2026-08-12 REL PDBj INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY EXPERIMENTAL_SUMMARY em_admin _em_admin.last_update DATABASE_REFERENCES citation citation_author _citation.country _citation.journal_abbrev _citation.journal_id_CSD _citation.journal_id_ISSN _citation.pdbx_database_id_DOI _citation.pdbx_database_id_PubMed _citation.title _citation.year DATABASE_REFERENCES citation citation_author _citation.journal_volume _citation.page_first _citation.page_last _citation_author.identifier_ORCID STRUCTURE_SUMMARY chem_comp chem_comp_atom chem_comp_bond database_2 pdbx_struct_conn_angle pdbx_validate_chiral struct_conn _chem_comp.formula _chem_comp.pdbx_synonyms _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.value _struct_conn.pdbx_dist_value _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id REMEDIATION REPOSITORY Metalloprotein remediation STRUCTURE_SUMMARY chem_comp chem_comp_atom chem_comp_bond em_admin pdbx_entry_details pdbx_modification_feature pdbx_nonpoly_atom_coordination pdbx_nonpoly_atom_coordination_sphere pdbx_nonpoly_atom_coordination_sphere_order pdbx_struct_conn_angle pdbx_validate_chiral struct_conn _chem_comp.formula _chem_comp_atom.pdbx_stereo_config _em_admin.last_update _pdbx_entry_details.has_protein_modification PDBj PDBj 2019-06-21 2019-10-23 2019-10-23 2026-08-12 Ministry of Science and Technology (China) 2017YFA0503702 China Chinese Academy of Sciences XDB27020106 China Chinese Academy of Sciences XDB08020302 China Japan Society for the Promotion of Science 16H06553 Japan Sheng X Watanabe A PhotosystemII, supercomplex, PHOTOSYNTHESIS Sheng X Watanabe A Li A Kim E Song C Murata K Song D Minagawa J Liu Z Nat.Plants UK 5 1320 1330 2019 31768031 doi:10.1038/s41477-019-0543-4 2055-0278 6kad FULLOVERLAP EMDB EMD-9956 associated EM volume

Cryo-EM structure of the C2S2M2L2-type PSII-LHCII supercomplex from Chlamydomonas reihardtii

The C2S2M2L2-type PSII-LHCII supercomplex The C2S2M2L2-type PSII-LHCII supercomplex 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 Chlamydomonas reinhardtii Chlorophyll a-b binding protein, chloroplastic Chlamydomonas reinhardtii 0.027591335999999998 6 LEVO MAFALAKSSARAAVSRRSTVKVEARRTVKPASKASTPDSFWYGPERPLFLGAFTGEPPSYLTGEFPGDYGWDTAGLSADP ETFKRYRELELIHARWAMLGALGCIFPELLGSYGVPFGEAVWFKAGAQIFQEGGLDYLGNPNLVHAQSILAILGTQVLLM GAIEGYRVNGGPLGEGLDKLYPGGSFDPLGLADDPDTFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPLQNLSDHLAN PGTNNAFAYATKFTPQ Q93VE0 Chlorophyll a-b binding protein, chloroplastic Chlamydomonas reinhardtii 0.027405008 8 LEVO MAFALSFSRKALQVSAKATGKKGTGKTAAKQAPASSGIEFYGPNRAKWLGPYSENATPAYLTGEFPGDYGWDTAGLSADP ETFKRYRELELIHARWAMLGALGCITPELLAKSGTQFGEAVWFKAGAQIFSEGGLDYLGNPSLVHAQNIVATLAVQVILM GLVEGYRVNGGPAGEGLDPLYPGESFDPLGLADDPDTFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPIQNLDDHLSN PTVNNAFAFATKFTPSA Q93WL4 Chlorophyll a-b binding protein, chloroplastic Chlamydomonas reinhardtii 0.026675349999999997 4 LEVO MAAIMKSAVRSSVRPTVSGRSARVVPRAAIEWYGPDRPKFLGPFSEGDTPAYLTGEFPGDYGWDTAGLSADPETFKRYRE LELIHARWAMLGALGCITPELLAKNGIPFGEAVWFKAGAQIFAEGGLNYLGNENLIHAQSIIATLAFQVVVMGLAEAYRA NGGPLGEGLDPLHPGGAFDPLGLADDPDTFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPIQNLDDHLANPTAVNAFA YATKFTPSA Q93WE0 Photosystem II protein D1 Chlamydomonas reinhardtii 0.03906634 2 LEVO MTAILERRENSSLWARFCEWITSTENRLYIGWFGVIMIPCLLTATSVFIIAFIAAPPVDIDGIREPVSGSLLYGNNIITG AVIPTSNAIGLHFYPIWEAASLDEWLYNGGPYQLIVCHFLLGVYCYMGREWELSFRLGMRPWIAVAYSAPVAAASAVFLV YPIGQGSFSDGMPLGISGTFNFMIVFQAEHNILMHPFHMLGVAGVFGGSLFSAMHGSLVTSSLIRETTENESANEGYRFG QEEETYNIVAAHGYFGRLIFQYASFNNSRSLHFFLAAWPVIGIWFTALGLSTMAFNLNGFNFNQSVVDSQGRVLNTWADI INRANLGMEVMHERNAHNFPLDLASTNSSSNN P07753 1.10.3.9 Photosystem II CP47 reaction center protein Chlamydomonas reinhardtii 0.05615982 2 LEVO MGLPWYRVHTVVINDPGRLISVHLMHTALVSGWAGSMALFEISVFDPSDPVLNPMWRQGMFVLPFMTRLGITQSWGGWTI SGETATNPGIWSYEGVAAAHIILSGALFLASVWHWTYWDLELFRDPRTGKTALDLPKIFGIHLFLSGLLCFGFGAFHVTG VFGPGIWVSDPYGLTGRVQPVAPSWGADGFDPYNPGGIASHHIAAGILGVLAGLFHLCVRPSIRLYFGLSMGSIETVLSS SIAAVFWAAFVVAGTMWYGSAATPIELFGPTRYQWDQGFFQQEIQKRVQASLAEGASLSDAWSRIPEKLAFYDYIGNNPA KGGLFRTGAMNSGDGIAVGWLGHASFKDQEGRELFVRRMPTFFETFPVLLLDKDGIVRADVPFRKAESKYSIEQVGVSVT FYGGELDGLTFTDPATVKKYARKAQLGEIFEFDRSTLQSDGVFRSSPRGWFTFGHVCFALLFFFGHIWHGARTIFRDVFA GIDDDINDQVEFGKYKKLGDTSSLREAF P37255 Photosystem II CP43 reaction center protein Chlamydomonas reinhardtii 0.050680737999999996 2 LEVO METLFNGTLTVGGRDQETTGFAWWSGNARLINLSGKLLGAHVAHAGLIVFWAGAMNLFEVSHFVPEKPMYEQGLILLPHI ATLGYGVGPGGEIIDTFPYFVSGVLHLISSAVLGFGGVYHSLIGPETLEESYPFFGYVWKDKNKMTNILGYHLIMLGLGA WLLVWKAMYFGGVYDTWAPGGGDVRVITNPTTNAAVIFGYLVKSPFGGDGWICSVDNMEDIIGGHIWIGTLEILGGIWHI YTTPWPWARRAFVWSGEAYLSYSLGAIGVMGFIACCMSWFNNTAYPSEFYGPTGPEASQSQAFTFLVRDQRLGANVASAQ GPTGLGKYLMRSPTGEIIFGGETMRFWDFRGPWLEPLRGPNGLDLNKLKNDIQPWQERRAAEYMTHAPLGSLNSVGGVAT EINAVNFVSPRSWLACSHFCLGFFFFIGHLWHAGRARAAAAGFEKGIDRFDEPVLSMRPLD P10898 Photosystem II D2 protein Chlamydomonas reinhardtii 0.039474031 2 LEVO MTIAIGTYQEKRTWFDDADDWLRQDRFVFVGWSGLLLFPCAYFALGGWLTGTTFVTSWYTHGLATSYLEGCNFLTAAVST PANSMAHSLLFVWGPEAQGDFTRWCQLGGLWAFVALHGAFGLIGFMLRQFEIARSVNLRPYNAIAFSAPIAVFVSVFLIY PLGQSGWFFAPSFGVAAIFRFILFFQGFHNWTLNPFHMMGVAGVLGAALLCAIHGATVENTLFEDGDGANTFRAFNPTQA EETYSMVTANRFWSQIFGVAFSNKRWLHFFMLLVPVTGLWMSAIGVVGLALNLRAYDFVSQEIRAAEDPEFETFYTKNIL LNEGIRAWMAAQDQPHERLVFPEEVLPRGNAL P06007 1.10.3.9 Cytochrome b559 subunit alpha Chlamydomonas reinhardtii 0.009312598 2 LEVO MAGKPVERPFSDILTSIRYWVIHSITVPALFIAGWLFVSTGLAYDVFGTPRPNEYFTEDRQEAPLITDRFNALEQVKKLS GN P48268 Cytochrome b559 subunit beta Chlamydomonas reinhardtii 0.004986013 2 LEVO MTTKKSAEVLVYPIFTVRWLAIHGIAVPTIFFLGAITAMQFIQR Q08363 Photosystem II reaction center protein H Chlamydomonas reinhardtii 0.009445063 2 LEVO MATGTSKAKPSKVNSDFQEPGLVTPLGTLLRPLNSEAGKVLPGWGTTVLMAVFILLFAAFLLIILEIYNSSLILDDVSMS WETLAKVS P22666 Photosystem II reaction center protein I Chlamydomonas reinhardtii 0.0042450349999999994 2 LEVO MLTLKIFVYTVVTFFVCLFIFGFLSNDPARNPGKNLD P59763 Photosystem II reaction center protein J Chlamydomonas reinhardtii 0.004291 2 LEVO MSNTGTTGRIPLWLVGTVVGTLAIGLLAVFFYGSYVGLGSSL O19930 Photosystem II reaction center protein K Chlamydomonas reinhardtii 0.0050621419999999995 2 LEVO MTTLALVLAKLPEAYAPFAPIVDVLPVIPVFFILLAFVWQAAVSFR P18263 Photosystem II reaction center protein L Chlamydomonas reinhardtii 0.004431229 2 LEVO MARPNPNKQVVELNRTSLYWGLLLIFVLAVLFSSYIFN P32974 Photosystem II reaction center protein M Chlamydomonas reinhardtii 0.003762433 2 LEVO MEVNIYGLTATALFIIIPTSFLLILYVKTASTQD P92277 Oxygen-evolving enhancer protein 1, chloroplastic Chlamydomonas reinhardtii 0.030557696999999998 2 LEVO MALRAAQSAKAGVRAARPNRATAVVCKAQKVGQAAAAAALATAMVAGSANALTFDEIQGLTYLQVKGSGIANTCPVLESG TTNLKELKAGSYKLENFCIEPTSFTVKEESQFKGGETEFVKTKLMTRLTYTLDAMSGSFKVGSDGSAELKEDDGIDYAAT TVQLPGGERVAFLFTIKQFDGKGTLDGIKGDFLVPSYRGSSFLDPKGRGGSTGYDNAVALPARADAEELLKENVKITKAL KGSAVFSVAKVDPVTGEIAGVFESIQPSDTDLGAKPPKDIKVTGLWYAQLK P12853 Chlorophyll a-b binding protein CP29 Chlamydomonas reinhardtii 0.029970846 2 LEVO MVFKFPTPPGTQKKAGTTATKPAPKATTKKVATSTGTRSGGVGYRKYQGDALWLPNTTRPEWLDGSLPGDRGFDPLGLSK PSEFVVIGVDENDQNAAKNNKGSVEAIVQATPDEVSSENRLAPYSEVFGLARFRECELIHGRWAMLACLGALVAEATTGV SWVEAGKVELDGASYAGLSLPFSITQLIWIEVILVGGAEFYRNSETNPEKRCYPGGVFDPLKLASEDEERAFRLKTAEIK HARLAMVSFFGYGVQALSTGEGALGSLAKFADGLNNGKGL Q93WD2 Chlorophyll a-b binding protein, chloroplastic Chlamydomonas reinhardtii 0.03074283 2 LEVO MQIQALFKKTGASAPAKKGTASTKVVKPSKAGGKATRGWLGGQGGAADLDKWYGPDRKLFLPSGLYDRSEIPEYLNGELA GDYGYDPLGLGKDPETVAKYRENELLHARWAMLAAAGILIPEGLQANGANIKGGTWFETGAEMLNGGTLNYFAVPWGIVS NPLPLFAVIAVEVGLMGAVEFYRRNGTGPAGYSPGIGKFDSSVFDGLDPLYPGGPFDPLGLADDPEVLQELKVKEIKNGR LAMVSVLGFAVQSYVTGEGPYANWTKHVADPFGYNLLTVLGAEERTPTL Q9FEK6 Photosystem II reaction center protein T Chlamydomonas reinhardtii 0.003639438 2 LEVO MEALVYTFLLVGTLGIIFFSIFFRDPPRMIK P37256 Photosystem II reaction center protein Ycf12 Chlamydomonas reinhardtii 0.003333058 2 LEVO MNIELALTLVSLVLVVSAGPLVVVLLSARGGNL Photosystem II reaction center W protein, chloroplastic Chlamydomonas reinhardtii 0.012155054 2 LEVO MQALSARAPRVAAKPVSRSGARSAVTVVCKATTVRSEVAKKVAMLSTLPATLAAHPAFALVDERMNGDGTGRPFGVNDPV LGWVLLGVFGTMWAIWFIGQKDLGDFEDADDGLKL Q9SPI9 4.1 kDa photosystem II subunit Chlamydomonas reinhardtii 0.009894716 2 LEVO MAAVCVSSKAVAVRPATRVASRPAARMVVRASAKPAQISEKAIAAGVSAAAAASLALAPIAEAAVTPSLKNFLGSLIAGA TVLGGIALAITAVSKFDKTIR A8I846 Photosystem II reaction center protein Z Chlamydomonas reinhardtii 0.006565863 2 LEVO MTSILQVALLALIFVSFALVVGVPVVFATPNGWTDNKGAVFSGLSLWLLLVFVVGILNSFVV P92276 CHLOROPHYLL B 0.000907472 122 CHL CHLOROPHYLL A 0.000893489 254 CLA (3R,3'R,6S)-4,5-DIDEHYDRO-5,6-DIHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL 0.000568871 42 LUT (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 0.00060087 20 XAT (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 0.00060087 22 NEX 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE 0.00072297 32 LHG CA-MN4-O5 CLUSTER 0.00033982699999999996 2 OEX FE (II) ION 5.5845e-05 2 FE2 CHLORIDE ION 3.5453e-05 2 CL PHEOPHYTIN A 0.0008712 4 PHO BETA-CAROTENE 0.000536873 20 BCR 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL 0.0007951159999999999 8 SQD 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE 0.0007871579999999999 14 LMG DIGALACTOSYL DIACYL GLYCEROL (DGDG) 0.0009492989999999999 10 DGD BICARBONATE ION 6.1017e-05 2 BCT 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 0.000749201 2 PL9 PROTOPORPHYRIN IX CONTAINING FE 0.000616487 2 HEM singleParticle particle 6.5 ETHANE FEI TALOS ARCTICA FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 200 2.7 GATAN K2 SUMMIT (4k x 4k) SUPER-RESOLUTION 1.31 1 281317 RELION 3.0 PHASE FLIPPING AND AMPLITUDE CORRECTION C2 3.4 FSC 0.143 CUT-OFF RELION 3.0 118423 MAXIMUM LIKELIHOOD RELION 3.0 MAXIMUM LIKELIHOOD RELION 3.0