Research workbench

DPP9 - APO

Analyse DPP9 - APO in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6EOQ
Type: protein
Length: 3,064 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Dipeptidyl peptidase 9
EC: 3.4.14.5
UniProt: Q86TI2
Pockets: 20 · best druggability 0.85

Structure

x-ray diffraction · 4 distinct chains · 18% helix, 34% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Dipeptidyl peptidase 9 (EC 3.4.14.5)	protein	767	19% helix, 35% strand	Q86TI2
B	Dipeptidyl peptidase 9 (EC 3.4.14.5)	protein	766	17% helix, 35% strand	Q86TI2
C	Dipeptidyl peptidase 9 (EC 3.4.14.5)	protein	766	17% helix, 34% strand	Q86TI2
D	Dipeptidyl peptidase 9 (EC 3.4.14.5)	protein	765	18% helix, 34% strand	Q86TI2

Pockets

20 pockets found on a 1 Å grid, 17 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	222	0.85	0.97	33	empty
2	228	0.84	0.97	32	empty
3	941	0.74	0.77	89	empty
4	890	0.72	0.77	86	empty
5	833	0.72	0.77	94	empty

Interfaces

4 interfaces between chains.

B–D · 2152 Å² buried · 27 hydrogen bonds · protein-protein
A–C · 2121 Å² buried · 26 hydrogen bonds · protein-protein
A–B · 617 Å² buried · 8 hydrogen bonds · protein-protein
C–D · 539 Å² buried · 4 hydrogen bonds · protein-protein

Compared structures

6EOQ · DPP9 - Apo · the same entry in another collection · chain D against D, TM-score 1.00
Q86TI2 · AlphaFold monomer V2.0 prediction for dipeptidyl peptidase 9 (Q86TI2) · a predicted model of the same protein · chain B 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 Q86TI2
Elsewhere: RCSB PDB 6EOQ · PDBe 6EOQ · UniProt Q86TI2

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