MolNFT v1 · #119932 · protein

Crystal structure of selnomethionin-labeled ketosynthase stld

5GK0: “Crystal structure of selnomethionin-labeled ketosynthase stld”. X-ray diffraction, 19 pockets (best druggability 0.79). MolNFT v1 #119932 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5GK0
Type: protein
Length: 1,502 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ketosynthase stld
UniProt: Q7N4Z6
Pockets: 19 · best druggability 0.79

Structure

x-ray diffraction · 3 distinct chains · 38% helix, 24% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, D	Ketosynthase stld	protein	380	38% helix, 24% strand	Q7N4Z6
B	Ketosynthase stld	protein	363	39% helix, 25% strand	Q7N4Z6
C	Ketosynthase stld	protein	379	36% helix, 24% strand	Q7N4Z6

Pockets

19 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	134	0.79	0.97	37	empty
2	434	0.77	0.86	100	empty
3	167	0.74	0.91	40	empty
4	179	0.73	0.90	39	empty
5	133	0.69	0.89	27	empty

Interfaces

3 interfaces between chains.

B–C · 3022 Å² buried · 27 hydrogen bonds · protein-protein
A–D · 2968 Å² buried · 27 hydrogen bonds · protein-protein
A–B · 16 Å² buried · 0 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 56 modified (engineered, oxidation).

Compared structures

5GK0 · Crystal structure of selnomethionin-labeled ketosynthase StlD · 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 Q7N4Z6
Elsewhere: RCSB PDB 5GK0 · PDBe 5GK0 · UniProt Q7N4Z6

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