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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

7Y5E

In situ single-PBS-PSII-PSI-LHCs megacomplex.

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1A, ADA, AEA, AGA, AK...
(AA, CA, EA, GA, IA...)		Phycoerythrin alpha subunitpolymer16417824.0266UniProt (E2IH77)
UniProt (by SIFTS) (P11392)		Porphyridium purpureumR-phycoerythrin alpha subunit
2AA, AAA, ABA, ACA, AD...
(BA, DA, FA, HA, JA...)		B-phycoerythrin beta chainpolymer17718584.2288UniProt (P11393)Porphyridium purpureum
3AB, JY, LT, NN, OL...
(YA, AD, AE, AG, AH...)		R-phycoerythrin gamma chain, chloroplasticpolymer29031793.010UniProt (A0A5J4YX19)Porphyridium purpureum
4DA, Z
(AB, EB)		Linker4polymer13814749.82UniProt (A0A5J4YXP2)Porphyridium purpureum
5JA, TA
(KB, UB)		CaRSPs1polymer28831172.62UniProt (A0A5J4YJY8)Porphyridium purpureum
6BAA, VA
(WB, cB)		CaRSP2polymer32736402.02UniProt (A0A5J4YX67)Porphyridium purpureum
7GAA, LY, MY, ZA
(AC, A8, a8, aC)		LRHpolymer23720187.84Porphyridium purpureum
8AC, AE, AF, MT, PL...
(BE, BG, BH, BO, B1...)		Phycobilisome rod-core linker polypeptidepolymer23226996.76UniProt (W0RZ90)
UniProt (by SIFTS) (A0A343KP28)		Porphyridium purpureum
9AM, AP, BC, BE, BF...
(CE, EE, GE, IE, KE...)		C-phycocyanin alpha subunitpolymer16217478.736UniProt (W0RYI4)
UniProt (by SIFTS) (P37207)		Porphyridium purpureum
10BM, BP, BT, CC, CE...
(DE, FE, HE, JE, LE...)		C-phycocyanin beta subunitpolymer17218242.736UniProt (W0RZB2)
UniProt (by SIFTS) (P37208)		Porphyridium purpureum
11JP, LM, WC, WE, WF...
(XE, XG, XH, XO, X1...)		Phycobilisome 31.8 kDa linker polypeptide, phycoerythrin-associated, rodpolymer36339727.66UniProt (A0A5J4YM59)
Pfam (PF00427)
Pfam (PF01383)		Porphyridium purpureum
12LG, YG
(MI, ZI)		Phycobilisome 27.9 kDa linker polypeptide, phycoerythrin-associated, rodpolymer31634958.72UniProt (A0A5J4Z323)
Pfam (PF00427)		Porphyridium purpureum
13DCA, ECA, QEA, REA, YJ...
(AJ, AM, wF, xF, wK...)		R-phycoerythrin gamma chain, chloroplasticpolymer27329453.66UniProt (A0A5J4YZM7)Porphyridium purpureum
14AH, FCA, SEA, ZJ
(BJ, BM, yF, yK)		R-phycoerythrin gamma chain, chloroplasticpolymer29031358.84UniProt (A0A5J4YZH3)Porphyridium purpureum
15NW, OV, UEA, ZI
(AL, A6, a6, aL)		Photosystem II protein D1polymer36039519.04UniProt (W0RZ08)Porphyridium purpureumPSII D1 protein,Photosystem II Q(B) protein
16AJ, OW, PV, VEA
(BL, B6, b6, bL)		Photosystem II CP47 reaction center proteinpolymer50956412.24UniProt (W0RZ84)Porphyridium purpureumPSII 47 kDa protein,Protein CP-47
17BJ, PW, QV, WEA
(CL, C6, c6, cL)		Photosystem II CP43 reaction center proteinpolymer47352081.44UniProt (W0RYK4)Porphyridium purpureumPSII 43 kDa protein,Protein CP-43
18CJ, QW, RV, XEA
(DL, D6, d6, dL)		Photosystem II D2 proteinpolymer35139253.94UniProt (W0RYZ0)Porphyridium purpureumPSII D2 protein,Photosystem Q(A) protein
19DJ, RW, SV, YEA
(EL, E6, e6, eL)		Cytochrome b559 subunit alphapolymer849477.64UniProt (W0RYH5)Porphyridium purpureumPSII reaction center subunit V
20EJ, SW, TV, ZEA
(FL, F6, f6, fL)		Cytochrome b559 subunit betapolymer445032.94UniProt (W0S1X0)Porphyridium purpureumPSII reaction center subunit VI
21AFA, FJ, TW, UV
(GL, G6, g6, gL)		PSII_Pbs31 domain-containing proteinpolymer21322527.84UniProt (A0A5J4Z270)
Pfam (PF18240)		Porphyridium purpureum
22BFA, GJ, UW, VV
(HL, H6, h6, hL)		Photosystem II reaction center protein Hpolymer677576.94UniProt (W0RYU5)Porphyridium purpureumPSII-H
23CFA, HJ, VW, WV
(IL, I6, i6, iL)		Photosystem II reaction center protein Ipolymer384522.34UniProt (W0RYJ5)Porphyridium purpureumPSII-I,PSII 4.4 kDa protein
24DFA, IJ, WW, XV
(JL, J6, j6, jL)		Photosystem II reaction center protein Jpolymer393944.74UniProt (W0RYQ6)Porphyridium purpureumPSII-J
25EFA, JJ, XW, YV
(KL, K6, k6, kL)		Photosystem II reaction center protein Kpolymer455178.24UniProt (W0RZ28)Porphyridium purpureumPSII-K
26FFA, KJ, YW, ZV
(LL, L6, l6, lL)		PsbLpolymer384420.14UniProt (W0RZ31)Porphyridium purpureum
27AW, GFA, LJ, ZW
(ML, M6, m6, mL)		PsbMpolymer10110463.04UniProt (A0A5J4YYD7)
Pfam (PF05151)		Porphyridium purpureum
28AX, BW, HFA, MJ
(NL, N6, n6, nL)		Psb34polymer292486.14Porphyridium purpureum
29BX, CW, IFA, NJ
(OL, O6, o6, oL)		Oxygen-evolving enhancer proteinpolymer28730890.14UniProt (E5RPB3)
Pfam (PF01716)
UniProt (by SIFTS) (A0A5J4Z3A3)		Porphyridium purpureum
30CX, DW, JFA, OJ
(QL, Q6, q6, qL)		PsbQ'polymer20522397.54UniProt (A0A5J4Z679)
Pfam (PF05757)		Porphyridium purpureum
31DX, EW, KFA, PJ
(RL, R6, r6, rL)		Photosystem II protein Ypolymer333727.54UniProt (W0S1X5)Porphyridium purpureum
32FW, QJ
(SL, S6)		LPP1polymer11910145.52Porphyridium purpureum
33EX, GW, LFA, RJ
(TL, T6, t6, tL)		Photosystem II reaction center protein Tpolymer313579.44UniProt (W0RYV0)Porphyridium purpureumPSII-T
34FX, HW, MFA, SJ
(UL, U6, u6, uL)		PS II complex 12 kDa extrinsic proteinpolymer15016382.74UniProt (A0A5J4YLQ6)
Pfam (PF06514)		Porphyridium purpureum
35GX, IW, NFA, TJ
(VL, V6, v6, vL)		Cytochrome c550polymer16217764.44UniProt (W0RYZ6)Porphyridium purpureumOxygen-evolving complex component
36HX, JW, OFA, UJ
(WL, W6, w6, wL)		PsbWpolymer463932.84Porphyridium purpureum
37IX, KW, PFA, VJ
(XL, X6, x6, xL)		Photosystem II reaction center X proteinpolymer394148.04UniProt (W0RZ76)Porphyridium purpureum
38JX, LW, QFA, WJ
(YL, Y6, y6, yL)		Photosystem II reaction center protein Ycf12polymer343681.64UniProt (W0RZ91)Porphyridium purpureum
39KX, MW, RFA, XJ
(ZL, Z6, z6, zL)		Photosystem II reaction center protein Zpolymer626500.74UniProt (W0RZ40)Porphyridium purpureumPSII-Z
40HQ, YK
(AN, A2)		PsaApolymer75283311.72UniProt (W0S1N1)Porphyridium purpureum
41IQ, ZK
(BN, B2)		Photosystem I P700 chlorophyll a apoprotein A2polymer73282055.62UniProt (W0RYU6)Porphyridium purpureumPsaB
42AL, JQ
(CN, C2)		Photosystem I iron-sulfur centerpolymer818807.32UniProt (W0S231)Porphyridium purpureum9 kDa polypeptide,PSI-C,Photosystem I subunit VII,PsaC
43BL, KQ
(DN, D2)		Photosystem I reaction center subunit IIpolymer14215852.02UniProt (W0RZ23)Porphyridium purpureum
44CL, LQ
(EN, E2)		Photosystem I reaction center subunit IVpolymer617008.92UniProt (W0RYG1)Porphyridium purpureum
45DL, MQ
(FN, F2)		Photosystem I reaction center subunit IIIpolymer18520753.42UniProt (W0RZ71)Porphyridium purpureumPSI-F
46EL, NQ
(GN, G2)		Cytochrome c6polymer10411033.52UniProt (W0S1L8)
UniProt (by SIFTS) (A0A343KNS7)		Porphyridium purpureumCytochrome c-553,Cytochrome c553,Soluble cytochrome f
47FL, OQ
(IN, I2)		Photosystem I reaction center subunit VIIIpolymer374050.92UniProt (W0RZ51)Porphyridium purpureum
48GL, PQ
(JN, J2)		Photosystem I reaction center subunit IXpolymer424832.72UniProt (W0RYG9)Porphyridium purpureum
49HL, QQ
(KN, K2)		Photosystem I reaction center subunit PsaKpolymer706992.32UniProt (W0RZ04)Porphyridium purpureumPhotosystem I subunit X
50IL, RQ
(LN, L2)		Photosystem I reaction center subunit XIpolymer14014928.02UniProt (W0S1Z0)Porphyridium purpureumPSI subunit V,PSI-L
51JL, SQ
(MN, M2)		Photosystem I reaction center subunit XIIpolymer303187.92UniProt (W0S1Z9)Porphyridium purpureumPSI-M
52KL, TQ
(NN, N2)		Ferredoxinpolymer9910590.62UniProt (W0RYF9)Porphyridium purpureum
53LL, UQ
(ON, O2)		Photosystem I subunit Opolymer929934.42UniProt (A0A5J4YUC8)
Pfam (PF22832)		Porphyridium purpureum
54ML, VQ
(RN, R2)		PsaRpolymer788246.62UniProt (A0A5J4YR43)Porphyridium purpureum
55NL, WQ
(ZN, Z2)		LPS1polymer665634.92Porphyridium purpureum
56AHA, MN
(YP, bP)		Phycobilisome 31.8 kDa linker polypeptide, phycoerythrin-associated, rodpolymer42646295.32UniProt (A0A5J4YMI8)
Pfam (PF00427)		Porphyridium purpureum
57FGA, ZP
(12, 1N)		Chlorophyll a-b binding protein, chloroplasticpolymer17419187.72UniProt (A0A5J4Z6J3)
Pfam (PF00504)		Porphyridium purpureum
58AQ, GGA
(22, 2N)		Chlorophyll a-b binding protein of LHCII type III, chloroplasticpolymer16618031.92UniProt (P93450)
Pfam (PF00504)		Porphyridium purpureumLight-harvesting complex I polypeptide
59BQ, HGA
(32, 3N)		Chlorophyll a-b binding protein, chloroplasticpolymer16918526.52UniProt (A0A5J4YYC4)
Pfam (PF00504)		Porphyridium purpureum
60CQ, IGA
(42, 4N)		Chlorophyll a-b binding protein 1B-21, chloroplasticpolymer17219333.62UniProt (A0A5J4ZAY0)
Pfam (PF00504)		Porphyridium purpureum
61DQ, JGA
(52, 5N)		Chlorophyll a-b binding protein 1B-21, chloroplasticpolymer17419059.32UniProt (A0A5J4YSS5)
Pfam (PF00504)		Porphyridium purpureum
62EQ, KGA
(62, 6N)		Chlorophyll a-b binding protein 1B-21, chloroplasticpolymer16918666.62UniProt (A0A5J4YN76)
Pfam (PF00504)		Porphyridium purpureum
63FQ, LGA
(72, 7N)		Fucoxanthin-chlorophyll a-c binding protein, chloroplasticpolymer16418397.22UniProt (A0A5J4YKR2)
Pfam (PF00504)		Porphyridium purpureum
64GQ, MGA
(82, 8N)		RedCAPpolymer18019576.82UniProt (A0A5J4YP51)
Pfam (PF00504)		Porphyridium purpureum
65XQ, YR
(23, Z3)		Lrc4polymer15916915.32UniProt (A0A5J4YTV6)Porphyridium purpureum
66YQ, ZR
(33, a3)		LRC5polymer28830273.02UniProt (A0A5J4Z2M2)Porphyridium purpureum
67AS, ZQ
(43, b3)		FAS1 domain-containing proteinpolymer25326620.72UniProt (A0A5J4ZA95)
Pfam (PF02469)		Porphyridium purpureum
68AR, BS, CR, DS, ER...
(A3, C3, E3, G3, J3...)		Allophycocyanin alpha subunitpolymer16117639.120UniProt (W0RYM0)Porphyridium purpureum
69BR, CS, DR, ES, FR...
(B3, D3, F3, H3, I3...)		Allophycocyanin beta subunitpolymer16117415.822UniProt (W0S279)Porphyridium purpureum
70VR, WS
(V3, x3)		Allophycocyanin gamma subunitpolymer16118126.92UniProt (W0S1U6)Porphyridium purpureum
71WR, XS
(W3, y3)		Allophycocyanin beta 18 subunitpolymer17319778.72UniProt (W0RZE2)Porphyridium purpureum
72XR, YS
(X3, z3)		Phycobilisome 7.8 kDa linker polypeptide, allophycocyanin-associated, corepolymer9310429.02UniProt (A0A5J4YVZ2)
Pfam (PF01383)		Porphyridium purpureum
73AT, ZS
(63, 73)		Phycobiliprotein ApcEpolymer87999484.42UniProt (A0A343KPB8)Porphyridium purpureumAnchor polypeptide,PBS-anchor protein,Phycobilisome linker polypeptide
74AV, CHA, DHA, NV
(M5, Z5, Z9, M9)		R-phycoerythrin gamma chain, chloroplasticpolymer33336925.04UniProt (A0A5J4YNU6)Porphyridium purpureum
75KY, XZ
(e7, eA)		Phycobilisome 31.8 kDa linker polypeptide, phycoerythrin-associated, rodpolymer30332886.22UniProt (A0A5J4Z7F4)
Pfam (PF00427)		Porphyridium purpureum
76FAA, YZ
(fB, hB)		FAS1 domain-containing proteinpolymer28831333.02UniProt (A0A5J4Z027)
Pfam (PF02469)		Porphyridium purpureum
77BHA, TAA
(dD, dQ)		Phycobilisome 27.9 kDa linker polypeptide, phycoerythrin-associated, rodpolymer34237176.02UniProt (A0A5J4Z162)
Pfam (PF00427)		Porphyridium purpureum
78GCA, TEA
(zF, zK)		Phycobilisome 31.8 kDa linker polypeptide, phycoerythrin-associated, rodpolymer49855146.72UniProt (A0A5J4YI31)
Pfam (PF00427)		Porphyridium purpureum
79EGA, TDA
(bJ, bM)		Phycobilisome 32.1 kDa linker polypeptide, phycocyanin-associated, rodpolymer49053601.32UniProt (A0A5J4YX63)
Pfam (PF00427)		Porphyridium purpureum
80EHA, FHA
(Y3, 53)		LPP2polymer16217273.82UniProt (A0A5J4Z365)Porphyridium purpureum
81GHA, HHA, IHA, JHA
(46, 16, 4L, 1L)		CNTpolymer11810060.44Porphyridium purpureum
82AAB, AAD, ABB, ABD, ACB...
(IJ, I9, SJ, U9, DK...)		PHYCOERYTHROBILINnon-polymer588.71496Chemie (PEB)
83AJB, AKC, APC, ATA, AXD...
(QM, A4, Z5, AG, M9...)		PHYCOUROBILINnon-polymer590.747Chemie (PUB)
84AIC, AJC, APA, BIC, BJC...
(N3, t3, FE, O3, u3...)		PHYCOCYANOBILINnon-polymer588.7120Chemie (CYC)
85AGC, AOB, ASC, BGC, BHB...
(B2, IN, K6, HL, bL...)		BETA-CAROTENEnon-polymer536.982Chemie (BCR)
PubChem (573)
PubChem (21672398)
PubChem (176490061)
PubChem (177696266)
PubChem (46783370)
PubChem (46846294)
PubChem (54603957)
PubChem (54612003)
PubChem (86765360)
PubChem (5315709)
PubChem (5280489)
PubChem (91827292)
PubChem (92863345)
PubChem (5353436)
PubChem (5356616)
PubChem (5927371)
PubChem (124919640)
PubChem (92863346)
PubChem (92863347)
PubChem (92863348)
PubChem (6477957)
PubChem (100990628)
PubChem (101525094)
PubChem (101525095)
PubChem (9828626)
PubChem (10256668)
PubChem (12305639)
PubChem (12305640)
PubChem (12305642)
PubChem (12305644)
PubChem (12305647)
PubChem (12305652)
PubChem (146673260)
PubChem (152743364)
PubChem (124919639)
PubChem (160505766)
PubChem (129651951)
PubChem (132274419)
PubChem (145925599)
PubChem (159562859)
PubChem (172654026)
PubChem (172878405)
PubChem (173398668)
86GEB, MSC, OQC, QND
(AL, a6, C6, aL)		CHLORIDE IONnon-polymer35.54Chemie (CL)
PubChem (312)
87AAC, ABC, ACC, ADC, AFB...
(32, 52, 72, A2, BL...)		CHLOROPHYLL Anon-polymer893.5514Chemie (CLA)
88AQD, AVC, BEC, BSC, CEC...
(dL, i6, A2, L6, B6...)		1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLEnon-polymer723.034Chemie (LHG)
PubChem (46936292)
PubChem (446440)
PubChem (73416066)
PubChem (65144)
PubChem (9547104)
PubChem (13305396)
PubChem (11846227)
PubChem (138986743)
89HPC, MEB, RSC, WND
(A6, AL, a6, aL)		CA-MN4-O5 CLUSTERnon-polymer339.84Chemie (OEX)
90IPC, NEB, SSC, XND
(A6, AL, a6, aL)		FE (III) IONnon-polymer55.84Chemie (FE)
PubChem (29936)
91JPC, JRC, OEB, QUC, TGB...
(A6, D6, AL, d6, DL...)		PHEOPHYTIN Anon-polymer871.28Chemie (PHO)
92CVC, DHB, DVC, EHB, EQC...
(j6, JL, B6, k6, BL...)		1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDEnon-polymer787.240Chemie (LMG)
93AOD, LPC, QEB, WUC
(aL, A6, AL, d6)		BICARBONATE IONnon-polymer61.04Chemie (BCT)
PubChem (769)
94HSC, MPC, NRC, PGB, PND...
(a6, A6, D6, DL, aL...)		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-polymer749.28Chemie (PL9)
PubChem (23304240)
PubChem (20286)
PubChem (21881166)
PubChem (5375177)
PubChem (6323474)
PubChem (6325820)
PubChem (6433402)
95APD, BFB, CGC, CHB, CSC...
(cL, BL, B2, JL, L6...)		DIGALACTOSYL DIACYL GLYCEROL (DGDG)non-polymer949.338Chemie (DGD)
PubChem (24865462)
PubChem (24865463)
PubChem (50904896)
PubChem (53480668)
PubChem (46936671)
PubChem (448441)
PubChem (447899)
PubChem (4629344)
PubChem (15991538)
PubChem (154573294)
PubChem (171123158)
PubChem (134746152)
PubChem (140529801)
96DQD, FSC, IHB, KGC, KVC...
(fL, V6, VL, G2, v6...)		PROTOPORPHYRIN IX CONTAINING FEnon-polymer616.510Chemie (HEM)
97BVC, JHB, PQD, WRC
(i6, WL, wL, I6)		GLYCEROLnon-polymer92.14Chemie (GOL)
PubChem (753)
98AEC, KNB, PLB, VFC
(A2, BN, AN, B2)		PHYLLOQUINONEnon-polymer450.74Chemie (PQN)
PubChem (4812)
PubChem (21896458)
PubChem (57138572)
PubChem (5315258)
PubChem (5280483)
PubChem (5284607)
PubChem (7048754)
PubChem (92436622)
PubChem (93233163)
PubChem (93971968)
PubChem (133612476)
PubChem (7048753)
PubChem (7048755)
PubChem (9846607)
PubChem (162999945)
99DGC, DMB, EGC, NEC, SNB...
(C2, BN, B2, CN)		IRON/SULFUR CLUSTERnon-polymer351.66Chemie (SF4)
100GOB, RGC
(JN, J2)		(2S)-2,3-dihydroxypropyl octadecanoatenon-polymer358.62Chemie (3XQ)
PubChem (24699)
PubChem (15560610)
PubChem (15560611)
101FHC, TOB
(N2, NN)		FE2/S2 (INORGANIC) CLUSTERnon-polymer175.82Chemie (FES)
102USD, VZB
(3N, 32)		beta-D-glucopyranosenon-polymer180.22Chemie (BGC)
103HVD, IVD, JCC, KCC
(8N, 82)		(1R,2S)-4-{(1E,3E,5E,7E,9E,11E,13E,15E,17E)-18-[(4S)-4-hydroxy-2,6,6-trimethylcyclohex-1-en-1-yl]-3,7,12,16-tetramethyloctadeca-1,3,5,7,9,11,13,15,17-nonaen-1-yl}-2,5,5-trimethylcyclohex-3-en-1-olnon-polymer568.94Chemie (ZEX)
PubChem (91827303)
PubChem (137350207)
104DXD, EXD
(a6, aL)		waterwater18.04Chemie (HOH)
Sequence modifications
XE, XG, XH, XO, X1, X4: 9 - 371 (UniProt: A0A5J4YM59)
PDBExternal DatabaseDetails
Ala 275Ser 267conflict
72, 7N: 38 - 201 (UniProt: A0A5J4YKR2)
PDBExternal DatabaseDetails
-Lys 113deletion
-Thr 114deletion
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains894
Total formula weight17049602.0
Non-Polymers*Number of molecules2437
Total formula weight1603592.7
All*Total formula weight18653194.7
*Water molecules are not included.

253091

PDB entries from 2026-05-06

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