2WSF: Improved Model of Plant Photosystem I
Improved Model of Plant Photosystem I. Determined by X-ray diffraction at 3.48 Å resolution. Released 17 Nov 2009.
- Method
- X-ray diffraction
- Resolution
- 3.48 Å
- Organisms
- ARABIDOPSIS THALIANA, PISUM SATIVUM, GLYCINE MAX
- Chains
- 18
- Atoms
- 36,033
- Mol. weight
- 649.04 kDa
- Ligands
- CLA, LMU, BCR, PQN
- Released
- 17 Nov 2009
Explore 2WSF in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
2WSF contains 119 α-helices and 35 β-strands across 18 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.
Chain 1: 9 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 32-36 | 5 | |
| α-helix | 37-38 | 2 | |
| α-helix | 40-49 | 10 | |
| α-helix | 50-52 | 3 | |
| α-helix | 54-56 | 3 | |
| α-helix | 93-101 | 9 | |
| α-helix | 106-112 | 7 | |
| α-helix | 146-159 | 14 | |
| α-helix | 161-165 | 5 | |
Chain 2: 4 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 44-46 | 3 | |
| α-helix | 49-68 | 20 | |
| α-helix | 92-111 | 20 | |
| α-helix | 159-183 | 25 | |
Chain 3: 5 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 53-62 | 10 | |
| α-helix | 115-120 | 6 | |
| α-helix | 122-125 | 4 | |
| α-helix | 131-133 | 3 | |
| α-helix | 183-198 | 16 | |
Chain 4: 5 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 38-59 | 22 | |
| α-helix | 60-62 | 3 | |
| α-helix | 90-109 | 20 | |
| α-helix | 156-160 | 5 | |
| α-helix | 163-170 | 8 | |
Chain A: 37 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 52-54 | 3 | |
| α-helix | 73-81 | 9 | |
| α-helix | 86-89 | 4 | |
| α-helix | 94-97 | 4 | |
| β-strand | 98-99 | 2 | 1 |
| α-helix | 106-111 | 6 | |
| β-strand | 121 | 1 | 2 |
| β-strand | 143 | 1 | 2 |
| α-helix | 161-167 | 7 | |
| α-helix | 169-173 | 5 | |
| α-helix | 183-187 | 5 | |
| α-helix | 193-197 | 5 | |
| α-helix | 203-206 | 4 | |
| α-helix | 207-211 | 5 | |
| α-helix | 216-219 | 4 | |
| α-helix | 228-231 | 4 | |
| β-strand | 288 | 1 | 3 |
| β-strand | 291 | 1 | 3 |
| α-helix | 296-311 | 16 | |
| β-strand | 312-313 | 2 | 4 |
| α-helix | 328-330 | 3 | |
| α-helix | 341-343 | 3 | |
| α-helix | 348-350 | 3 | |
| α-helix | 355-367 | 13 | |
| α-helix | 372-377 | 6 | |
| α-helix | 389-392 | 4 | |
| α-helix | 394-405 | 12 | |
| α-helix | 409-419 | 11 | |
| α-helix | 431-437 | 7 | |
| α-helix | 447-455 | 9 | |
| α-helix | 459-464 | 6 | |
| α-helix | 465-469 | 5 | |
| α-helix | 493-495 | 3 | |
| α-helix | 541-561 | 21 | |
| α-helix | 600-622 | 23 | |
| α-helix | 630-632 | 3 | |
| α-helix | 642-644 | 3 | |
| α-helix | 651 | 1 | |
| α-helix | 652-657 | 6 | |
| α-helix | 686-693 | 8 | |
| α-helix | 698-714 | 17 | |
| α-helix | 728-732 | 5 | |
| α-helix | 736-750 | 15 | |
Chain B: 32 helices, 11 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 12-14 | 3 | |
| β-strand | 17 | 1 | 5 |
| α-helix | 19-22 | 4 | |
| α-helix | 39-47 | 9 | |
| α-helix | 52-64 | 13 | |
| β-strand | 90 | 1 | 6 |
| β-strand | 113 | 1 | 6 |
| α-helix | 119-122 | 4 | |
| α-helix | 139-146 | 8 | |
| α-helix | 148-155 | 8 | |
| α-helix | 166-168 | 3 | |
| α-helix | 178-181 | 4 | |
| α-helix | 183-196 | 14 | |
| α-helix | 199-202 | 4 | |
| α-helix | 275-287 | 13 | |
| β-strand | 318 | 1 | 7 |
| α-helix | 323-326 | 4 | |
| α-helix | 333-336 | 4 | |
| α-helix | 341-351 | 11 | |
| α-helix | 381-389 | 9 | |
| α-helix | 400-403 | 4 | |
| β-strand | 406 | 1 | 7 |
| α-helix | 415-418 | 4 | |
| α-helix | 423-443 | 21 | |
| β-strand | 455 | 1 | 8 |
| α-helix | 458-462 | 5 | |
| α-helix | 516-522 | 7 | |
| α-helix | 526-539 | 14 | |
| β-strand | 544 | 1 | 9 |
| β-strand | 547 | 1 | 9 |
| α-helix | 573-579 | 7 | |
| α-helix | 586-593 | 8 | |
| α-helix | 607-611 | 5 | |
| β-strand | 622 | 1 | 10 |
| β-strand | 626 | 1 | 10 |
| α-helix | 629-632 | 4 | |
| α-helix | 645-658 | 14 | |
| α-helix | 662-665 | 4 | |
| α-helix | 669-678 | 10 | |
| α-helix | 682-684 | 3 | |
| β-strand | 696 | 1 | 5 |
| α-helix | 704-708 | 5 | |
| α-helix | 713-726 | 14 | |
Chain C: 0 helices, 2 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 61 | 1 | 11 |
| β-strand | 63 | 1 | 11 |
Chain D: 1 helix, 3 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 47-50 | 4 | 12 |
| β-strand | 74-76 | 3 | 12 |
| α-helix | 85-88 | 4 | |
| β-strand | 98-101 | 4 | 12 |
10 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| AT3G54890 | 1 | protein | 241 | ARABIDOPSIS THALIANA | Q01667 (AlphaFold model) |
| Type II chlorophyll a/b binding protein from photosystem I | 2 | protein | 269 | PISUM SATIVUM | Q41038 (AlphaFold model) |
| LHCA3 | 3 | protein | 276 | GLYCINE MAX | C6TEX2 (AlphaFold model) |
| Chlorophyll a-B binding protein P4, chloroplastic | 4 | protein | 251 | PISUM SATIVUM | Q9SQL2 (AlphaFold model) |
| Photosystem I P700 chlorophyll a apoprotein A1 | A | protein | 758 | PISUM SATIVUM | P05310 |
| Photosystem I P700 chlorophyll a apoprotein A2 | B | protein | 734 | PISUM SATIVUM | P05311 |
| Photosystem I iron-sulfur center | C | protein | 81 | PISUM SATIVUM | P10793 |
| Photosystem I reaction center subunit II, chloroplastic | D | protein | 212 | SPINACIA OLERACEA | P12353 |
| Photosystem I reaction center subunit IV a, chloroplastic | E | protein | 143 | ARABIDOPSIS THALIANA | Q9S831 |
| Photosystem I reaction center subunit III, chloroplastic | F | protein | 231 | SPINACIA OLERACEA | P12355 |
| Photosystem I reaction center subunit V, chloroplastic | G | protein | 167 | SPINACIA OLERACEA | P12357 |
| Photosystem I reaction center subunit VI, chloroplastic | H | protein | 144 | SPINACIA OLERACEA | P22179 |
6 more molecules are not listed.
Sequence of entity 1 (1), FASTA
>2WSF_1 AT3G54890 (chains 1)
MASNSLMSCGIAAVYPSLLSSSKSKFVSAGVPLPNAGNVGRIRMAAHWMPGEPRPAYLDG
SAPGDFGFDPLGLGEVPANLERYKESELIHCRWAMLAVPGILVPEALGYGNWVKAQEWAA
LPGGQATYLGNPVPWGTLPTILAIEFLAIAFVEHQRSMEKDPEKKKYPGGAFDPLGYSKD
PKKLEELKVKEIKNGRLALLAFVGFCVQQSAYPGTGPLENLATHLADPWHNNIGDIVIPF
N
Sequence of entity 2 (2), FASTA
>2WSF_2 TYPE II CHLOROPHYLL A/B BINDING PROTEIN FROM PHOTOSYSTEM I (chains 2)
MASACASSAIAAVAISTPSSQKNGSPSGTSKAFLGRKLKVNSSTASPSRVRSTSTVCTVA
EPDRPLWFPGSTPPPWLDGSLPGDFGFDPLGLGSDPESLRWNVQAELVHSRWAMLGAAGI
FIPEFLTKLGILNTPSWYTAGEQEYFTDTTTLFIVELVFIGWAEGRRWADILNPGCVNTD
PIFPNNKLTGTDVGYPGGLWFDPLGWGSASPQKLKELRTKEIKNGRLAMLAVMGAWFQHI
YTGTGPIDNLFAAHLADPHATIFAAFTPK
Sequence of entity 3 (3), FASTA
>2WSF_3 LHCA3 (chains 3)
MAAQALVSSSSLTFSAEAARQSLGPRSLQSPFGFSRKASFLVKAAATPPVKQGSDRPLWF
ASKQSLSYLDGSLPGDYGFDPLGLSDPEGTGGFIEPKWLAYGEIINGRYAMLGAVGAIAP
EILGKAGLIPQETALPWFRTGFIPPAGTYNYWADSYTLFVFEMALMGFAEHRRFQDWAKP
GSMGKQYFLGLEKGLGGSGEPAYPGGPFFNPLGFGKDEKSLKDLKLKEVKNGRLAMLAIL
GYFVQALVTGVGPYQNLLDHLTDPVHNNILTSLKFH
Sequence of entity 4 (4), FASTA
>2WSF_4 CHLOROPHYLL A-B BINDING PROTEIN P4, CHLOROPLASTIC (chains 4)
MATVTTQASAAIFGPCGLKSRFLGGSSGKLNRGVAFRPVGCSPSASFKVEAKKGEWLPGL
ASPGYLTGSLPGDNGFDPLGLAEDPENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGI
INVPKWYAAGKEEYFASSSTLFVIEFILSHYVEIRRWQDIKNPGSVNQDPIFKQYSLPAG
EVGYPGGIFNPLNFAPTLEAKEKEIANGRLMLAFLGFIIQHNVTGKGPFDNLLQHISDPW
HNTIVQTLGGN
Sequence of entity 5 (A), FASTA
>2WSF_5 PHOTOSYSTEM I P700 CHLOROPHYLL A APOPROTEIN A1 (chains A)
MIIRSPEPKVQILADPEVKILVDRDPIKTSFEQWAKPGHFSRTIAKGPDTTTWIWNLHAD
AHDFDSHTSDLEEISRKVFSAHFGQLSIIFLWLSGMYFHGARFSNYEAWLNDPTHIGPSA
QVVWPIVGQEILNGDVGGGFRGIQITSGFFQIWRASGITSELQLYCTAIGALVFAGLMLF
AGWFHYHKAAPKLAWFQDVESMLNHHLAGLLGLGSLSWARHQVHVSLPINQFLNAGVDPK
EIPLPHEFILNRDLLAQLYPSFAEGATPFFTLNWSKYADFLTFRGGLDPLTGGLWLTDIA
HHHLAIAILFLIAGHMYRTNWGIGHGIKDILEAHKGPFTGQGHKGLYEILTTSWHAQLSI
NLAMLGSLTIVVAQHMYSMPPYPYLATDYATQLSLFTHHMWIGGFLIVGAAAHAAIFMVR
DYDPTTRYNDLLDRVLRHRDAIISHLNWVCIFLGFHSFGLYIHNDTMSALGRPQDMFSDT
AIQLQPVFAQWIQNTHALAPGTTAPGATASTSLTWGGGDLVAVGNKVALLPIPLGTADFL
VHHIHAFTIHVTVLILLKGVLFARSSRLIPDKANLGFRFPCDGPGRGGTCQVSAWDHVFL
GLFWMYNSISVVIFHFSWKMQSDVWGTINDQGVVTHITAGNFAQSSITINGWLRDFLWAQ
ASQVIQSYGSSLSAYGLFFLGAHFVWAFSLMFLFSGRGYWQELIESIVWAHNKLKVAPAT
QPRALSIVQGRAVGVTHYLLGGIATTWAFFLARIIAVG
Sequence of entity 6 (B), FASTA
>2WSF_6 PHOTOSYSTEM I P700 CHLOROPHYLL A APOPROTEIN A2 (chains B)
MALRIPRFSQGIAQDPTTRRIWFGIATAHDFESHDDITEGRLYQNIFASHFGQLAIIFLW
TSGNLFHVAWQGNFEAWVQDPFHVRPIAHAIWDPHFGQPAVEAFTRGGALGPVNNAYSGV
YQWWYTIGLRTNEDLYTGAIFLLFLSFISLLAGWLHLQPKWKPSVSWFKNAESRLNHHLS
GLFGVSSLAWAGHLVHVAIPGSRGEYVRWNNFLDVLPYPQGLGPLLTGQWNLYAQNPSSS
NHLFGTTQGAGTAILTILGGFHPQTQSLWLTDVAHHHLAIAFLFLIGGLMYRTNFGIGHS
IKYILEAHIPPGGRLGRGHKGLYDTINNSIHFQLGLALASLGVITSLVAQHMYSLPAYAF
IAQDFTTQAALYTHHQYIAGFIMTGAFAHGPIFFIRDYNPEQNADNVLARMLEHKEAIIS
HLSWASLFLGFHTLGLYVHNDVMLAFGTPEKQILIEPIFAQWIQSAHGKTTYGFDIPLSS
TNGPALNAGRNIWLPGWLNAINENSNSLFLTIGPGDFLVHHAIALGLHTTTLILVKGALD
ARGSKLMPDKKDFGYSFPCDGPGRGGTCDISAWDDFYLAVFWMLNTIGWVTFYWHWKHIT
LWRGNVSQFNESSTYLMGWLRDYLWLNSSQLINGITPLVCNSLSVWAWMFLFGHLVWATG
FMFLISWRGYWQELIETLAWAHERTPLANLIRWRDKPVALSIVQARLVGLVHFSVGYIFT
YAAFLIASTSGKFG
Sequence of entity 7 (C), FASTA
>2WSF_7 PHOTOSYSTEM I IRON-SULFUR CENTER (chains C)
MSHSVKIYDTCIGCTQCVRACPTDVLEMIPWGGCKAKQIASAPRTEDCVGCKRCESACPT
DFLSVRVYLWHETTRSMGLAY
Sequence of entity 8 (D), FASTA
>2WSF_8 PHOTOSYSTEM I REACTION CENTER SUBUNIT II, CHLOROPLASTIC (chains D)
MAMGTPATLFSRSSLSSAKPIETRLTTSFKQPSAVTFASKPASRLHTIRAAAAAEGKAAA
ATETKEATKAFTPPELDPNTPSPIFAGSTGGLLRKAQVEEFYVITWESPKEQIFEMPTGG
AAIMREGPNLLKLARKEQCLALGTRLRSKYKIKYQFYRVFPSGEVQYLHPKDGVYPEKVN
PGRQGVGLNMRSIGKNVSPIEVKFTGKQPYDL
Sequence of entity 9 (E), FASTA
>2WSF_9 PHOTOSYSTEM I REACTION CENTER SUBUNIT IV A, CHLOROPLASTIC (chains E)
MAMTTASTVFVLPANVTSVAGASSSRSSVSFLPMRNAGSRLVVRAAEDPAPASSSSKDSP
AAAAAPDGATATKPKPPPIGPKRGSKVKILRRESYWFKNVGSVVAVDQDPKTRYPVVVRF
AKVNYANISTNNYALDEVEEVAA
Sequence of entity 10 (F), FASTA
>2WSF_10 PHOTOSYSTEM I REACTION CENTER SUBUNIT III, CHLOROPLASTIC (chains F)
MSFTIPTNLYKPLATKPKHLSSSSFAPRSKIVCQQENDQQQPKKLELAKVGANAAAALAL
SSVLLSSWSVAPDAAMADIAGLTPCKESKQFAKREKQALKKLQASLKLYADDSAPALAIK
ATMEKTKKRFDNYGKYGLLCGSDGLPHLIVSGDQRHWGEFITPGILFLYIAGWIGWVGRS
YLIAIRDEKKPTQKEIIIDVPLASSLLFRGFSWPVAAYRELLNGELVDNNF
Sequence of entity 11 (G), FASTA
>2WSF_11 PHOTOSYSTEM I REACTION CENTER SUBUNIT V, CHLOROPLASTIC (chains G)
MAAATASLSSTLLAPCSSKQPQPQQQHQHQQLKCKSFSGLRPLKLNISSNNSSSSLSMSS
ARRSMTCRAELSPSLVISLSTGLSLFLGRFVFFNFQRENMAKQVPEQNGMSHFEAGDTRA
KEYVSLLKSNDPVGFNIVDVLAWGSIGHIVAYYILATASNGYDPSFF
Sequence of entity 12 (H), FASTA
>2WSF_12 PHOTOSYSTEM I REACTION CENTER SUBUNIT VI, CHLOROPLASTIC (chains H)
MASLATLAAVQPTTLKGLAGSSIAGTKLHIKPARQSFKLNNVRSGAIVAKYGDKSVYFDL
EDIANTTGQWDVYGSDAPSPYNSLQSKFFETFAAPFTKRGLLLKFLILGGGSLLTYVSAN
APQDVLPITRGPQQPPKLGPRGKI
Ligands and cofactors
| ID | Name | Formula | Copies |
|---|
| CLA | Chlorophyll a | C55 H72 Mg N4 O5 | 173 |
| LMU | Dodecyl-alpha-D-maltoside | C24 H46 O11 | 48 |
| BCR | Beta-carotene | C40 H56 | 16 |
| PQN | Phylloquinone | C31 H46 O2 | 2 |
| SF4 | Iron/sulfur cluster | Fe4 S4 | 3 |
| LMG | 1,2-distearoyl-monogalactosyl-diglyceride | C45 H86 O10 | 1 |
Water and common crystallization additives (UNL) are not listed.
Primary citation
Structure determination and improved model of plant photosystem I. Amunts, A., Toporik, H., Borovikova, A. et al. J Biol Chem (2010) 285:3478-3486. DOI 10.1074/jbc.M109.072645 · PubMed
Other PDB entries of the same protein (UniProt Q01667 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 9WLS 2.18 Å, PSI complex of A.thaliana isolated using DOC based Clear-Native-PAGE method
- 6ZOO 2.74 Å, Photosystem I reduced Plastocyanin Complex
- 8J6Z 2.79 Å, Cryo-EM structure of the Arabidopsis thaliana photosystem I(PSI-LHCII-ST2)
- 4XK8 2.8 Å, Crystal structure of plant photosystem I-LHCI super-complex at 2.8 angstrom resolution
- 8J7A 3.06 Å, Coordinates of Cryo-EM structure of the Arabidopsis thaliana PSI in state 1 (PSI-ST1)
- 9GBI 3.13 Å, Cryo-EM structure of Arabidopsis thaliana PSI-LHCI wild-type
- 8J7B 3.22 Å, Coordinates of Cryo-EM structure of the Arabidopsis thaliana PSI in state 2 (PSI-ST2)
- 7WFD 3.25 Å, Left PSI in the cyclic electron transport supercomplex NDH-PSI from Arabidopsis
- 7WFE 3.25 Å, Right PSI in the cyclic electron transfer supercomplex NDH-PSI from Arabidopsis
- 9GC2 3.29 Å, Cryo-EM structure of Arabidopsis thaliana PSI-LHCI- a603-NH mutant
- 2WSC 3.3 Å, Improved Model of Plant Photosystem I
- 2O01 3.4 Å, The Structure of a plant photosystem I supercomplex at 3.4 Angstrom resolution
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