4UB6
Native structure of photosystem II (dataset-1) by a femtosecond X-ray laser
Entity
Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
1 | A, a | Photosystem Q(B) protein | polymer | 344 | 38235.6 | 2 | Pfam (PF00124) UniProt (by SIFTS) (P51765) In PDB | Thermosynechococcus vulcanus | |
2 | B, b | Photosystem II CP47 chlorophyll apoprotein | polymer | 505 | 56068.7 | 2 | UniProt (D0VWR1) Pfam (PF00421) In PDB | Thermosynechococcus vulcanus | Protein CP-47 |
3 | C, c | Photosystem II 44 kDa reaction center protein | polymer | 455 | 49668.8 | 2 | Pfam (PF00421) UniProt (by SIFTS) (D0VWR7) In PDB | Thermosynechococcus vulcanus | |
4 | D, d | Photosystem II D2 protein | polymer | 342 | 38404.9 | 2 | UniProt (D0VWR8) Pfam (PF00124) In PDB | Thermosynechococcus vulcanus | PSII D2 protein,Photosystem Q(A) protein |
5 | E, e | Cytochrome b559 subunit alpha | polymer | 84 | 9580.8 | 2 | UniProt (P12238) Pfam (PF00283) Pfam (PF00284) In PDB | Thermosynechococcus vulcanus | PSII reaction center subunit V |
6 | F, f | Cytochrome b559 subunit beta | polymer | 44 | 4936.7 | 2 | UniProt (P12239) Pfam (PF00283) In PDB | Thermosynechococcus vulcanus | PSII reaction center subunit VI |
7 | H, h | Photosystem II reaction center protein H | polymer | 65 | 7227.6 | 2 | UniProt (P19052) Pfam (PF00737) In PDB | Thermosynechococcus vulcanus | PSII-H |
8 | I, i | Photosystem II reaction center protein I | polymer | 38 | 4438.3 | 2 | UniProt (P12240) Pfam (PF02532) In PDB | Thermosynechococcus vulcanus | PSII-I,PSII 4.4 kDa protein |
9 | J, j | Photosystem II reaction center protein J | polymer | 39 | 3974.7 | 2 | UniProt (Q7DGD4) Pfam (PF01788) In PDB | Thermosynechococcus vulcanus | PSII-J |
10 | K, k | Photosystem II reaction center protein K | polymer | 37 | 4101.9 | 2 | Pfam (PF02533) UniProt (by SIFTS) (P19054) In PDB | Thermosynechococcus vulcanus | |
11 | L, l | Photosystem II reaction center protein L | polymer | 37 | 4299.0 | 2 | UniProt (P12241) Pfam (PF02419) In PDB | Thermosynechococcus vulcanus | PSII-L,PSII 5 kDa protein |
12 | M, m | Photosystem II reaction center protein M | polymer | 36 | 4009.7 | 2 | Pfam (PF05151) UniProt (by SIFTS) (P12312) In PDB | Thermosynechococcus vulcanus | |
13 | O, o | Photosystem II manganese-stabilizing polypeptide | polymer | 244 | 26651.7 | 2 | UniProt (D0VWR2) Pfam (PF01716) In PDB | Thermosynechococcus vulcanus | MSP |
14 | T, t | Photosystem II reaction center protein T | polymer | 32 | 3906.7 | 2 | UniProt (P12313) Pfam (PF01405) In PDB | Thermosynechococcus vulcanus | PSII-Tc |
15 | U, u | Photosystem II 12 kDa extrinsic protein | polymer | 104 | 11656.0 | 2 | Pfam (PF06514) UniProt (by SIFTS) (P56152) In PDB | Thermosynechococcus vulcanus | |
16 | V, v | Cytochrome c-550 | polymer | 137 | 15148.3 | 2 | UniProt (P0A387) Pfam (PF14495) In PDB | Thermosynechococcus vulcanus | Cytochrome c550,Low-potential cytochrome c |
17 | Y, y | Photosystem II reaction center protein Ycf12 | polymer | 30 | 3228.0 | 2 | UniProt (D0VWR3) Pfam (PF05969) In PDB | Thermosynechococcus vulcanus | |
18 | X, x | Photosystem II reaction center protein X | polymer | 40 | 4191.0 | 2 | UniProt (D0VWR4) Pfam (PF06596) In PDB | Thermosynechococcus vulcanus | |
19 | Z, z | Photosystem II reaction center protein Z | polymer | 62 | 6766.2 | 2 | UniProt (D0VWR5) Pfam (PF01737) In PDB | Thermosynechococcus vulcanus | PSII-Z |
20 | R | Photosystem II protein Y | polymer | 34 | 3859.7 | 1 | UniProt (P0DM37) Pfam (PF06298) In PDB | Thermosynechococcus vulcanus | |
21 | A, a | FE (II) ION | non-polymer | 55.8 | 2 | Chemie (FE2) | |||
22 | U, A, a, v | CHLORIDE ION | non-polymer | 35.5 | 6 | Chemie (CL) | |||
23 | a, A | BICARBONATE ION | non-polymer | 61.0 | 2 | Chemie (BCT) | |||
24 | C, c, B, b, d... | CHLOROPHYLL A | non-polymer | 893.5 | 70 | Chemie (CLA) | |||
25 | a, A | PHEOPHYTIN A | non-polymer | 871.2 | 4 | Chemie (PHO) | |||
26 | B, T, b, c, y... | BETA-CAROTENE | non-polymer | 536.9 | 22 | Chemie (BCR) | |||
27 | B, A, f, F, a... | 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL | non-polymer | 795.1 | 8 | Chemie (SQD) | |||
28 | A, v, T, f, V... | GLYCEROL | non-polymer | 92.1 | 37 | Chemie (GOL) | |||
29 | A, B, b, E, f... | DODECYL-BETA-D-MALTOSIDE | non-polymer | 510.6 | 14 | Chemie (LMT) | |||
30 | a, A | CA-MN4-O5 CLUSTER | non-polymer | 339.8 | 2 | Chemie (OEX) | |||
31 | a, A, d, D | 2,3-DIMETHYL-5-(3,7,11,15,19,23,27,31,35-NONAMETHYL-2,6,10,14,18,22,26,30,34-HEXATRIACONTANONAENYL-2,5-CYCLOHEXADIENE-1,4-DIONE-2,3-DIMETHYL-5-SOLANESYL-1,4-BENZOQUINONE | non-polymer | 749.2 | 4 | Chemie (PL9) | |||
32 | D, a, A, i, X... | UNKNOWN LIGAND | non-polymer | 18 | Chemie (UNL) | ||||
33 | f, B, F, b, c... | CALCIUM ION | non-polymer | 40.1 | 7 | Chemie (CA) | |||
34 | B, b, z, c, j... | 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE | non-polymer | 787.2 | 12 | Chemie (LMG) | |||
35 | D, B, V, b, c... | heptyl 1-thio-beta-D-glucopyranoside | non-polymer | 294.4 | 17 | Chemie (HTG) | |||
36 | c, h, C, H, d... | DIGALACTOSYL DIACYL GLYCEROL (DGDG) | non-polymer | 949.3 | 10 | Chemie (DGD) | |||
37 | e, E, l, L, d... | 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE | non-polymer | 723.0 | 10 | Chemie (LHG) | |||
38 | e, E | PROTOPORPHYRIN IX CONTAINING FE | non-polymer | 616.5 | 2 | Chemie (HEM) | |||
39 | j, J | MAGNESIUM ION | non-polymer | 24.3 | 2 | Chemie (MG) | |||
40 | V, v | HEME C | non-polymer | 618.5 | 2 | Chemie (HEC) | |||
41 | water | water | 18.0 | 2590 | Chemie (HOH) |
Sequence viewer
Contents of the asymmetric unit
Polymers | Number of chains | 39 |
Total formula weight | 596849.1 | |
Non-Polymers* | Number of molecules | 251 |
Total formula weight | 132852.8 | |
All* | Total formula weight | 729701.9 |