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Crystal structure of endoglucanase-related protein from vibrio parahaemolyticus

Analyse Crystal structure of endoglucanase-related protein from vibrio parahaemolyticus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3H7L
Type: protein
Length: 1,726 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Endoglucanase
UniProt: Q87LX4
Pockets: 14 · best druggability 0.69

Structure

x-ray diffraction · 2 distinct chains · 40% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Endoglucanase	protein	576	40% helix, 18% strand	Q87LX4
B, C	Endoglucanase	protein	575	41% helix, 17% strand	Q87LX4

Ligands and binding sites

GOL · Glycerol · additive · 5 copies · chains A, B, C

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

Pockets

14 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	768	0.69	0.76	74	empty
2	717	0.69	0.77	69	empty
3	195	0.69	0.86	25	GOL
4	681	0.69	0.77	57	empty
5	205	0.68	0.86	26	GOL

Interfaces

3 interfaces between chains.

A–C · 572 Å² buried · 4 hydrogen bonds · protein-protein
A–B · 498 Å² buried · 2 hydrogen bonds · protein-protein
B–C · 461 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

3H7L · CRYSTAL STRUCTURE OF ENDOGLUCANASE-RELATED PROTEIN FROM Vibrio parahaemolyticus · 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 Q87LX4
Elsewhere: RCSB PDB 3H7L · PDBe 3H7L · UniProt Q87LX4

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