7WFE: Photosystem I P700 chlorophyll a apoprotein A1
Right PSI in the cyclic electron transfer supercomplex NDH-PSI from Arabidopsis. Determined by electron microscopy at 3.25 Å resolution. Released 16 Mar 2022.
- Method
- Electron microscopy
- Resolution
- 3.25 Å
- Organism
- Arabidopsis thaliana
- Chains
- 16
- Atoms
- 35,123
- Mol. weight
- 591.71 kDa
- Ligands
- LMG, XAT, LUT, CHL
- Released
- 16 Mar 2022
Explore 7WFE in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
7WFE contains 166 α-helices and 65 β-strands across 16 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 B1: 11 helices, 2 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 50 | 1 | 26 |
| β-strand | 52 | 1 | 26 |
| α-helix | 53-55 | 3 | |
| α-helix | 77-97 | 21 | |
| α-helix | 99-103 | 5 | |
| α-helix | 104-108 | 5 | |
| α-helix | 138-157 | 20 | |
| α-helix | 162-166 | 5 | |
| α-helix | 170-172 | 3 | |
| α-helix | 177-179 | 3 | |
| α-helix | 181-211 | 31 | |
| α-helix | 217-226 | 10 | |
| α-helix | 234-237 | 4 | |
Chain B2: 5 helices, 2 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 84-116 | 33 | |
| α-helix | 127-129 | 3 | |
| α-helix | 137-160 | 24 | |
| β-strand | 176 | 1 | 27 |
| β-strand | 186 | 1 | 27 |
| α-helix | 199-229 | 31 | |
| α-helix | 234-243 | 10 | |
Chain B3: 8 helices, 2 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 62-64 | 3 | |
| α-helix | 93-113 | 21 | |
| α-helix | 116-119 | 4 | |
| β-strand | 140 | 1 | 28 |
| β-strand | 144 | 1 | 28 |
| α-helix | 154-175 | 22 | |
| α-helix | 188-190 | 3 | |
| α-helix | 215-245 | 31 | |
| α-helix | 250-259 | 10 | |
| α-helix | 268-270 | 3 | |
Chain B5: 6 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 54-56 | 3 | |
| α-helix | 78-111 | 34 | |
| α-helix | 116-118 | 3 | |
| α-helix | 132-155 | 24 | |
| α-helix | 200-223 | 24 | |
| α-helix | 231-238 | 8 | |
Chain BA: 46 helices, 15 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 14-16 | 3 | 1 |
| α-helix | 24-27 | 4 | |
| β-strand | 42 | 1 | 2 |
| α-helix | 44-51 | 8 | |
| α-helix | 56-59 | 4 | |
| α-helix | 63-93 | 31 | |
| α-helix | 98-101 | 4 | |
| α-helix | 109-110 | 2 | |
| β-strand | 111-113 | 3 | 3 |
| α-helix | 121-123 | 3 | |
| β-strand | 126-127 | 2 | 4 |
| β-strand | 133-134 | 2 | 4 |
| β-strand | 135-136 | 2 | 3 |
| α-helix | 141-147 | 7 | |
| α-helix | 154-175 | 22 | |
| α-helix | 176-180 | 5 | |
| β-strand | 181-183 | 3 | 1 |
| α-helix | 185-188 | 4 | |
| α-helix | 191-197 | 7 | |
| α-helix | 198-203 | 6 | |
| α-helix | 204-213 | 10 | |
| α-helix | 214-218 | 5 | |
| α-helix | 219-225 | 7 | |
| α-helix | 235-236 | 2 | |
| α-helix | 238-242 | 5 | |
| α-helix | 244-248 | 5 | |
| α-helix | 252-254 | 3 | |
| α-helix | 259-262 | 4 | |
| α-helix | 266-269 | 4 | |
| β-strand | 279 | 1 | 5 |
| β-strand | 286 | 1 | 5 |
| α-helix | 288-305 | 18 | |
| α-helix | 319-323 | 5 | |
| α-helix | 338-342 | 5 | |
| α-helix | 346-370 | 25 | |
| α-helix | 381-408 | 28 | |
| α-helix | 409-413 | 5 | |
| α-helix | 422-429 | 8 | |
| α-helix | 431-446 | 16 | |
| α-helix | 447-451 | 5 | |
| α-helix | 452-461 | 10 | |
| α-helix | 465-467 | 3 | |
| α-helix | 479-489 | 11 | |
| β-strand | 515 | 1 | 6 |
| β-strand | 518 | 1 | 6 |
| α-helix | 528-553 | 26 | |
| α-helix | 564-567 | 4 | |
| β-strand | 582 | 1 | 7 |
| α-helix | 586-611 | 26 | |
| α-helix | 612-616 | 5 | |
| β-strand | 618-620 | 3 | 6 |
| β-strand | 626-628 | 3 | 6 |
| α-helix | 634-637 | 4 | |
| α-helix | 641-643 | 3 | |
| α-helix | 644-650 | 7 | |
| α-helix | 651-652 | 2 | |
| α-helix | 665-686 | 22 | |
| α-helix | 689-704 | 16 | |
| β-strand | 713 | 1 | 2 |
| α-helix | 716-718 | 3 | |
| α-helix | 719-748 | 30 | |
Chain BB: 42 helices, 12 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 10-13 | 4 | |
| β-strand | 17 | 1 | 8 |
| α-helix | 19-26 | 8 | |
| α-helix | 31-33 | 3 | |
| α-helix | 39-70 | 32 | |
| α-helix | 74-79 | 6 | |
| α-helix | 81-83 | 3 | |
| β-strand | 89-90 | 2 | 9 |
| α-helix | 98-103 | 6 | |
| β-strand | 113-114 | 2 | 9 |
| α-helix | 120-126 | 7 | |
| α-helix | 132-155 | 24 | |
| α-helix | 165-168 | 4 | |
| α-helix | 173-177 | 5 | |
| α-helix | 178-185 | 8 | |
| α-helix | 186-193 | 8 | |
| α-helix | 194-198 | 5 | |
| α-helix | 199-202 | 4 | |
| α-helix | 223-226 | 4 | |
| α-helix | 230-233 | 4 | |
| β-strand | 261 | 1 | 10 |
| β-strand | 268 | 1 | 10 |
| α-helix | 270-287 | 18 | |
| β-strand | 291 | 1 | 11 |
| β-strand | 299 | 1 | 11 |
| α-helix | 301-307 | 7 | |
| α-helix | 322-327 | 6 | |
| α-helix | 330-352 | 23 | |
| α-helix | 367-392 | 26 | |
| α-helix | 393-397 | 5 | |
| α-helix | 407-413 | 7 | |
| α-helix | 415-445 | 31 | |
| α-helix | 449-451 | 3 | |
| β-strand | 454-455 | 2 | 12 |
| α-helix | 458-465 | 8 | |
| α-helix | 484-488 | 5 | |
| α-helix | 489-491 | 3 | |
| α-helix | 494-501 | 8 | |
| α-helix | 514-539 | 26 | |
| α-helix | 572-603 | 32 | |
| α-helix | 606-612 | 7 | |
| α-helix | 616-618 | 3 | |
| α-helix | 619-625 | 7 | |
| α-helix | 626-627 | 2 | |
| α-helix | 629-632 | 4 | |
| β-strand | 635 | 1 | 13 |
| β-strand | 640 | 1 | 13 |
| α-helix | 644-665 | 22 | |
| β-strand | 669 | 1 | 7 |
| α-helix | 670-683 | 14 | |
| β-strand | 696 | 1 | 8 |
| α-helix | 697 | 1 | |
| α-helix | 699-701 | 3 | |
| α-helix | 702-732 | 31 | |
Chain BC: 2 helices, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 4-8 | 5 | 14 |
| α-helix | 16-19 | 4 | |
| β-strand | 27-30 | 4 | 15 |
| β-strand | 38-41 | 4 | 15 |
| α-helix | 45-47 | 3 | |
| β-strand | 65-68 | 4 | 14 |
Chain BD: 7 helices, 10 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 72-75 | 4 | |
| β-strand | 76 | 1 | 16 |
| β-strand | 84 | 1 | 17 |
| α-helix | 86-90 | 5 | |
| β-strand | 95-100 | 6 | 18 |
| β-strand | 105-107 | 3 | 16 |
| β-strand | 113-115 | 3 | 16 |
| α-helix | 116-117 | 2 | |
| β-strand | 118-124 | 7 | 18 |
| α-helix | 128-137 | 10 | |
| α-helix | 138-142 | 5 | |
| β-strand | 146-148 | 3 | 18 |
| β-strand | 149-151 | 3 | 19 |
| β-strand | 157-159 | 3 | 19 |
| β-strand | 180-181 | 2 | 14 |
| α-helix | 189-190 | 2 | |
| α-helix | 191-194 | 4 | |
8 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 |
|---|
| Photosystem I P700 chlorophyll a apoprotein A1 | BA | protein | 750 | Arabidopsis thaliana | P56766 (AlphaFold model) |
| Photosystem I P700 chlorophyll a apoprotein A2 | BB | protein | 734 | Arabidopsis thaliana | P56767 (AlphaFold model) |
| Photosystem I iron-sulfur center | BC | protein | 81 | Arabidopsis thaliana | P62090 (AlphaFold model) |
| Photosystem I reaction center subunit II-2, chloroplastic | BD | protein | 204 | Arabidopsis thaliana | Q9SA56 (AlphaFold model) |
| Photosystem I reaction center subunit IV A, chloroplastic | BE | protein | 143 | Arabidopsis thaliana | Q9S831 |
| Photosystem I reaction center subunit III, chloroplastic | BF | protein | 221 | Arabidopsis thaliana | Q9SHE8 |
| Photosystem I reaction center subunit V, chloroplastic | BG | protein | 160 | Arabidopsis thaliana | Q9S7N7 |
| Photosystem I reaction center subunit VI-2, chloroplastic | BH | protein | 145 | Arabidopsis thaliana | Q9SUI6 |
| Photosystem I reaction center subunit VIII | BI | protein | 37 | Arabidopsis thaliana | P56768 |
| Photosystem I reaction center subunit IX | BJ | protein | 44 | Arabidopsis thaliana | P56769 |
| Photosystem I reaction center subunit psaK, chloroplastic | BK | protein | 130 | Arabidopsis thaliana | Q9SUI5 |
| Photosystem I reaction center subunit XI, chloroplastic | BL | protein | 219 | Arabidopsis thaliana | Q9SUI4 |
4 more molecules are not listed.
Sequence of entity 1 (BA), FASTA
>7WFE_1 Photosystem I P700 chlorophyll a apoprotein A1 (chains BA)
MIIRSPEPEVKILVDRDPIKTSFEEWAKPGHFSRTIAKGPDTTTWIWNLHADAHDFDSHT
SDLEEISRKVFSAHFGQLSIIFLWLSGMYFHGARFSNYEAWLSDPTHIGPSAQVVWPIVG
QEILNGDVGGGFRGIQITSGFFQIWRASGITSELQLYCTAIGALVFAALMLFAGWFHYHK
AAPKLAWFQDVESMLNHHLAGLLGLGSLSWAGHQVHVSLPINQFLNAGVDPKEIPLPHEF
ILNRDLLAQLYPSFAEGATPFFTLNWSKYSEFLTFRGGLDPVTGGLWLTDIAHHHLAIAI
LFLIAGHMYRTNWGIGHGIKDILEAHKGPFTGQGHKGLYEILTTSWHAQLSLNLAMLGSL
TIIVAHHMYSMPPYPYLATDYATQLSLFTHHMWIGGFLIVGAAAHAAIFMVRDYDPTNRY
NDLLDRVLRHRDAIISHLNWVCIFLGFHSFGLYIHNDTMSALGRPQDMFSDTAIQLQPVF
AQWIQNTHALAPGVTAPGETASTSLTWGGGELVAVGGKVALLPIPLGTADFLVHHIHAFT
IHVTVLILLKGVLFARSSRLIPDKANLGFRFPCDGPGRGGTCQVSAWDHVFLGLFWMYNA
ISVVIFHFSWKMQSDVWGSISDQGVVTHITGGNFAQSSITINGWLRDFLWAQASQVIQSY
GSSLSAYGLFFLGAHFVWAFSLMFLFSGRGYWQELIESIVWAHNKLKVAPATQPRALSII
QGRAVGVTHYLLGGIATTWAFFLARIIAVG
Sequence of entity 2 (BB), FASTA
>7WFE_2 Photosystem I P700 chlorophyll a apoprotein A2 (chains BB)
MALRFPRFSQGLAQDPTTRRIWFGIATAHDFESHDDITEERLYQNIFASHFGQLAIIFLW
TSGNLFHVAWQGNFETWVQDPLHVRPIAHAIWDPHFGQPAVEAFTRGGALGPVNIAYSGV
YQWWYTIGLRTNEDLYTGALFLLFLSALSLIGGWLHLQPKWKPRVSWFKNAESRLNHHLS
GLFGVSSLAWTGHLVHVAIPASRGEYVRWNNFLNVLPHPQGLGPLFTGQWNLYAQNPDSS
SHLFGTSQGSGTAILTLLGGFHPQTQSLWLTDMAHHHLAIAILFLIAGHMYRTNFGIGHS
IKDLLEAHIPPGGRLGRGHKGLYDTINNSIHFQLGLALASLGVITSLVAQHMYSLPAYAF
IAQDFTTQAALYTHHQYIAGFIMTGAFAHGAIFFIRDYNPEQNEDNVLARMLDHKEAIIS
HLSWASLFLGFHTLGLYVHNDVMLAFGTPEKQILIEPIFAQWIQSAHGKTSYGFDVLLSS
TSGPAFNAGRSIWLPGWLNAINENSNSLFLTIGPGDFLVHHAIALGLHTTTLILVKGALD
ARGSKLMPDKKDFGYSFPCDGPGRGGTCDISAWDAFYLAVFWMLNTIGWVTFYWHWKHIT
LWQGNVSQFNESSTYLMGWLRDYLWLNSSQLINGYNPFGMNSLSVWAWMFLFGHLVWATG
FMFLISWRGYWQELIETLAWAHERTPLANLIRWKDKPVALSIVQARLVGLAHFSVGYIFT
YAAFLIASTSGKFG
Sequence of entity 3 (BC), FASTA
>7WFE_3 Photosystem I iron-sulfur center (chains BC)
MSHSVKIYDTCIGCTQCVRACPTDVLEMIPWDGCKAKQIASAPRTEDCVGCKRCESACPT
DFLSVRVYLWHETTRSMGLAY
Sequence of entity 4 (BD), FASTA
>7WFE_4 Photosystem I reaction center subunit II-2, chloroplastic (chains BD)
MATQAAGIFSPAITTTTSAVKKLHLFSSSHRPKSLSFTKTAIRAEKTESSSAAPAVKEAP
VGFTPPQLDPNTPSPIFAGSTGGLLRKAQVEEFYVITWNSPKEQIFEMPTGGAAIMREGP
NLLKLARKEQCLALGTRLRSKYKITYQFYRVFPNGEVQYLHPKDGVYPEKANPGREGVGL
NMRSIGKNVSPIEVKFTGKQSYDL
Sequence of entity 5 (BE), FASTA
>7WFE_5 Photosystem I reaction center subunit IV A, chloroplastic (chains BE)
MAMTTASTVFVLPANVTSVAGASSSRSSVSFLPMRNAGSRLVVRAAEDPAPASSSSKDSP
AAAAAPDGATATKPKPPPIGPKRGSKVKILRRESYWFKNVGSVVAVDQDPKTRYPVVVRF
AKVNYANISTNNYALDEVEEVAA
Sequence of entity 6 (BF), FASTA
>7WFE_6 Photosystem I reaction center subunit III, chloroplastic (chains BF)
MSLTIPANLVLNPRSNKSLTQSVPKSSARFVCSDDKSSSSTPQSMKAFSAAVALSSILLS
APMPAVADISGLTPCKDSKQFAKREKQQIKKLESSLKLYAPESAPALALNAQIEKTKRRF
DNYGKYGLLCGSDGLPHLIVNGDQRHWGEFITPGILFLYIAGWIGWVGRSYLIAISGEKK
PAMKEIIIDVPLASRIIFRGFIWPVAAYREFLNGDLIAKDV
Sequence of entity 7 (BG), FASTA
>7WFE_7 Photosystem I reaction center subunit V, chloroplastic (chains BG)
MATSASALLSPTTFSTAISHKNPNSISFHGLRPLRLGGSSSALPKLSTTGRKSSSAVVRA
ELSPSIVISLSTGLSLFLGRFVFFNFQRENVAKQGLPEQNGKTHFEAGDDRAKEYVSLLK
SNDPIGFNIVDVLAWGSIGHIVAYYILATSSNGYDPSFFG
Sequence of entity 8 (BH), FASTA
>7WFE_8 Photosystem I reaction center subunit VI-2, chloroplastic (chains BH)
MASFATIAAVQPSAAVKGLGGSSLAGAKLFIKPSRQSFKTKSTRAGAVVAKYGDKSVYFD
LEDLGNTTGQWDVYGSDAPSPYNPLQSKFFETFAAPFTKRGLLLKFLILGGGSLLTYVSA
NSTGDVLPIKRGPQEPPKLGPRGKL
Sequence of entity 9 (BI), FASTA
>7WFE_9 Photosystem I reaction center subunit VIII (chains BI)
MTTFNNLPSIFVPLVGLVFPAIAMASLFLHIQKNKIF
Sequence of entity 10 (BJ), FASTA
>7WFE_10 Photosystem I reaction center subunit IX (chains BJ)
MRDLKTYLSVAPVLSTLWFGSLAGLLIEINRLFPDALTFPFFSF
Sequence of entity 11 (BK), FASTA
>7WFE_11 Photosystem I reaction center subunit psaK, chloroplastic (chains BK)
MASTMMTTLPQFNGLRATKISAAPVQGLASVQPMRRKGNGALGAKCDFIGSSTNLIMVTS
TTLMLFAGRFGLAPSANRKATAGLRLEARDSGLQTGDPAGFTLADTLACGTVGHIIGVGV
VLGLKNIGAI
Sequence of entity 12 (BL), FASTA
>7WFE_12 Photosystem I reaction center subunit XI, chloroplastic (chains BL)
MAASASPMASQLRSSFSSASLSQRLAVPKGISGAPFGVSPTKRVSSFTVRAVKSDKTTFQ
VVQPINGDPFIGSLETPVTSSPLIAWYLSNLPGYRTAVNPLLRGVEVGLAHGFFLVGPFV
KAGPLRNTAYAGSAGSLAAAGLVVILSMCLTIYGISSFKEGEPSIAPSLTLTGRKKQPDQ
LQTADGWAKFTGGFFFGGISGVTWAYFLLYVLDLPYFVK
Ligands and cofactors
| ID | Name | Formula | Copies |
|---|
| LMG | 1,2-distearoyl-monogalactosyl-diglyceride | C45 H86 O10 | 1 |
| XAT | (3S,5R,6S,3'S,5'R,6'S)-5,6,5',6'-diepoxy-5,6,5',6'-… | C40 H56 O4 | 4 |
| LUT | (3R,3'R,6S)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol | C40 H56 O2 | 4 |
| CHL | Chlorophyll B | C55 H70 Mg N4 O6 | 11 |
| SQD | 1,2-di-O-acyl-3-O-[6-deoxy-6-sulfo-alpha-D-glucopyranosyl]-sn-glycerol | C41 H78 O12 S | 1 |
| DGD | Digalactosyl diacyl glycerol (DGDG) | C51 H96 O15 | 1 |
| LMU | Dodecyl-alpha-D-maltoside | C24 H46 O11 | 3 |
| SF4 | Iron/sulfur cluster | Fe4 S4 | 3 |
| BCR | Beta-carotene | C40 H56 | 25 |
| LHG | 1,2-dipalmitoyl-phosphatidyl-glycerole | C38 H75 O10 P | 9 |
| PQN | Phylloquinone | C31 H46 O2 | 2 |
| CLA | Chlorophyll a | C55 H72 Mg N4 O5 | 141 |
Primary citation
Supramolecular assembly of chloroplast NADH dehydrogenase-like complex with photosystem I from Arabidopsis thaliana. Su, X., Cao, D., Pan, X. et al. Mol Plant (2022) 15:454-467. DOI 10.1016/j.molp.2022.01.020 · PubMed
Other PDB entries of the same protein (UniProt P56766 (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
- 8J6Z 2.79 Å, Cryo-EM structure of the Arabidopsis thaliana photosystem I(PSI-LHCII-ST2)
- 8J7A 3.06 Å, Coordinates of Cryo-EM structure of the Arabidopsis thaliana PSI in state 1 (PSI-ST1)
- 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
- 7WG5 3.89 Å, Cyclic electron transport supercomplex NDH-PSI from Arabidopsis
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