- Classes: Membrane and cell surface proteins and peptides
 - Folds: Bacterial photosystem II reaction centre, L and M subunits
 - Superfamilies: Bacterial photosystem II reaction centre, L and M subunits
 - Families: Bacterial photosystem II reaction centre, L and M subunits
 
Protein Domains:
- L (light) subunit
- [ABC], [ABCD]
 - [ABCD], [A2B2C2D2]
 - [ABCD]
 
 - M (medium) subunit
- [ABC], [ABCD]
 - [ABCD], [A2B2C2D2]
 - [ABCD]
 
 - Photosystem II reaction center d2 protein PsbD2
- [A2B2C2D2E2F2G2H2I2J2K2L2M2N2O2P2Q2], [ABCDEFGHIJKLMNOPQR], [ABCDEFGHIJKLMNO], [ABCDEFGHIJKLMNOPQ]
 - [A2B2C2D2E2F2G2H2I2J2K2L2M2N2O2P2Q2R2][a2]
 
 - Photosystem Q(B) protein 1, PsbA1
- [A2B2C2D2E2F2G2H2I2J2K2L2M2N2O2P2Q2]
 - [A2B2C2D2E2F2G2H2I2J2K2L2M2N2O2P2Q2R2S2T], [A2B2C2D2E2F2G2H2I2J2K2L2M2N2O2P2Q2R2][a2]
 
 - automated matches
- [ABCD], [A17B17CDEF][a16]
 - [A2B2C2D2E2F2G2H2I2J2K2L2M2N2O2P2Q2R2S2T2U2V2W2X2Y2Z2][a2b2]
 - [A10B2C2D2E2F2G2H2I2J2K2L2M2N2O2P2Q2R2S2T2U2V2W2X2]
 - [ABC]
 - [A15B15CDEF]
 - [A14B14CDEF], [A16B16CDE]
 - [ABCD]
 - [ABCDEFGHIJKLM]
 - [A16B16CDEF], [A16B16CDEFG]
 - [ABCDEFGHIJKLMNOPQR], [ABCDEFGHIJKLMNO], [ABCDEFGHIJKLMNOPQ]
 - [A2B2C2D2E2F2G2H2I2J2K2L2M2N2O2P2Q2R2S2T], [A2B2C2D2E2F2G2H2I2J2K2L2M2N2O2P2Q2R2S2], [ABCDEFGHIJKLMNOPQRST], [ABCDEFGHIJKLM][a], [ABCDEFGHIJKLMNOPQ][a]
 - [A13B8C6D3EFGHIJ]
 
 
	* [ ] : Polypeptide  - [AB] : Protein, [ab] : Small peptide
* ( ) : Nucleic acid - (AB) : DNA, (ab) : RNA
* ( ) : Nucleic acid - (AB) : DNA, (ab) : RNA
