03 · PDBe 5M03 · UniProt D6D1V7

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