4Y28: The structure of plant photosystem I super-complex at 2.8 angstrom resolution

PDB ID: 4Y28Download
MMDB ID: 131910
PDB Deposition Date: 2015/2/9
Updated in MMDB: 2017/11
Experimental Method:
x-ray diffraction
Resolution: 2.8  Å
Source Organism:
Similar Structures:
Biological Unit for 4Y28: hexadecameric; determined by author and by software (PISA)
Molecular Components in 4Y28
Label Count Molecule
Proteins (16 molecules)
1
Photosystem I P700 Chlorophyll a Apoprotein A1
(Gene symbol: psaA)
Molecule annotation
1
Photosystem I P700 Chlorophyll a Apoprotein A2
(Gene symbol: psaB)
Molecule annotation
1
Photosystem I Reaction Center Subunit Viii
(Gene symbol: psaI)
Molecule annotation
1
Photosystem I Reaction Center Subunit IX
Molecule annotation
1
Photosystem I Reaction Center Subunit III
Molecule annotation
1
Photosystem I Reaction Center
Molecule annotation
1
Putative Uncharacterized Protein
Molecule annotation
1
Photosystem I Iron-sulfur Center
(Gene symbol: psaC)
Molecule annotation
1
Photosystem I Reaction Center Subunit II, Chloroplastic
Molecule annotation
1
Photosystem I Reaction Center Subunit IV A, Chloroplastic
Molecule annotation
1
Photosystem I Reaction Center Subunit VI
Molecule annotation
1
Photosystem I Reaction Center Subunit X Psak
Molecule annotation
1
Type II Chlorophyll A/B Binding Protein From Photosystem I
Molecule annotation
1
Chlorophyll A-B Binding Protein P4, Chloroplastic
Molecule annotation
1
Light-harvesting Complex I Chlorophyll A/b-binding Protein
Molecule annotation
1
Chlorophyll A-B Binding Protein 3, Chloroplastic
Molecule annotation
Chemicals and Non-standard biopolymers (209 molecules)
1
1
CHLOROPHYLL A ISOMERCHLOROPHYLL A ISOMER
2
146
CHLOROPHYLL ACHLOROPHYLL A
3
3
IRON/SULFUR CLUSTERIRON/SULFUR CLUSTER
4
2
PHYLLOQUINONEPHYLLOQUINONE
5
5
1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE
6
21
BETA-CAROTENEBETA-CAROTENE
7
7
1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE
8
1
CALCIUM IONCALCIUM ION
9
1
DIGALACTOSYL DIACYL GLYCEROL (DGDG)DIGALACTOSYL DIACYL GLYCEROL (DGDG)
10
2
DODECYL-ALPHA-D-MALTOSIDEDODECYL-ALPHA-D-MALTOSIDE
11
10
(3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL(3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL
12
9
CHLOROPHYLL BCHLOROPHYLL B
13
1
(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-ol(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-ol
* Click molecule labels to explore molecular sequence information.
Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303