In situ C2S2M2L4-type PSII-LHCII supercomplex, core, protomer 2

2026-10-07 REL PDBj INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY PDBj PDBj 2025-11-05 2026-10-07 2026-10-07 2026-10-07 National Natural Science Foundation of China (NSFC) 32201038 China In situ C2S2M2L4-type PSII-LHCII supercomplex, core, protomer 2 Li J Elias E Zhang K Croce R Zhu J Photosystem II, C2S2M2L4-type, core, in situ, Oryza sativa, chloroplast, Photosynthesis Li J Elias E Zhang K Croce R Zhu J In situ structures of plant photosystem supercomplexes. Nature UK 657 1094 1103 2026 42527593 doi:10.1038/s41586-026-10847-3 1476-4687 0006 NATUAS 9xk4 FULLOVERLAP EMDB EMD-66947 associated EM volume

In situ C2S2M2L4-type PSII-LHCII supercomplex, core, protomer 2 In situ C2S2M2L4-type PSII-LHCII supercomplex, core, protomer 2 0 10 12 13 14 16 17 19 20 21 Oryza sativa Japonica Group Photosystem II protein D1 Oryza sativa Japonica Group 0.036845961 1 LEVO TSLWGRFCNWITSTENRLYIGWFGVLMIPTLLTATSVFIIAFIAAPPVDIDGIREPVSGSLLYGNNIISGAIIPTSAAIG LHFYPIWEAASVDEWLYNGGPYELIVLHFLLGVACYMGREWELSFRLGMRPWIAVAYSAPVAAATAVFLIYPIGQGSFSD GMPLGISGTFNFMIVFQAEHNILMHPFHMLGVAGVFGGSLFSAMHGSLVTSSLIRETTENESANEGYRFGQEEETYNIVA AHGYFGRLIFQYASFNNSRSLHFFLAAWPVVGIWFTALGISTMAFNLNGFNFNQSVVDSQGRVINTWADIINRANLGMEV MHERNAHNFPLDL P0C434 1.10.3.9 Photosystem II CP47 reaction center protein Oryza sativa Japonica Group 0.055632101999999996 1 LEVO GLPWYRVHTVVLNDPGRLLSVHIMHTALVSGWAGSMALYELAVFDPSDPVLDPMWRQGMFVIPFMTRLGITNSWGGWSIS GGTVTNPGIWSYEGVAGAHIVFSGLCFLAAIWHWVYWDLEIFCDERTGKPSLDLPKIFGIHLFLAGVACFGFGAFHVTGL YGPGIWVSDPYGLTGKVQAVNPAWGAEGFDPFVPGGIASHHIAAGTLGILAGLFHLSVRPPQRLYKGLRMGNIETVLSSS IAAVFFAAFVVAGTMWYGSATTPIELFGPTRYQWDQGYFQQEIYRRVSDGLAENLSLSEAWSKIPEKLAFYDYIGNNPAK GGLFRAGSMDNGDGIAVGWLGHPIFRDKEGRELFVRRMPTFFETFPVVLVDEEGIVRADVPFRRAESKYSVEQVGVTVEF YGGELNGVSYSDPATVKKYARRSQLGEIFELDRATLKSDGVFRSSPRGWFTFGHATFALLFFFGHIWHGARTLFRDVFAG IDPDLDAQVEFGTFQKVGDPTTR P0C362 Photosystem II CP43 reaction center protein Oryza sativa Japonica Group 0.049289438 1 LEVO AGRDQETTGFAWWAGNARLINLSGKLLGAHVAHAGLIVFWAGAMNLFEVAHFVPEKPMYEQGLILLPHLATLGWGVGPGG EVLDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGYVWKDRNKMTTILGIHLILLGIGAFLLVLKALYFG GIYDTWAPGGGDVRKITNLTLSPGVIFGYLLKSPFGGEGWIVSVDDLEDIIGGHVWLGFICVFGGIWHILTKPFAWARRA FVWSGEAYLSYSLGALSVFGFIACCFVWFNNTAYPSEFYGPTGPEASQAQAFTFLVRDQRLGANVGSAQGPTGLGKYLMR SPTGEVIFGGETMRFWDLRAPWLEPLRGPNGLDLSRLKKDIQPWQERRSAEYMTHAPLGSLNSVGGVATEINAVNYVSPR SWLATSHFVLGFFFFVGHLWHAGRARAAAAGFEKGIDRDLEPVLYMTPLN P0C365 Photosystem II D2 protein Oryza sativa Japonica Group 0.038268645 1 LEVO NDLFDIMDDWLRRDRFVFVGWSGLLLFPCAYFALGGWFTGTTFVTSWYTHGLASSYLEGCNFLTAAVSTPANSLAHSLLL LWGPEAQGDFTRWCQLGGLWTFVALHGAFALIGFMLRQFELARSVQLRPYNAISFSGPIAVFVSVFLIYPLGQSGWFFAP SFGVAAIFRFILFFQGFHNWTLNPFHMMGVAGVLGAALLCAIHGATVENTLFEDGDGANTFRAFNPTQAEETYSMVTANR FWSQIFGVAFSNKRWLHFFMLFVPVTGLWMSAIGVVGLALNLRAYDFVSQEIRAAEDPEFETFYTKNILLNEGIRAWMAA QDQPHENLIFPEEVLPRGNAL P0C435 1.10.3.9 Cytochrome b559 subunit alpha Oryza sativa Japonica Group 0.00865469 1 LEVO RSFADIITSIRYWVIHSITIPSLFIAGWLFVSTGLAYDVFGSPRPNEYFTESRQGIPLITDRFDSLEQLDEFSRS P0C368 Cytochrome b559 subunit beta Oryza sativa Japonica Group 0.003509193 1 LEVO IFTVRWLAVHGLAVPTVFFLGSISAMQFIQR P0C401 Photosystem II reaction center protein H Oryza sativa Japonica Group 0.006472637999999999 1 LEVO GPRQTRVGNLLKPLNSEYGKVAPGWGTTPFMGVAMALFAVFLSIILEIYNSSVLLDGILM P0C420 Photosystem II reaction center protein I Oryza sativa Japonica Group 0.003912664 1 LEVO MLTLKLFVYTVVIFFVSLFIFGFLSNDPGRNPGR P0C405 Photosystem II reaction center protein J Oryza sativa Japonica Group 0.00358621 1 LEVO GRIPLWLIGTVTGIAVIGLIGVFFYGSYSGLGSSL P0C414 Photosystem II reaction center protein K Oryza sativa Japonica Group 0.004273127999999999 1 LEVO KLPEAYAIFNPIVDFMPVIPVLFFLLAFVWQAAVSFR P0C408 Photosystem II reaction center protein L Oryza sativa Japonica Group 0.0043669040000000004 1 LEVO TQSNPNEQNVELNRTSLYWGLLLIFVLAVLFSNYFFN P0C416 Photosystem II reaction center protein M Oryza sativa Japonica Group 0.003783538 1 LEVO MEVNILAFIATALFILVPTAFLLIIYVKTVSQND P0C411 33 kDa subunit of oxygen evolving system of photosystem II Oryza sativa Japonica Group 0.026609848000000002 1 LEVO EGVPRRLTFDEIQSKTYMEVKGTGTANQCPTVEGGVDSFAFKAGKYNMKKFCLEPTSFTVKAEGVAKNAPPEFQKTKLMT RLTYTLDEIEGPLEVSSDGTIKFEEKDGIDYAAVTVQLPGGERVPFLFTIKNLVATGKPESFGGPFLVPSYRGSSFLDPK GRGGSTGYDNAVALPAGGRGDEEELAKENVKNASSSTGNITLSVTKSKPETGEVIGVFESVQPSDTDLGAKVPKDVKIQG VWYAQLES Q943W1 23 kDa subunit of oxygen evolving system of photosystem II Oryza sativa Japonica Group 0.020122321999999998 1 LEVO AYGEAANVFGKPKTNTEFIAYSGEGFKLLIPSKWNPSKEREFPGQVLRYEDNFDANSNVSVIINPTTKKTITEFGSPEEF LAQVDFLLGKQAYSGKTDSEGGFESDAVATANILESSAPVVGGKQYYSVTVLTRTADGDEGGKHQLITATVNDGKLYICK AQAGDKRWFKGARKFVESAASSFSVA Q8GTK4 Photosystem II reaction center protein T Oryza sativa Japonica Group 0.003692472 1 LEVO MEALVYTFLLVSTLGIIFFAIFFREPPKVPTK P0C427 Os02g0581100 protein Oryza sativa Japonica Group 0.0030096309999999996 1 LEVO VKRGTPEAKKKYAQICVTMPTAKVCHN Q0E032 Photosystem II 10 kDa polypeptide, chloroplastic Oryza sativa Japonica Group 0.01086142 1 LEVO PSLIIVAKKAKKIQTSQPYGPAGGVVFKEGVDASGRVAKGKGLYQFSNKYGANVDGYSPIYTPEEWSSTGDVYVGGKAGL LLWAITLAGILVGGAILVYNTSALA Q8H4P7 Photosystem II reaction center W protein, chloroplastic Oryza sativa Japonica Group 0.00483354 1 LEVO LVDERMSTEGTGLSLGLSNNLLGWILLGVFGLIWSLYTIYTSDL Q5ZBY9 Os07g0673550 protein Oryza sativa Japonica Group 0.003927654 1 LEVO GSLTPSLKNFLLSIVSGGVVLVAIVGAVVAVSNFDPVKR Q7EXX2 Os08g0119800 protein Oryza sativa Japonica Group 0.004061776 1 LEVO DNRGLALLLPIAPAIAWVLYNILQPALNQLNRMRSE Q6ZJ41 Photosystem II reaction center protein Z Oryza sativa Japonica Group 0.0065827659999999994 1 LEVO MTIAFQLAVFALIVTSSVLVISVPLVFASPDGWSNNKNVVFSGTSLWIGLVFLVAILNSLIS P0C429 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE 0.00072297 16 LHG CA-MN4-O5 CLUSTER 0.00033982699999999996 1 OEX FE (II) ION 5.5845e-05 1 FE2 CHLORIDE ION 3.5453e-05 2 CL CHLOROPHYLL A 0.000893489 35 CLA PHEOPHYTIN A 0.0008712 2 PHO BETA-CAROTENE 0.000536873 11 BCR 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL 0.0007951159999999999 13 SQD 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 4 PL9 DIGALACTOSYL DIACYL GLYCEROL (DGDG) 0.0009492989999999999 5 DGD ALPHA-LINOLENIC ACID 0.00027843 1 LNL BICARBONATE ION 6.1017e-05 1 BCT PROTOPORPHYRIN IX CONTAINING FE 0.000616487 1 HEM (1S)-2-(ALPHA-L-ALLOPYRANOSYLOXY)-1-[(TRIDECANOYLOXY)METHYL]ETHYL PALMITATE 0.0006889719999999999 1 MGE singleParticle particle 7.3 ETHANE TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 1.4000000000000001 2.2 GATAN K3 (6k x 4k) 1.375 1 PHASE FLIPPING AND AMPLITUDE CORRECTION 5XNL 2.78 FSC 0.143 CUT-OFF cryoSPARC 173752 MAXIMUM LIKELIHOOD MAXIMUM LIKELIHOOD emd_66947.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 512 512 512 0 0 0 512 512 512 419.84 419.84 419.84 90.0 90.0 90.0 X Y Z -0.243058 0.4511527 0.00025331922 0.0074788844 0.82 0.82 0.82 0.02 AUTHOR ::::EMDATABANK.org::::EMD-66947:::: emd_66947_msk_1.map emd_66947_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 512 512 512 0 0 0 512 512 512 419.84 419.84 419.84 90.0 90.0 90.0 X Y Z -0.8743847 0.8326312 0.00010349332 0.09096521 0.82 0.82 0.82 AUTHOR ::::EMDATABANK.org::::EMD-66947:::: emd_66947_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 512 512 512 0 0 0 512 512 512 419.84 419.84 419.84 90.0 90.0 90.0 X Y Z -0.798937 0.8294793 0.00011019374 0.09119036 0.82 0.82 0.82 AUTHOR ::::EMDATABANK.org::::EMD-66947::::