Research workbench

Cyanase (cyns) from serratia proteamaculans

Analyse Cyanase (cyns) from serratia proteamaculans in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4Y42
Type: protein
Length: 1,550 residues
Chains: 10
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Cyanate hydratase
EC: 4.2.1.104
UniProt: A8GBZ7
Pockets: 13 · best druggability 0.78

Structure

x-ray diffraction · 1 distinct chain · 46% helix, 20% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G, H, I, J	Cyanate hydratase (EC 4.2.1.104)	protein	155	46% helix, 20% strand	A8GBZ7

Ligands and binding sites

GOL · Glycerol · additive · 4 copies · chains B, D, G, H, C, I, A, J

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

Pockets

13 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	1054	0.78	0.80	141	empty
2	1006	0.77	0.79	141	empty
3	280	0.61	0.80	45	empty
4	195	0.58	0.81	56	GOL
5	137	0.50	0.79	37	GOL

Interfaces

25 interfaces between chains.

I–J · 3342 Å² buried · 52 hydrogen bonds · protein-protein
A–D · 3335 Å² buried · 54 hydrogen bonds · protein-protein
B–F · 3321 Å² buried · 53 hydrogen bonds · protein-protein
E–G · 3319 Å² buried · 53 hydrogen bonds · protein-protein
C–H · 3316 Å² buried · 50 hydrogen bonds · protein-protein

Compared structures

4Y42 · Cyanase (CynS) from Serratia proteamaculans · the same entry in another collection · chain J against J, TM-score 1.00
A8GBZ7 · AlphaFold monomer V2.0 prediction for cyanate hydratase (A8GBZ7) · a predicted model of the same protein · chain F against A, TM-score 0.99

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 A8GBZ7
Elsewhere: RCSB PDB 4Y42 · PDBe 4Y42 · UniProt A8GBZ7

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