Brand  (β version)

PDB ID: 3JCU

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Ligands
Code Name Style Show Link
BCR Beta-carotene PoSSuM
BCT Bicarbonate ion PoSSuM
CHL Chlorophyll B PoSSuM
CL Chloride ion PoSSuM
CLA Chlorophyll a PoSSuM
FE2 Fe (II) ion PoSSuM
HEM Protoporphyrin ix containing Fe PoSSuM
LHG 1,2-dipalmitoyl-phosphatidyl-glycerole PoSSuM
LMG 1,2-distearoyl-monogalactosyl-diglyceride PoSSuM
LUT (3r,3'R,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol PoSSuM
NEX (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-diol PoSSuM
OEX Ca-mn4-o5 cluster PoSSuM
PHO Pheophytin a PoSSuM
PL9 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 PoSSuM
SQD 1,2-di-O-acyl-3-O-[6-deoxy-6-sulfo-alpha-D-glucopyranosyl]-sn-glycerol PoSSuM
XAT (3s,5r,6s,3'S,5'R,6'S)-5,6,5',6'-diepoxy-5,6,5',6'- tetrahydro-beta,beta-carotene-3,3'-diol PoSSuM
DGD Digalactosyl diacyl glycerol (dgdg) PoSSuM
Non-standard Residues
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Glycosylation
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Modification
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Structure summary

Code : 3JCU   PDBj   RCSB PDB   PDBe
Header : MEMBRANE PROTEIN
Title : Cryo-EM structure of spinach PSII-LHCII supercomplex at 3.2 Angstrom resolution
Release Data : 2016-05-25
Compound :
mol_id molecule chains
1 Photosystem II protein D1 A,a
mol_id molecule chains
2 Photosystem II CP47 reaction center protein B,b
mol_id molecule chains
3 Photosystem II CP43 reaction center protein C,c
mol_id molecule chains
4 Photosystem II D2 protein D,d
mol_id molecule chains
5 Cytochrome b559 subunit alpha E,e
mol_id molecule chains
6 Cytochrome b559 subunit beta F,f
mol_id molecule chains
7 Chlorophyll a-b binding protein, chloroplastic G,N,Y,g,n,y
mol_id molecule chains
8 Photosystem II reaction center protein H H,h
mol_id molecule chains
9 Protein Photosystem II reaction center protein I I,i
mol_id molecule chains
10 Photosystem II reaction center protein J J,j
mol_id molecule chains
11 Photosystem II reaction center protein K K,k
mol_id molecule chains
12 Protein Photosystem II reaction center protein L L,l
mol_id molecule chains
13 Photosystem II reaction center protein M M,m
mol_id molecule chains
14 Oxygen-evolving enhancer protein 1, chloroplastic O,o
mol_id molecule chains
15 Oxygen-evolving enhancer protein 2, chloroplastic P,p
mol_id molecule chains
16 Oxygen-evolving enhancer protein 3, chloroplastic Q,q
mol_id molecule chains
17 Chlorophyll A-B Binding protein 29 kD (CP29) R,r
mol_id molecule chains
18 Chlorophyll A-B Binding protein 26 kD (CP26) S,s
mol_id molecule chains
19 Photosystem II Reaction Center protein Tc T,t
mol_id molecule chains
20 Photosystem II Reaction Center Tn protein U,u
mol_id molecule chains
21 Photosystem II reaction center W protein, chloroplastic W,w
mol_id molecule chains
22 Photosystem II Reaction Center X protein X,x
mol_id molecule chains
23 Photosystem II reaction center protein Z Z,z
Source :
mol_id organism_scientific organism_common
1 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
2 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
3 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
4 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
5 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
6 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
7 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
8 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
9 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
10 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
11 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
12 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
13 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
14 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
15 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
16 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
17 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
18 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
19 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
20 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
21 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
22 Spinacia oleracea  (taxid:3562) Spinach
mol_id organism_scientific organism_common
23 Spinacia oleracea  (taxid:3562) Spinach
Authors : Wei, X.P., Zhang, X.Z., Su, X.D., Cao, P., Liu, X.Y., Li, M., Chang, W.R., Liu, Z.F.
Keywords : membrane protein
Exp. method : ELECTRON MICROSCOPY ( 3.2 Å )
Citation :

Structure of spinach photosystem II-LHCII supercomplex at 3.2 A resolution

Wei, X.P.,Su, X.D.,Cao, P.  et al.
(2016)  Nature  534 : 69 - 74

DOI: 10.1038/nature18020

Reaction

Chain : A, a
UniProt : P69560 (PSBA_SPIOL)
Reaction: EC: Evidence:
Physiological Direction:
2 a plastoquinone + 2 H2O + 4 hnu = 2 a plastoquinol + O2 1.10.3.9 HAMAP-Rule:MF_01379
-
Chain : B, b
UniProt : P04160 (PSBB_SPIOL)
Reaction : -
Chain : C, c
UniProt : P06003 (PSBC_SPIOL)
Reaction : -
Chain : D, d
UniProt : P06005 (PSBD_SPIOL)
Reaction: EC: Evidence:
Physiological Direction:
2 a plastoquinone + 2 H2O + 4 hnu = 2 a plastoquinol + O2 1.10.3.9 HAMAP-Rule:MF_01383
-
Chain : E, e
UniProt : P69383 (PSBE_SPIOL)
Reaction : -
Chain : F, f
UniProt : P60128 (PSBF_SPIOL)
Reaction : -
Chain : G, N, Y, g, n, y
UniProt : P12333 (CB2A_SPIOL)
Reaction : -
Chain : H, h
UniProt : P05146 (PSBH_SPIOL)
Reaction : -
Chain : I, i
UniProt : P62103 (PSBI_SPIOL)
Reaction : -
Chain : J, j
UniProt : Q9M3L2 (PSBJ_SPIOL)
Reaction : -
Chain : K, k
UniProt : P12163 (PSBK_SPIOL)
Reaction : -
Chain : L, l
UniProt : P60150 (PSBL_SPIOL)
Reaction : -
Chain : M, m
UniProt : P62112 (PSBM_SPIOL)
Reaction : -
Chain : O, o
UniProt : P12359 (PSBO_SPIOL)
Reaction : -
Chain : P, p
UniProt : P12302 (PSBP_SPIOL)
Reaction : -
Chain : Q, q
UniProt : P12301 (PSBQ_SPIOL)
Reaction : -
Chain : R, r
UniProt : F2Z293 (F2Z293_SPIOL)
Reaction : -
Chain : S, s
UniProt : A0A0K9QUQ7
Reaction : -
Chain : T, t
UniProt : P61840 (PSBT_SPIOL)
Reaction : -
Chain : U, u
UniProt : A0A0K9RHP1
Reaction : -
Chain : W, w
UniProt : Q41387 (PSBW_SPIOL)
Reaction : -
Chain : X, x
UniProt : A0A0K9RTU3
Reaction : -
Chain : Z, z
UniProt : Q9M3M6 (PSBZ_SPIOL)
Reaction : -