MolNFT v1 · #156325 · protein

The ligand-free structure of the chloroplast protein AT3G03890

6M09 · AT3G03890 protein: “The ligand-free structure of the chloroplast protein AT3G03890”. X-ray diffraction, 7 pockets (best druggability 0.79). MolNFT v1 #156325 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6M09
Type: protein
Length: 997 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: AT3G03890 protein
UniProt: Q8LDU1
Pockets: 7 · best druggability 0.79

Structure

x-ray diffraction · 3 distinct chains · 35% helix, 32% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C	AT3G03890 protein	protein	246	35% helix, 32% strand	Q8LDU1
B	AT3G03890 protein	protein	252	35% helix, 32% strand	Q8LDU1
D	AT3G03890 protein	protein	253	36% helix, 33% strand	Q8LDU1

Pockets

7 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	939	0.79	0.81	100	empty
2	558	0.76	0.83	67	empty
3	399	0.73	0.84	46	empty
4	357	0.72	0.84	44	empty
5	412	0.68	0.80	43	empty

Interfaces

3 interfaces between chains.

C–D · 1426 Å² buried · 25 hydrogen bonds · protein-protein
A–B · 1421 Å² buried · 23 hydrogen bonds · protein-protein
B–C · 247 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

6M09 · The ligand-free structure of the chloroplast protein At3g03890 · 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 Q8LDU1
Elsewhere: RCSB PDB 6M09 · PDBe 6M09 · UniProt Q8LDU1

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