MolNFT v1 · #98065 · protein

Crystal structure of a substrate-free glutamate transporter homologue from thermococcus kodakarensis

4KY0 · PROTON/GLUTAMATE symporter, sdf family: “Crystal structure of a substrate-free glutamate transporter homologue from thermococcus kodakarensis”. X-ray diffraction, 20 pockets (best druggability 0.88). MolNFT v1 #98065 on GenesisL1…

PDB: 4KY0
Type: protein
Length: 1,251 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: PROTON/GLUTAMATE symporter, sdf family
UniProt: Q5JID0
Pockets: 20 · best druggability 0.88

Structure

x-ray diffraction · 3 distinct chains · 76% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	PROTON/GLUTAMATE symporter, sdf family	protein	416	77% helix, 0% strand	Q5JID0
B	PROTON/GLUTAMATE symporter, sdf family	protein	413	77% helix, 0% strand	Q5JID0
C	PROTON/GLUTAMATE symporter, sdf family	protein	422	76% helix, 0% strand	Q5JID0

Ligands and binding sites

PG4 · Tetraethylene glycol · additive · 4 copies · chains A, B, C

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

Pockets

20 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	635	0.88	0.92	56	empty
2	97	0.66	0.91	23	empty
3	81	0.64	0.91	27	empty
4	91	0.63	0.89	16	empty
5	103	0.59	0.86	21	empty

Interfaces

3 interfaces between chains.

A–C · 1224 Å² buried · 14 hydrogen bonds · protein-protein
B–C · 1188 Å² buried · 15 hydrogen bonds · protein-protein
A–B · 1169 Å² buried · 15 hydrogen bonds · protein-protein

Compared structures

4KY0 · Crystal structure of a substrate-free glutamate transporter homologue from Thermococcus… · 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 Q5JID0
Elsewhere: RCSB PDB 4KY0 · PDBe 4KY0 · UniProt Q5JID0

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