SMTL ID : 8iwh.1

Structure and characteristics of a photosystem II supercomplex containing monomeric LHCX and dimeric FCPII antennae from the diatom Thalassiosira pseudonana

Coordinates
PDB Format
Method
ELECTRON MICROSCOPY
Oligo State
hetero-2-2-2-2-2-2-2-2-2-2-2-2-2-2-2-2-2-2-2-2-2-1-1-1-1-2-2-2-4-mer
Ligands
22 x BCR: BETA-CAROTENE(Non-covalent)
2 x OEX: CA-MN4-O5 CLUSTER(Non-covalent)
2 x CL: CHLORIDE ION(Non-functional Binders)
183 x CLA: CHLOROPHYLL A(Non-covalent)(Covalent)
4 x PHO: PHEOPHYTIN A(Non-covalent)
2 x BCT: BICARBONATE ION(Non-functional Binders)
20 x LHG: 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE(Non-covalent)
12 x SQD: 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL(Non-covalent)
11 x DGD: DIGALACTOSYL DIACYL GLYCEROL (DGDG)(Non-covalent)
26 x LMG: 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE(Non-covalent)
2 x FE2: FE (II) ION(Non-covalent)
2 x 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(Non-covalent)
4 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)
6 x LMU: DODECYL-ALPHA-D-MALTOSIDE(Non-covalent)
3 x KC1: Chlorophyll c1(Covalent)(Non-covalent)
29 x A86: (3S,3'S,5R,5'R,6S,6'R,8'R)-3,5'-dihydroxy-8-oxo-6',7'-didehydro-5,5',6,6',7,8-hexahydro-5,6-epoxy-beta,beta-caroten-3'- yl acetate(Non-covalent)
10 x DD6: (3S,3'R,5R,6S,7cis)-7',8'-didehydro-5,6-dihydro-5,6-epoxy-beta,beta-carotene-3,3'-diol(Non-covalent)
5 x KC2: Chlorophyll c2(Covalent)(Non-covalent)
2 x ET4: (1~{R})-3,5,5-trimethyl-4-[(1~{E},3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E})-3,7,12,16-tetramethyl-18-[(4~{R})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-1,3,5,7,9,11,13,15-octaen-17-ynyl]cyclohex-3-en-1-ol(Non-covalent)
Links
RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP
Citation
Feng, Y. et al., Structure of a diatom photosystem II supercomplex containing a member of Lhcx family and dimeric FCPII. Sci Adv (2023)
Release Date
2023-10-25
Peptides
Photosystem II protein D1: Aj
Photosystem II CP47 reaction center protein: Bk
Photosystem II CP43 reaction center protein: CD
Photosystem II D2 protein: EF
Cytochrome b559 subunit alpha: GH
Cytochrome b559 subunit beta: IJ
Photosystem II Psb31 protein domain-containing protein: KL
Photosystem II reaction center protein H: MN
Photosystem II reaction center protein I: OP
Photosystem II reaction center protein J: QR
Photosystem II reaction center protein K: ST
Photosystem II reaction center protein L: UV
Photosystem II reaction center M protein, plastid: WX
Photosystem II subunit, PsbN.: YZ
Oxygen-evolving enhancer protein 1: 01
Photosystem II reaction center protein T: 23
PS II complex 12 kDa extrinsic protein: 45
Cytochrome c-550: 67
Photosystem II subunit, PsbW: 89
Photosystem II reaction center X protein: ab
Photosystem II reaction center protein Z: cd
Fucoxanthin chl a/c protein, lhca clade: e
Fucoxanthin-chlorophyll a-c binding protein, plastid: f
Fucoxanthin chlorophyll a/c protein 6: g
Fucoxanthin chlorophyll a/c protein 5: h
Fucoxanthin chlorophyll a/c protein-LI818 clade: ip
Photosystem II reaction center protein Ycf12: lm
Photosystem II subunit, PsbQ.: no
Fucoxanthin chlorophyll a/c light-harvesting protein, major type: qrst
SMTL:PDB
SMTL Chain Id:
PDB Chain Id:
A
A
j
a
B
B
k
b
C
C
D
c
E
D
F
d
G
E
H
e
I
F
J
f
K
G
L
g
M
H
N
h
O
I
P
i
Q
J
R
j
S
K
T
k
U
L
V
l
W
M
X
m
Y
n
Z
N
0
O
1
o
2
T
3
t
4
U
5
u
6
V
7
v
8
W
9
w
a
X
b
x
c
Z
d
z
e
3
f
4
g
5
h
6
i
7
p
0
l
Y
m
y
n
Q
o
q
q
9
r
2
s
8
t
1
Membrane
We predict this structure to be a membrane protein.

Photosystem II protein D1

Toggle Identical (Aj)

Photosystem II CP47 reaction center protein

Toggle Identical (Bk)

Photosystem II CP43 reaction center protein

Toggle Identical (CD)

Photosystem II D2 protein

Toggle Identical (EF)

Cytochrome b559 subunit alpha

Toggle Identical (GH)

Cytochrome b559 subunit beta

Toggle Identical (IJ)

Photosystem II Psb31 protein domain-containing protein

Toggle Identical (KL)

Photosystem II reaction center protein H

Toggle Identical (MN)

Photosystem II reaction center protein I

Toggle Identical (OP)

Photosystem II reaction center protein J

Toggle Identical (QR)

Photosystem II reaction center protein K

Toggle Identical (ST)

Photosystem II reaction center protein L

Toggle Identical (UV)

Photosystem II reaction center M protein, plastid

Toggle Identical (WX)

Photosystem II subunit, PsbN.

Toggle Identical (YZ)

Oxygen-evolving enhancer protein 1

Toggle Identical (01)

Photosystem II reaction center protein T

Toggle Identical (23)

PS II complex 12 kDa extrinsic protein

Toggle Identical (45)

Cytochrome c-550

Toggle Identical (67)

Photosystem II subunit, PsbW

Toggle Identical (89)

Photosystem II reaction center X protein

Toggle Identical (ab)

Photosystem II reaction center protein Z

Toggle Identical (cd)

Fucoxanthin chl a/c protein, lhca clade

Fucoxanthin-chlorophyll a-c binding protein, plastid

Fucoxanthin chlorophyll a/c protein 6

Fucoxanthin chlorophyll a/c protein 5

Fucoxanthin chlorophyll a/c protein-LI818 clade

Toggle Identical (ip)

Photosystem II reaction center protein Ycf12

Toggle Identical (lm)

Photosystem II subunit, PsbQ.

Toggle Identical (no)

Fucoxanthin chlorophyll a/c light-harvesting protein, major type

Toggle Identical (qrst)

Related Entries With Identical Sequence

1pyh.1 | 1z56.1 | 2jes.1 | 3mk7.1 | 3mk7.2 | 3mk7.3 | 3mk7.4 | 4uq8.1 | 4v9j.1 | 4v9j.2 | 4v9k.1 | 4v9k.2 | 4v9l.1 | 4v9l.2 | 4v9m.1 | 4v9m.2 | 4w29.1 | 4w29.2 | 4wz7.1 | 5cod.1 | 5cod.2 | 5cod.3 | 5cod.4 | 5cod.5 | 5cod.6 | 5lqy.1 | 5lqz.1 | 6j3y.1 | 6j3z.1 | 6j40.11  more...