MolNFT v1 · #148638 · protein

Crystal structure of an endo-laminarinase from formosa HEL1_33_131

6FCG · Glycoside hydrolase, GH17 family: “Crystal structure of an endo-laminarinase from formosa HEL1_33_131”. X-ray diffraction, 1 ligand (CA), 18 pockets (best druggability 0.80). MolNFT v1 #148638 on GenesisL1: 3D structure, binding…

PDB: 6FCG
Type: protein
Length: 2,358 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Glycoside hydrolase, GH17 family
UniProt: A0A1D7Y259
Ligands: CA
Pockets: 18 · best druggability 0.80

Structure

x-ray diffraction · 1 distinct chain · 41% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F	Glycoside hydrolase, GH17 family	protein	393	41% helix, 15% strand	A0A1D7Y259

Ligands and binding sites

CA · Calcium ion · metal · 2 copies · chains B, E, A, C, D

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

Pockets

18 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	845	0.80	0.82	92	empty
2	1037	0.79	0.81	92	empty
3	788	0.79	0.82	89	empty
4	800	0.79	0.82	84	empty
5	617	0.71	0.79	60	empty

Interfaces

9 interfaces between chains.

C–D · 1007 Å² buried · 15 hydrogen bonds · protein-protein
B–F · 986 Å² buried · 17 hydrogen bonds · protein-protein
E–F · 971 Å² buried · 13 hydrogen bonds · protein-protein
B–E · 961 Å² buried · 13 hydrogen bonds · protein-protein
A–C · 961 Å² buried · 13 hydrogen bonds · protein-protein

Compared structures

6FCG · Crystal structure of an endo-laminarinase from Formosa Hel1_33_131 · 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 A0A1D7Y259
Elsewhere: RCSB PDB 6FCG · PDBe 6FCG · UniProt A0A1D7Y259

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