MolNFT v1 · #84601 · protein

Structure of PSB28

3ZPN · Photosystem II reaction center PSB28 protein: “Structure of PSB28”. X-ray diffraction, 5 pockets (best druggability 0.80). MolNFT v1 #84601 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 3ZPN
Type: protein
Length: 427 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Photosystem II reaction center PSB28 protein
UniProt: Q8DLJ8
Pockets: 5 · best druggability 0.80

Structure

x-ray diffraction · 3 distinct chains · 20% helix, 42% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Photosystem II reaction center PSB28 protein	protein	108	20% helix, 43% strand	Q8DLJ8
B	Photosystem II reaction center PSB28 protein	protein	107	19% helix, 41% strand	Q8DLJ8
C, D	Photosystem II reaction center PSB28 protein	protein	106	20% helix, 42% strand	Q8DLJ8

Pockets

5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	132	0.80	0.97	26	empty
2	96	0.77	0.97	15	empty
3	1077	0.69	0.74	88	empty
4	61	0.34	0.77	15	empty
5	86	0.33	0.74	15	empty

Interfaces

6 interfaces between chains.

A–B · 1212 Å² buried · 15 hydrogen bonds · protein-protein
C–D · 1141 Å² buried · 19 hydrogen bonds · protein-protein
B–D · 512 Å² buried · 9 hydrogen bonds · protein-protein
A–C · 476 Å² buried · 11 hydrogen bonds · protein-protein
B–C · 171 Å² buried · 5 hydrogen bonds · protein-protein

Compared structures

3ZPN · Structure of Psb28 · the same entry in another collection · chain A against A, TM-score 1.00
Q8DLJ8 · AlphaFold monomer V2.0 prediction for photosystem II reaction center PSB28 protein… · a predicted model of the same protein · chain C against A, TM-score 0.95

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 Q8DLJ8
Elsewhere: RCSB PDB 3ZPN · PDBe 3ZPN · UniProt Q8DLJ8

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