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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
1AA, CA, EA, GA, IA...Phycoerythrin alpha subunitpolymer16417824.0266UniProt (E2IH77)
Pfam (PF00502)
UniProt (by SIFTS) (P11392)
In PDB		Porphyridium purpureumR-phycoerythrin alpha subunit
2BA, DA, FA, HA, JA...B-phycoerythrin beta chainpolymer17718584.2288UniProt (P11393)
Pfam (PF00502)
In PDB		Porphyridium purpureum
3YA, AD, AE, AG, AH...R-phycoerythrin gamma chain, chloroplasticpolymer29031793.010UniProt (A0A5J4YX19)
In PDB		Porphyridium purpureum
4AB, EBLinker4polymer13814749.82UniProt (A0A5J4YXP2)
In PDB		Porphyridium purpureum
5KB, UBCaRSPs1polymer28831172.62UniProt (A0A5J4YJY8)
In PDB		Porphyridium purpureum
6WB, cBCaRSP2polymer32736402.02UniProt (A0A5J4YX67)
In PDB		Porphyridium purpureum
7AC, A8, a8, aCLRHpolymer23720187.84Porphyridium purpureum
8BE, BG, BH, BO, B1...Phycobilisome rod-core linker polypeptidepolymer23226996.76UniProt (W0RZ90)
Pfam (PF00427)
UniProt (by SIFTS) (A0A343KP28)
In PDB		Porphyridium purpureum
9CE, EE, GE, IE, KE...C-phycocyanin alpha subunitpolymer16217478.736UniProt (W0RYI4)
Pfam (PF00502)
UniProt (by SIFTS) (P37207)
In PDB		Porphyridium purpureum
10DE, FE, HE, JE, LE...C-phycocyanin beta subunitpolymer17218242.736UniProt (W0RZB2)
Pfam (PF00502)
UniProt (by SIFTS) (P37208)
In PDB		Porphyridium purpureum
11XE, XG, XH, XO, X1...Phycobilisome 31.8 kDa linker polypeptide, phycoerythrin-associated, rodpolymer36339727.66UniProt (A0A5J4YM59)
Pfam (PF00427)
Pfam (PF01383)
In PDB		Porphyridium purpureum
12MI, ZIPhycobilisome 27.9 kDa linker polypeptide, phycoerythrin-associated, rodpolymer31634958.72UniProt (A0A5J4Z323)
Pfam (PF00427)
In PDB		Porphyridium purpureum
13AJ, AM, wF, xF, wK...R-phycoerythrin gamma chain, chloroplasticpolymer27329453.66UniProt (A0A5J4YZM7)
In PDB		Porphyridium purpureum
14BJ, BM, yF, yKR-phycoerythrin gamma chain, chloroplasticpolymer29031358.84UniProt (A0A5J4YZH3)
In PDB		Porphyridium purpureum
15AL, A6, a6, aLPhotosystem II protein D1polymer36039519.04UniProt (W0RZ08)
Pfam (PF00124)
In PDB		Porphyridium purpureumPSII D1 protein,Photosystem II Q(B) protein
16BL, B6, b6, bLPhotosystem II CP47 reaction center proteinpolymer50956412.24UniProt (W0RZ84)
Pfam (PF00421)
In PDB		Porphyridium purpureumPSII 47 kDa protein,Protein CP-47
17CL, C6, c6, cLPhotosystem II CP43 reaction center proteinpolymer47352081.44UniProt (W0RYK4)
Pfam (PF00421)
In PDB		Porphyridium purpureumPSII 43 kDa protein,Protein CP-43
18DL, D6, d6, dLPhotosystem II D2 proteinpolymer35139253.94UniProt (W0RYZ0)
Pfam (PF00124)
In PDB		Porphyridium purpureumPSII D2 protein,Photosystem Q(A) protein
19EL, E6, e6, eLCytochrome b559 subunit alphapolymer849477.64UniProt (W0RYH5)
Pfam (PF00283)
Pfam (PF00284)
In PDB		Porphyridium purpureumPSII reaction center subunit V
20FL, F6, f6, fLCytochrome b559 subunit betapolymer445032.94UniProt (W0S1X0)
Pfam (PF00283)
In PDB		Porphyridium purpureumPSII reaction center subunit VI
21GL, G6, g6, gLPSII_Pbs31 domain-containing proteinpolymer21322527.84UniProt (A0A5J4Z270)
Pfam (PF18240)
In PDB		Porphyridium purpureum
22HL, H6, h6, hLPhotosystem II reaction center protein Hpolymer677576.94UniProt (W0RYU5)
Pfam (PF00737)
In PDB		Porphyridium purpureumPSII-H
23IL, I6, i6, iLPhotosystem II reaction center protein Ipolymer384522.34UniProt (W0RYJ5)
Pfam (PF02532)
In PDB		Porphyridium purpureumPSII-I,PSII 4.4 kDa protein
24JL, J6, j6, jLPhotosystem II reaction center protein Jpolymer393944.74UniProt (W0RYQ6)
Pfam (PF01788)
In PDB		Porphyridium purpureumPSII-J
25KL, K6, k6, kLPhotosystem II reaction center protein Kpolymer455178.24UniProt (W0RZ28)
Pfam (PF02533)
In PDB		Porphyridium purpureumPSII-K
26LL, L6, l6, lLPsbLpolymer384420.14UniProt (W0RZ31)
Pfam (PF02419)
In PDB		Porphyridium purpureum
27ML, M6, m6, mLPsbMpolymer10110463.04UniProt (A0A5J4YYD7)
Pfam (PF05151)
In PDB		Porphyridium purpureum
28NL, N6, n6, nLPsb34polymer292486.14Porphyridium purpureum
29OL, O6, o6, oLOxygen-evolving enhancer proteinpolymer28730890.14UniProt (E5RPB3)
Pfam (PF01716)
UniProt (by SIFTS) (A0A5J4Z3A3)
In PDB		Porphyridium purpureum
30QL, Q6, q6, qLPsbQ'polymer20522397.54UniProt (A0A5J4Z679)
In PDB		Porphyridium purpureum
31RL, R6, r6, rLPhotosystem II protein Ypolymer333727.54UniProt (W0S1X5)
Pfam (PF06298)
In PDB		Porphyridium purpureum
32SL, S6LPP1polymer11910145.52Porphyridium purpureum
33TL, T6, t6, tLPhotosystem II reaction center protein Tpolymer313579.44UniProt (W0RYV0)
Pfam (PF01405)
In PDB		Porphyridium purpureumPSII-T
34UL, U6, u6, uLPS II complex 12 kDa extrinsic proteinpolymer15016382.74UniProt (A0A5J4YLQ6)
Pfam (PF06514)
In PDB		Porphyridium purpureum
35VL, V6, v6, vLCytochrome c550polymer16217764.44UniProt (W0RYZ6)
Pfam (PF14495)
In PDB		Porphyridium purpureumOxygen-evolving complex component
36WL, W6, w6, wLPsbWpolymer463932.84Porphyridium purpureum
37XL, X6, x6, xLPhotosystem II reaction center X proteinpolymer394148.04UniProt (W0RZ76)
Pfam (PF06596)
In PDB		Porphyridium purpureum
38YL, Y6, y6, yLPhotosystem II reaction center protein Ycf12polymer343681.64UniProt (W0RZ91)
Pfam (PF05969)
In PDB		Porphyridium purpureum
39ZL, Z6, z6, zLPhotosystem II reaction center protein Zpolymer626500.74UniProt (W0RZ40)
Pfam (PF01737)
In PDB		Porphyridium purpureumPSII-Z
40AN, A2PsaApolymer75283311.72UniProt (W0S1N1)
Pfam (PF00223)
In PDB		Porphyridium purpureum
41BN, B2Photosystem I P700 chlorophyll a apoprotein A2polymer73282055.62UniProt (W0RYU6)
Pfam (PF00223)
In PDB		Porphyridium purpureumPsaB
42CN, C2Photosystem I iron-sulfur centerpolymer818807.32UniProt (W0S231)
Pfam (PF12838)
In PDB		Porphyridium purpureum9 kDa polypeptide,PSI-C,Photosystem I subunit VII,PsaC
43DN, D2Photosystem I reaction center subunit IIpolymer14215852.02UniProt (W0RZ23)
Pfam (PF02531)
In PDB		Porphyridium purpureum
44EN, E2Photosystem I reaction center subunit IVpolymer617008.92UniProt (W0RYG1)
Pfam (PF02427)
In PDB		Porphyridium purpureum
45FN, F2Photosystem I reaction center subunit IIIpolymer18520753.42UniProt (W0RZ71)
Pfam (PF02507)
In PDB		Porphyridium purpureumPSI-F
46GN, G2Cytochrome c6polymer10411033.52UniProt (W0S1L8)
Pfam (PF13442)
UniProt (by SIFTS) (A0A343KNS7)
In PDB		Porphyridium purpureumCytochrome c-553,Cytochrome c553,Soluble cytochrome f
47IN, I2Photosystem I reaction center subunit VIIIpolymer374050.92UniProt (W0RZ51)
Pfam (PF00796)
In PDB		Porphyridium purpureum
48JN, J2Photosystem I reaction center subunit IXpolymer424832.72UniProt (W0RYG9)
Pfam (PF01701)
In PDB		Porphyridium purpureum
49KN, K2Photosystem I reaction center subunit PsaKpolymer706992.32UniProt (W0RZ04)
Pfam (PF01241)
In PDB		Porphyridium purpureumPhotosystem I subunit X
50LN, L2Photosystem I reaction center subunit XIpolymer14014928.02UniProt (W0S1Z0)
Pfam (PF02605)
In PDB		Porphyridium purpureumPSI subunit V,PSI-L
51MN, M2Photosystem I reaction center subunit XIIpolymer303187.92UniProt (W0S1Z9)
Pfam (PF07465)
In PDB		Porphyridium purpureumPSI-M
52NN, N2Ferredoxinpolymer9910590.62UniProt (W0RYF9)
Pfam (PF00111)
In PDB		Porphyridium purpureum
53ON, O2Photosystem I subunit Opolymer929934.42UniProt (A0A5J4YUC8)
In PDB		Porphyridium purpureum
54RN, R2PsaRpolymer788246.62UniProt (A0A5J4YR43)
In PDB		Porphyridium purpureum
55ZN, Z2LPS1polymer665634.92Porphyridium purpureum
56YP, bPPhycobilisome 31.8 kDa linker polypeptide, phycoerythrin-associated, rodpolymer42646295.32UniProt (A0A5J4YMI8)
Pfam (PF00427)
In PDB		Porphyridium purpureum
5712, 1NChlorophyll a-b binding protein, chloroplasticpolymer17419187.72UniProt (A0A5J4Z6J3)
Pfam (PF00504)
In PDB		Porphyridium purpureum
5822, 2NChlorophyll a-b binding protein of LHCII type III, chloroplasticpolymer16618031.92UniProt (P93450)
Pfam (PF00504)
In PDB		Porphyridium purpureumLight-harvesting complex I polypeptide
5932, 3NChlorophyll a-b binding protein, chloroplasticpolymer16918526.52UniProt (A0A5J4YYC4)
Pfam (PF00504)
In PDB		Porphyridium purpureum
6042, 4NChlorophyll a-b binding protein 1B-21, chloroplasticpolymer17219333.62UniProt (A0A5J4ZAY0)
Pfam (PF00504)
In PDB		Porphyridium purpureum
6152, 5NChlorophyll a-b binding protein 1B-21, chloroplasticpolymer17419059.32UniProt (A0A5J4YSS5)
Pfam (PF00504)
In PDB		Porphyridium purpureum
6262, 6NChlorophyll a-b binding protein 1B-21, chloroplasticpolymer16918666.62UniProt (A0A5J4YN76)
Pfam (PF00504)
In PDB		Porphyridium purpureum
6372, 7NFucoxanthin-chlorophyll a-c binding protein, chloroplasticpolymer16418397.22UniProt (A0A5J4YKR2)
Pfam (PF00504)
In PDB		Porphyridium purpureum
6482, 8NRedCAPpolymer18019576.82UniProt (A0A5J4YP51)
Pfam (PF00504)
In PDB		Porphyridium purpureum
6523, Z3Lrc4polymer15916915.32UniProt (A0A5J4YTV6)
In PDB		Porphyridium purpureum
6633, a3LRC5polymer28830273.02UniProt (A0A5J4Z2M2)
In PDB		Porphyridium purpureum
6743, b3FAS1 domain-containing proteinpolymer25326620.72UniProt (A0A5J4ZA95)
Pfam (PF02469)
In PDB		Porphyridium purpureum
68A3, C3, E3, G3, J3...Allophycocyanin alpha subunitpolymer16117639.120UniProt (W0RYM0)
Pfam (PF00502)
In PDB		Porphyridium purpureum
69B3, D3, F3, H3, I3...Allophycocyanin beta subunitpolymer16117415.822UniProt (W0S279)
Pfam (PF00502)
In PDB		Porphyridium purpureum
70V3, x3Allophycocyanin gamma subunitpolymer16118126.92UniProt (W0S1U6)
Pfam (PF00502)
In PDB		Porphyridium purpureum
71W3, y3Allophycocyanin beta 18 subunitpolymer17319778.72UniProt (W0RZE2)
Pfam (PF00502)
In PDB		Porphyridium purpureum
72X3, z3Phycobilisome 7.8 kDa linker polypeptide, allophycocyanin-associated, corepolymer9310429.02UniProt (A0A5J4YVZ2)
Pfam (PF01383)
In PDB		Porphyridium purpureum
7363, 73Phycobiliprotein ApcEpolymer87999484.42UniProt (A0A343KPB8)
Pfam (PF00502)
Pfam (PF00427)
In PDB		Porphyridium purpureumAnchor polypeptide,PBS-anchor protein,Phycobilisome linker polypeptide
74M5, Z5, Z9, M9R-phycoerythrin gamma chain, chloroplasticpolymer33336925.04UniProt (A0A5J4YNU6)
In PDB		Porphyridium purpureum
75e7, eAPhycobilisome 31.8 kDa linker polypeptide, phycoerythrin-associated, rodpolymer30332886.22UniProt (A0A5J4Z7F4)
Pfam (PF00427)
In PDB		Porphyridium purpureum
76fB, hBFAS1 domain-containing proteinpolymer28831333.02UniProt (A0A5J4Z027)
Pfam (PF02469)
In PDB		Porphyridium purpureum
77dD, dQPhycobilisome 27.9 kDa linker polypeptide, phycoerythrin-associated, rodpolymer34237176.02UniProt (A0A5J4Z162)
Pfam (PF00427)
In PDB		Porphyridium purpureum
78zF, zKPhycobilisome 31.8 kDa linker polypeptide, phycoerythrin-associated, rodpolymer49855146.72UniProt (A0A5J4YI31)
Pfam (PF00427)
In PDB		Porphyridium purpureum
79bJ, bMPhycobilisome 32.1 kDa linker polypeptide, phycocyanin-associated, rodpolymer49053601.32UniProt (A0A5J4YX63)
Pfam (PF00427)
In PDB		Porphyridium purpureum
80Y3, 53LPP2polymer16217273.82UniProt (A0A5J4Z365)
In PDB		Porphyridium purpureum
8146, 16, 4L, 1LCNTpolymer11810060.44Porphyridium purpureum
82IJ, I9, SJ, U9, DK...PHYCOERYTHROBILINnon-polymer588.71496Chemie (PEB)
83QM, A4, Z5, AG, M9...PHYCOUROBILINnon-polymer590.747Chemie (PUB)
84N3, t3, FE, O3, u3...PHYCOCYANOBILINnon-polymer588.7120Chemie (CYC)
85B2, IN, K6, HL, bL...BETA-CAROTENEnon-polymer536.982Chemie (BCR)
86AL, a6, C6, aLCHLORIDE IONnon-polymer35.54Chemie (CL)
8732, 52, 72, A2, BL...CHLOROPHYLL Anon-polymer893.5514Chemie (CLA)
88dL, i6, A2, L6, B6...1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLEnon-polymer723.034Chemie (LHG)
89A6, AL, a6, aLCA-MN4-O5 CLUSTERnon-polymer339.84Chemie (OEX)
90A6, AL, a6, aLFE (III) IONnon-polymer55.84Chemie (FE)
91A6, D6, AL, d6, DL...PHEOPHYTIN Anon-polymer871.28Chemie (PHO)
92j6, JL, B6, k6, BL...1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDEnon-polymer787.240Chemie (LMG)
93aL, A6, AL, d6BICARBONATE IONnon-polymer61.04Chemie (BCT)
94a6, 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)
95cL, BL, B2, JL, L6...DIGALACTOSYL DIACYL GLYCEROL (DGDG)non-polymer949.338Chemie (DGD)
96fL, V6, VL, G2, v6...PROTOPORPHYRIN IX CONTAINING FEnon-polymer616.510Chemie (HEM)
97i6, WL, wL, I6GLYCEROLnon-polymer92.14Chemie (GOL)
98A2, BN, AN, B2PHYLLOQUINONEnon-polymer450.74Chemie (PQN)
99C2, BN, B2, CNIRON/SULFUR CLUSTERnon-polymer351.66Chemie (SF4)
100JN, J2(2S)-2,3-dihydroxypropyl octadecanoatenon-polymer358.62Chemie (3XQ)
101N2, NNFE2/S2 (INORGANIC) CLUSTERnon-polymer175.82Chemie (FES)
1023N, 32beta-D-glucopyranosenon-polymer180.22Chemie (BGC)
1038N, 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)
104waterwater18.04Chemie (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.

219869

PDB entries from 2024-05-15

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