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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

8C29

Cryo-EM structure of photosystem II C2S2 supercomplex from Norway spruce (Picea abies) at 2.8 Angstrom resolution

Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1A, X
(A, a)		Photosystem II protein D1polymer35338803.22UniProt (P50155)Picea abies (Norway spruce)PSII D1 protein,Photosystem II Q(B) protein
2B, Y
(B, b)		Photosystem II CP47 reaction center proteinpolymer50856375.52UniProt (R4ZGX1)Picea abies (Norway spruce)
3C, Z
(C, c)		Photosystem II CP43 reaction center proteinpolymer47351785.32UniProt (R4ZGZ0)Picea abies (Norway spruce)
4AA, D
(D, d)		Photosystem II D2 proteinpolymer35339483.12UniProt (R4ZGX6)Picea abies (Norway spruce)PSII D2 protein,Photosystem Q(A) protein
5BA, E
(E, e)		Cytochrome b559 subunit alphapolymer839478.62UniProt (R4ZGW6)Picea abies (Norway spruce)PSII reaction center subunit V
6CA, F
(F, f)		Cytochrome b559 subunit betapolymer394476.32UniProt (R4ZGT7)Picea abies (Norway spruce)PSII reaction center subunit VI
7DA, G, JA, M, SA...
(G, N, Y, g, n...)		Chlorophyll a-b binding protein, chloroplasticpolymer27529112.06UniProt (Q40771)Picea abies (Norway spruce)
8EA, H
(H, h)		Photosystem II reaction center protein Hpolymer757941.12UniProt (R4ZGS7)Picea abies (Norway spruce)PSII-H
9FA, I
(I, i)		Photosystem II reaction center protein Ipolymer364185.02UniProt (R4ZGS4)Picea abies (Norway spruce)PSII-I,PSII 4.8 kDa protein
10GA, J
(K, k)		Photosystem II reaction center protein Kpolymer596804.12UniProt (R4ZGX8)Picea abies (Norway spruce)
11HA, K
(L, l)		Photosystem II reaction center protein Lpolymer384475.22UniProt (R4ZGV2)Picea abies (Norway spruce)PSII-L
12IA, L
(M, m)		Photosystem II reaction center protein Mpolymer373952.62UniProt (A2CHR7)Picea abies (Norway spruce)
13KA, N
(O, o)		Oxygen-evolving enhancer protein 1, chloroplasticpolymer34136089.52UniProt (A9NRV4)Picea abies (Norway spruce)
14LA, O
(R, r)		Chlorophyll a-b binding protein, chloroplasticpolymer30032767.92UniProt (A9NKX0)Picea abies (Norway spruce)
15MA, P
(S, s)		Chlorophyll a-b binding protein, chloroplasticpolymer30332287.92UniProt (A9NKM0)Picea abies (Norway spruce)
16NA, Q
(T, t)		Photosystem II reaction center protein Tpolymer353962.82UniProt (R4ZGU2)Picea abies (Norway spruce)PSII-T
17OA, R
(U, u)		Photosystem II 5 kDa protein, chloroplasticpolymer13314189.52UniProt (A9NJW3)Picea abies (Norway spruce)
18PA, S
(V, v)		Photosystem II reaction center protein Ycf12polymer333490.32UniProt (R4ZGY5)Picea abies (Norway spruce)
19QA, T
(W, w)		PSII 6.1 kDa proteinpolymer14615266.52UniProt (A9NLC2)Picea abies (Norway spruce)
20RA, U
(X, x)		Photosystem II PsbXpolymer12912956.92UniProt (A9NTS2)Picea abies (Norway spruce)
21TA, W
(Z, z)		Photosystem II reaction center protein Zpolymer626412.62UniProt (R4ZGT1)Picea abies (Norway spruce)
22UA, VH
(A, a)		FE (II) IONnon-polymer55.82Chemie (FE2)
PubChem (27284)
23AI, AM, AN, AO, BL...
(a, n, s, y, g...)		CHLOROPHYLL Anon-polymer893.5154Chemie (CLA)
24HK, ID, YA, ZH
(d, D, A, a)		PHEOPHYTIN Anon-polymer871.24Chemie (PHO)
25AB, AC, BI, LL, NE...
(A, B, a, h, H...)		BETA-CAROTENEnon-polymer536.920Chemie (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)
26BB, CI, RE, UE
(A, a, L, M)		1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROLnon-polymer795.14Chemie (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)
27AJ, BC, CB, EG, FK...
(b, B, A, R, c...)		1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDEnon-polymer787.212Chemie (LMG)
28AH, DB, DI, FD, IK...
(X, A, a, C, d...)		1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATEnon-polymer705.012Chemie (3PH)
PubChem (447938)
PubChem (86641)
PubChem (16211043)
29EB, EI, MK, ND
(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-BENZOQUINONEnon-polymer749.24Chemie (PL9)
PubChem (20286)
PubChem (23304240)
PubChem (21881166)
PubChem (5375177)
PubChem (6323474)
PubChem (6325820)
PubChem (6433402)
30DG, FB, FI, GM, HJ...
(R, A, a, n, b...)		1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLEnon-polymer723.018Chemie (LHG)
PubChem (446440)
PubChem (46936292)
PubChem (73416066)
PubChem (65144)
PubChem (9547104)
PubChem (11846227)
PubChem (13305396)
PubChem (138986743)
31AD, AK, BD, BK, CD...
(C, c, b, B, A...)		ALPHA-LINOLENIC ACIDnon-polymer278.426Chemie (LNL)
PubChem (445640)
PubChem (5282822)
PubChem (5312499)
PubChem (5312500)
PubChem (5312501)
PubChem (5312502)
PubChem (5312503)
PubChem (5312504)
PubChem (860)
PubChem (88801875)
PubChem (5280934)
PubChem (129853298)
PubChem (141081380)
PubChem (175709965)
PubChem (175951411)
32BJ, CC
(b, B)		PALMITOLEIC ACIDnon-polymer254.42Chemie (PAM)
PubChem (445638)
PubChem (5282745)
PubChem (4668)
33OE, QK, WC, XJ
(H, d, C, c)		DIGALACTOSYL DIACYL GLYCEROL (DGDG)non-polymer949.34Chemie (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)
34XC, YJ
(C, c)		MAGNESIUM IONnon-polymer24.32Chemie (MG)
PubChem (888)
35ED, VN
(C, y)		(2R)-2,5,7,8-TETRAMETHYL-2-[(4R,8R)-4,8,12-TRIMETHYLTRIDECYL]CHROMAN-6-OLnon-polymer430.72Chemie (VIV)
PubChem (2116)
PubChem (6033)
PubChem (21632387)
PubChem (14985)
PubChem (40970237)
PubChem (1742129)
PubChem (1548900)
PubChem (57470097)
PubChem (68099461)
PubChem (6560141)
PubChem (7059471)
PubChem (12359166)
PubChem (12359167)
PubChem (9876542)
PubChem (129628005)
PubChem (121440693)
PubChem (138470946)
36GK, HD
(d, D)		BICARBONATE IONnon-polymer61.02Chemie (BCT)
PubChem (769)
37GJ, QD
(b, D)		DIACYL GLYCEROLnon-polymer625.02Chemie (DGA)
PubChem (102615)
PubChem (9543705)
PubChem (11285052)
38RK, SD
(f, F)		PROTOPORPHYRIN IX CONTAINING FEnon-polymer616.52Chemie (HEM)
39AE, AF, AL, BE, BF...
(G, N, g, y, Y...)		CHLOROPHYLL Bnon-polymer907.550Chemie (CHL)
40AG, CM, DM, GL, HE...
(R, n, g, G, N...)		(3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOLnon-polymer568.918Chemie (LUT)
PubChem (177565809)
PubChem (181579)
PubChem (177696530)
PubChem (24728610)
PubChem (25202165)
PubChem (441664)
PubChem (44481270)
PubChem (25245095)
PubChem (46835684)
PubChem (53477744)
PubChem (53477774)
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PubChem (6433159)
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PubChem (90820720)
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PubChem (10210008)
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PubChem (89305995)
PubChem (93971688)
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PubChem (93971691)
PubChem (94424892)
PubChem (94424893)
PubChem (91007743)
PubChem (12359017)
PubChem (91330154)
PubChem (91467158)
PubChem (16061195)
PubChem (16061196)
PubChem (16061204)
PubChem (5281243)
PubChem (93535598)
PubChem (94424894)
PubChem (101351905)
PubChem (101351908)
PubChem (101351909)
PubChem (101351910)
PubChem (100935514)
PubChem (101351907)
PubChem (101351906)
PubChem (5368396)
PubChem (101727094)
PubChem (102093134)
PubChem (102514741)
PubChem (131801656)
PubChem (12085680)
PubChem (125183271)
PubChem (125183272)
PubChem (125183273)
PubChem (125183613)
PubChem (125183614)
PubChem (126970006)
PubChem (139335388)
PubChem (131801655)
PubChem (162679657)
PubChem (162945700)
PubChem (162945708)
PubChem (139595700)
PubChem (152743345)
PubChem (156583347)
PubChem (159139983)
PubChem (175679236)
PubChem (175679086)
PubChem (162945701)
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PubChem (162945705)
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PubChem (162945709)
PubChem (169423521)
PubChem (169954357)
PubChem (172748694)
41BG, FG, FM, IL, JE...
(R, n, g, G, N...)		(1R,3R)-6-{(3E,5E,7E,9E,11E,13E,15E,17E)-18-[(1S,4R,6R)-4-HYDROXY-2,2,6-TRIMETHYL-7-OXABICYCLO[4.1.0]HEPT-1-YL]-3,7,12,16-TETRAMETHYLOCTADECA-1,3,5,7,9,11,13,15,17-NONAENYLIDENE}-1,5,5-TRIMETHYLCYCLOHEXANE-1,3-DIOLnon-polymer600.910Chemie (NEX)
PubChem (177697037)
PubChem (21158515)
PubChem (52948899)
PubChem (4481261)
PubChem (5282217)
PubChem (5320120)
PubChem (159749)
PubChem (10908146)
PubChem (12358959)
PubChem (5281247)
PubChem (101052392)
PubChem (101866355)
PubChem (6384259)
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PubChem (162910894)
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PubChem (162910895)
PubChem (139033583)
PubChem (162910892)
PubChem (162910893)
PubChem (162910896)
PubChem (169502056)
PubChem (172012198)
42BH, CG, EM, HM, LE...
(Y, R, n, G, N...)		(3S,5R,6S,3'S,5'R,6'S)-5,6,5',6'-DIEPOXY-5,6,5',6'- TETRAHYDRO-BETA,BETA-CAROTENE-3,3'-DIOLnon-polymer600.98Chemie (XAT)
PubChem (179930)
PubChem (24970201)
PubChem (448438)
PubChem (46936684)
PubChem (53477762)
PubChem (51346155)
PubChem (5282218)
PubChem (5315242)
PubChem (6384269)
PubChem (6442428)
PubChem (92096)
PubChem (9851662)
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PubChem (98049828)
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PubChem (101341893)
PubChem (101341894)
PubChem (101341895)
PubChem (98049827)
PubChem (101341889)
PubChem (101341891)
PubChem (6852159)
PubChem (126456015)
PubChem (12358664)
PubChem (125183415)
PubChem (125183416)
PubChem (125183417)
PubChem (129888894)
PubChem (155293357)
PubChem (162964874)
PubChem (137331554)
PubChem (163187351)
PubChem (152743429)
PubChem (177696491)
PubChem (162964869)
PubChem (162964870)
PubChem (162964871)
PubChem (162964872)
PubChem (162964873)
PubChem (162964875)
PubChem (162964876)
PubChem (163186889)
PubChem (169544055)
PubChem (171036315)
PubChem (172817291)
43AP, BP, CP, DP, EP...
(T, U, V, Y, Z...)		waterwater18.0280Chemie (HOH)
Sequence modifications
A, a: 1 - 353 (UniProt: P50155)
PDBExternal DatabaseDetails
Phe 295Leu 295conflict
B, b: 1 - 508 (UniProt: R4ZGX1)
PDBExternal DatabaseDetails
Phe 464Ser 464conflict
C, c: 1 - 473 (UniProt: R4ZGZ0)
PDBExternal DatabaseDetails
Leu 175Pro 175conflict
Leu 433Pro 433conflict
D, d: 1 - 353 (UniProt: R4ZGX6)
PDBExternal DatabaseDetails
Leu 280Ser 280conflict
Phe 312Ser 312conflict
G, N, Y, g, n, y: 1 - 275 (UniProt: Q40771)
PDBExternal DatabaseDetails
Ile 224Leu 224conflict
Leu 249Ile 249conflict
Asn 261Thr 261conflict
K, k: 1 - 59 (UniProt: R4ZGX8)
PDBExternal DatabaseDetails
Phe 31Ser 31conflict
Phe 45Ser 45conflict
M, m: 1 - 37 (UniProt: A2CHR7)
PDBExternal DatabaseDetails
Leu 25Pro 25conflict
R, r: 1 - 300 (UniProt: A9NKX0)
PDBExternal DatabaseDetails
Thr 54Pro 54conflict
Ala 56-insertion
Val 57-insertion
Ala 58-insertion
Lys 59-insertion
Pro 60-insertion
Lys 61-insertion
Thr 62-insertion
Lys 63-insertion
Ala 64-insertion
Val 65-insertion
Ala 66-insertion
Lys 67-insertion
S, s: 1 - 303 (UniProt: A9NKM0)
PDBExternal DatabaseDetails
Leu 213Ala 213conflict
W, w: 1 - 146 (UniProt: A9NLC2)
PDBExternal DatabaseDetails
Met 98Leu 98conflict
X, x: 1 - 129 (UniProt: A9NTS2)
PDBExternal DatabaseDetails
Ala 80Val 80conflict
Z, z: 1 - 62 (UniProt: R4ZGT1)
PDBExternal DatabaseDetails
Leu 17Phe 17conflict
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains46
Total formula weight945039.4
Non-Polymers*Number of molecules358
Total formula weight270517.1
All*Total formula weight1215556.4
*Water molecules are not included.

251422

PDB entries from 2026-04-01

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