5WS5
Native XFEL structure of photosystem II (preflash dark dataset)
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, U (A, a) | Photosystem II D1 protein | polymer | 344 | 38235.6 | 2 | UniProt (by SIFTS) (P51765) | Thermosynechococcus vulcanus | |
| 2 | B, V (B, b) | Photosystem II CP47 reaction center protein | polymer | 505 | 56068.7 | 2 | UniProt (D0VWR1) | Thermosynechococcus vulcanus | PSII 47 kDa protein,Protein CP-47 |
| 3 | C, W (C, c) | Photosystem II CP43 protein | polymer | 455 | 49668.8 | 2 | UniProt (by SIFTS) (D0VWR7) | Thermosynechococcus vulcanus | |
| 4 | D, X (D, d) | Photosystem II D2 protein | polymer | 342 | 38404.9 | 2 | UniProt (D0VWR8) | Thermosynechococcus vulcanus | PSII D2 protein,Photosystem Q(A) protein |
| 5 | E, Y (E, e) | Cytochrome b559 subunit alpha | polymer | 84 | 9580.8 | 2 | UniProt (P12238) | Thermosynechococcus vulcanus | PSII reaction center subunit V |
| 6 | F, Z (F, f) | Cytochrome b559 subunit beta | polymer | 44 | 4936.7 | 2 | UniProt (P12239) | Thermosynechococcus vulcanus | PSII reaction center subunit VI |
| 7 | AA, G (H, h) | Photosystem II reaction center protein H | polymer | 65 | 7227.6 | 2 | UniProt (P19052) | Thermosynechococcus vulcanus | PSII-H |
| 8 | BA, H (I, i) | Photosystem II reaction center protein I | polymer | 38 | 4438.3 | 2 | UniProt (P12240) | Thermosynechococcus vulcanus | PSII-I,PSII 4.4 kDa protein |
| 9 | CA, I (J, j) | Photosystem II reaction center protein J | polymer | 39 | 3974.7 | 2 | UniProt (Q7DGD4) | Thermosynechococcus vulcanus | PSII-J |
| 10 | DA, J (K, k) | Photosystem II protein K | polymer | 37 | 4101.9 | 2 | UniProt (by SIFTS) (P19054) | Thermosynechococcus vulcanus | |
| 11 | EA, K (L, l) | Photosystem II reaction center protein L | polymer | 37 | 4299.0 | 2 | UniProt (P12241) | Thermosynechococcus vulcanus | PSII-L |
| 12 | FA, L (M, m) | Photosystem II protein M | polymer | 36 | 4009.7 | 2 | UniProt (by SIFTS) (P12312) | Thermosynechococcus vulcanus | |
| 13 | GA, M (O, o) | Photosystem II manganese-stabilizing polypeptide | polymer | 244 | 26651.7 | 2 | UniProt (D0VWR2) | Thermosynechococcus vulcanus | MSP |
| 14 | HA, N (T, t) | Photosystem II reaction center protein T | polymer | 32 | 3906.7 | 2 | UniProt (P12313) | Thermosynechococcus vulcanus | PSII-Tc |
| 15 | IA, O (U, u) | Photosystem II 12 kDa extrinsic protein | polymer | 104 | 11656.0 | 2 | UniProt (P56152) | Thermosynechococcus vulcanus | PS II complex 12 kDa extrinsic protein,PSII-U |
| 16 | JA, P (V, v) | Cytochrome c-550 | polymer | 137 | 15148.3 | 2 | UniProt (P0A387) | Thermosynechococcus vulcanus | Cytochrome c550,Low-potential cytochrome c |
| 17 | KA, Q (X, x) | Photosystem II reaction center protein X | polymer | 40 | 4191.0 | 2 | UniProt (D0VWR4) | Thermosynechococcus vulcanus | |
| 18 | LA, R (Y, y) | Photosystem II reaction center protein Ycf12 | polymer | 30 | 3228.0 | 2 | UniProt (D0VWR3) | Thermosynechococcus vulcanus | |
| 19 | MA, S (Z, z) | Photosystem II reaction center protein Z | polymer | 62 | 6766.2 | 2 | UniProt (D0VWR5) | Thermosynechococcus vulcanus | PSII-Z |
| 20 | T (R) | Photosystem II protein Y | polymer | 34 | 3859.7 | 1 | UniProt (P0DM37) | Thermosynechococcus vulcanus | |
| 21 | NA, PE (A, a) | FE (II) ION | non-polymer | 55.8 | 2 | Chemie (FE2) PubChem (27284) | |||
| 22 | OA, PA, QE, RE (A, a) | CHLORIDE ION | non-polymer | 35.5 | 4 | Chemie (CL) PubChem (312) | |||
| 23 | FB, FD, GB, GD, HB... (B, D, C, b, d...) | CHLOROPHYLL A | non-polymer | 893.5 | 70 | Chemie (CLA) | |||
| 24 | DB, HF, TA, WE (A, a) | PHEOPHYTIN A | non-polymer | 871.2 | 4 | Chemie (PHO) | |||
| 25 | AG, AH, AI, BG, CE... (b, c, h, K, k...) | BETA-CAROTENE | non-polymer | 536.9 | 22 | Chemie (BCR) PubChem (573) PubChem (21672398) PubChem (176490061) PubChem (177696266) PubChem (46783370) PubChem (46846294) PubChem (54603957) PubChem (54612003) PubChem (5315709) PubChem (5353436) PubChem (5356616) PubChem (5927371) PubChem (86765360) PubChem (6477957) PubChem (9828626) PubChem (91827292) PubChem (10256668) PubChem (92863346) PubChem (92863347) PubChem (92863348) PubChem (12305639) PubChem (12305640) PubChem (12305642) PubChem (12305644) PubChem (12305647) PubChem (12305652) PubChem (5280489) PubChem (92863345) PubChem (100990628) PubChem (101525094) PubChem (101525095) PubChem (124919640) PubChem (124919639) PubChem (129651951) PubChem (132274419) PubChem (146673260) PubChem (152743364) PubChem (160505766) PubChem (145925599) PubChem (159562859) PubChem (172654026) PubChem (172878405) PubChem (173398668) | |||
| 26 | BF, DG, TD, WA, YA... (a, b, F, A, B...) | 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL | non-polymer | 795.1 | 8 | Chemie (SQD) PubChem (25147486) PubChem (25235342) PubChem (42607399) PubChem (5459390) PubChem (159321) PubChem (9810997) PubChem (9918745) PubChem (481096) PubChem (10219110) PubChem (10373133) PubChem (14463145) PubChem (102201395) PubChem (134765349) | |||
| 27 | AF, CC, CD, DC, GF... (a, B, C, b, V...) | GLYCEROL | non-polymer | 92.1 | 10 | Chemie (GOL) PubChem (753) | |||
| 28 | DF, ZA (a, A) | CA-MN4-O5 CLUSTER | non-polymer | 339.8 | 2 | Chemie (OEX) | |||
| 29 | AB, EF, ID, NH (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) PubChem (20286) PubChem (23304240) PubChem (21881166) PubChem (5375177) PubChem (6323474) PubChem (6325820) PubChem (6433402) | |||
| 30 | BB, BE, CI, DI, FC... (A, K, i, j, B...) | UNKNOWN LIGAND | non-polymer | 18 | Chemie (UNL) | ||||
| 31 | CB, SE (A, a) | BICARBONATE ION | non-polymer | 61.0 | 2 | Chemie (BCT) PubChem (769) | |||
| 32 | CF, EB, ED, EE, EG... (a, A, D, M, b...) | DODECYL-BETA-D-MALTOSIDE | non-polymer | 510.6 | 14 | Chemie (LMT) | |||
| 33 | AD, EH, FH, GC, HI... (C, c, m, a, Z...) | 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE | non-polymer | 787.2 | 12 | Chemie (LMG) | |||
| 34 | AC, BC, BD, EC, FG... (B, C, b, c, V...) | heptyl 1-thio-beta-D-glucopyranoside | non-polymer | 294.4 | 11 | Chemie (HTG) PubChem (17754029) PubChem (22844385) PubChem (561567) PubChem (656917) PubChem (71317209) PubChem (135074) PubChem (10979306) PubChem (11335391) PubChem (11392262) PubChem (95858610) PubChem (96361182) PubChem (96361183) PubChem (97041763) PubChem (101138253) | |||
| 35 | BH, BI, CH, DH, WC... (c, h, C, H) | DIGALACTOSYL DIACYL GLYCEROL (DGDG) | non-polymer | 949.3 | 8 | Chemie (DGD) PubChem (24865462) PubChem (24865463) PubChem (448441) PubChem (50904896) PubChem (53480668) PubChem (46936671) PubChem (447899) PubChem (4629344) PubChem (15991538) PubChem (134746152) PubChem (154573294) PubChem (140529801) PubChem (171123158) | |||
| 36 | DD, HE, HH, IH, KI... (C, O, c, o, F...) | CALCIUM ION | non-polymer | 40.1 | 7 | Chemie (CA) PubChem (271) | |||
| 37 | DE, GI, JD, KD, LD... (L, l, D, d, E...) | 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE | non-polymer | 723.0 | 10 | Chemie (LHG) PubChem (446440) PubChem (46936292) PubChem (73416066) PubChem (65144) PubChem (9547104) PubChem (11846227) PubChem (13305396) PubChem (138986743) | |||
| 38 | SD, XH (E, e) | PROTOPORPHYRIN IX CONTAINING FE | non-polymer | 616.5 | 2 | Chemie (HEM) | |||
| 39 | AE, EI (J, j) | MAGNESIUM ION | non-polymer | 24.3 | 2 | Chemie (MG) PubChem (888) | |||
| 40 | KE, PI (V, v) | HEME C | non-polymer | 618.5 | 2 | Chemie (HEC) | |||
| 41 | AJ, AK, BJ, BK, CJ... (I, v, J, x, K...) | water | water | 18.0 | 1626 | Chemie (HOH) |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 39 |
| Total formula weight | 596849.1 | |
| Non-Polymers* | Number of molecules | 214 |
| Total formula weight | 126630.3 | |
| All* | Total formula weight | 723479.4 |
