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5KAF

RT XFEL structure of Photosystem II in the dark state at 3.0 A resolution

Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1A, aPhotosystem II protein D1 1polymer34438265.62UniProt (P0A444)
Pfam (PF00124)
In PDB
Thermosynechococcus elongatus (strain BP-1)PSII D1 protein 1,Photosystem II Q(B) protein 1
2B, bPhotosystem II CP47 reaction center proteinpolymer51056656.52UniProt (Q8DIQ1)
Pfam (PF00421)
In PDB
Thermosynechococcus elongatus (strain BP-1)PSII 47 kDa protein,Protein CP-47
3C, cPhotosystem II CP43 reaction center proteinpolymer46150287.52UniProt (Q8DIF8)
Pfam (PF00421)
In PDB
Thermosynechococcus elongatus (strain BP-1)PSII 43 kDa protein,Protein CP-43
4D, dPhotosystem II D2 proteinpolymer35239388.22UniProt (Q8CM25)
Pfam (PF00124)
In PDB
Thermosynechococcus elongatus (strain BP-1)PSII D2 protein,Photosystem II Q(A) protein
5E, eCytochrome b559 subunit alphapolymer849580.82UniProt (Q8DIP0)
Pfam (PF00283)
Pfam (PF00284)
In PDB
Thermosynechococcus elongatus (strain BP-1)PSII reaction center subunit V
6F, fCytochrome b559 subunit betapolymer455067.92UniProt (Q8DIN9)
Pfam (PF00283)
In PDB
Thermosynechococcus elongatus (strain BP-1)PSII reaction center subunit VI
7H, hPhotosystem II reaction center protein Hpolymer667358.82UniProt (Q8DJ43)
Pfam (PF00737)
In PDB
Thermosynechococcus elongatus (strain BP-1)PSII-H
8I, iPhotosystem II reaction center protein Ipolymer384438.32UniProt (Q8DJZ6)
Pfam (PF02532)
In PDB
Thermosynechococcus elongatus (strain BP-1)PSII-I,PSII 4.4 kDa protein
9J, jPhotosystem II reaction center protein Jpolymer404105.92UniProt (P59087)
Pfam (PF01788)
In PDB
Thermosynechococcus elongatus (strain BP-1)PSII-J
10K, kPhotosystem II reaction center protein Kpolymer465028.12UniProt (Q9F1K9)
Pfam (PF02533)
In PDB
Thermosynechococcus elongatus (strain BP-1)PSII-K
11L, lPhotosystem II reaction center protein Lpolymer374299.02UniProt (Q8DIN8)
Pfam (PF02419)
In PDB
Thermosynechococcus elongatus (strain BP-1)PSII-L
12M, mPhotosystem II reaction center protein Mpolymer364009.72UniProt (Q8DHA7)
Pfam (PF05151)
In PDB
Thermosynechococcus elongatus (strain BP-1)PSII-M
13O, oPhotosystem II manganese-stabilizing polypeptidepolymer27229637.42UniProt (P0A431)
Pfam (PF01716)
In PDB
Thermosynechococcus elongatus (strain BP-1)MSP
14T, tPhotosystem II reaction center protein Tpolymer323906.72UniProt (Q8DIQ0)
Pfam (PF01405)
In PDB
Thermosynechococcus elongatus (strain BP-1)PSII-Tc
15U, uPhotosystem II 12 kDa extrinsic proteinpolymer13415031.02UniProt (Q9F1L5)
Pfam (PF06514)
In PDB
Thermosynechococcus elongatus (strain BP-1)PS II complex 12 kDa extrinsic protein,PSII-U
16V, vCytochrome c-550polymer16318046.92UniProt (P0A386)
Pfam (PF14495)
In PDB
Thermosynechococcus elongatus (strain BP-1)Cytochrome c-549,Cytochrome c550,Low-potential cytochrome c
17Y, yPhotosystem II reaction center protein Ycf12polymer465039.12UniProt (Q8DJI1)
Pfam (PF05969)
In PDB
Thermosynechococcus elongatus (strain BP-1)
18X, xPhotosystem II reaction center X proteinpolymer414322.22UniProt (Q9F1R6)
Pfam (PF06596)
In PDB
Thermosynechococcus elongatus (strain BP-1)
19Z, zPhotosystem II reaction center protein Zpolymer626766.22UniProt (Q8DHJ2)
Pfam (PF01737)
In PDB
Thermosynechococcus elongatus (strain BP-1)PSII-Z
20R, rPhotosystem II protein Ypolymer414590.62UniProt (Q8DKM3)
Pfam (PF06298)
In PDB
Thermosynechococcus elongatus (strain BP-1)
21A, aCA-MN4-O5 CLUSTERnon-polymer339.82Chemie (OEX)
22a, AFE (II) IONnon-polymer55.82Chemie (FE2)
23A, B, D, c, b...1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROLnon-polymer795.19Chemie (SQD)
24a, ACHLORIDE IONnon-polymer35.54Chemie (CL)
25b, c, A, a, D...CHLOROPHYLL Anon-polymer893.570Chemie (CLA)
26D, a, d, APHEOPHYTIN Anon-polymer871.24Chemie (PHO)
27B, c, y, D, b...BETA-CAROTENEnon-polymer536.922Chemie (BCR)
28a, D, d, A2,3-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-BENZOQUINONEnon-polymer749.24Chemie (PL9)
29A, B, C, c, D...1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDEnon-polymer787.216Chemie (LMG)
30m, A, t, B, C...UNKNOWN LIGANDnon-polymer616.517Chemie (UNL)
31A, D, a, d, L...1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLEnon-polymer723.010Chemie (LHG)
32a, ABICARBONATE IONnon-polymer61.02Chemie (BCT)
33C, c, H, hDIGALACTOSYL DIACYL GLYCEROL (DGDG)non-polymer949.38Chemie (DGD)
34E, ePROTOPORPHYRIN IX CONTAINING FEnon-polymer616.52Chemie (HEM)
35v, VHEME Cnon-polymer618.52Chemie (HEC)
36waterwater18.0124Chemie (HOH)
Sequence modifications
I, i: 2 - 38 (UniProt: Q8DJZ6)
PDBExternal DatabaseDetails
Fme 1-expression tag
M, m: 2 - 36 (UniProt: Q8DHA7)
PDBExternal DatabaseDetails
Fme 1-expression tag
T, t: 2 - 32 (UniProt: Q8DIQ0)
PDBExternal DatabaseDetails
Fme 1-expression tag
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains40
Total formula weight631653.0
Non-Polymers*Number of molecules174
Total formula weight129417.2
All*Total formula weight761070.2
*Water molecules are not included.

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數據於2024-03-27公開中

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