Structural insights into photosystem II supercomplex and trimeric FCP antennae of a centric diatom Cyclotella meneghiniana

2026-09-23 REL PDBj INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY REMEDIATION REPOSITORY Metalloprotein remediation STRUCTURE_SUMMARY chem_comp_atom chem_comp_bond em_admin pdbx_entry_details pdbx_modification_feature pdbx_nonpoly_atom_coordination pdbx_struct_conn_angle pdbx_validate_chiral struct_conn _chem_comp_atom.pdbx_stereo_config _em_admin.last_update _pdbx_entry_details.has_protein_modification EXPERIMENTAL_SUMMARY em_admin _em_admin.last_update STRUCTURE_SUMMARY em_admin pdbx_modification_feature _em_admin.last_update _pdbx_modification_feature.ref_pcm_id EXPERIMENTAL_SUMMARY em_admin _em_admin.last_update DATA_COLLECTION em_admin _em_admin.last_update EXPERIMENTAL_SUMMARY em_admin _em_admin.last_update PDBj PDBj 2023-04-23 2023-12-20 2023-12-20 2026-09-23 Chinese Academy of Sciences China Structural insights into photosystem II supercomplex and trimeric FCP antennae of a centric diatom Cyclotella meneghiniana Shen LL Li ZH Shen JR Wang WD PSII-FCPII supercomplex, PHOTOSYNTHESIS Zhao S Shen L Li X Tao Q Li Z Xu C Zhou C Yang Y Sang M Han G Yu LJ Kuang T Shen JR Wang W Structural insights into photosystem II supercomplex and trimeric FCP antennae of a centric diatom Cyclotella meneghiniana. Nat Commun UK 14 8164 8164 2023 38071196 doi:10.1038/s41467-023-44055-8 2041-1723 8j5k FULLOVERLAP EMDB EMD-35987 associated EM volume

Cm-PSII-FCPII Cm-PSII-FCPII 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 Stephanocyclus meneghinianus PsbA Stephanocyclus meneghinianus 0.036951097999999995 2 LEVO VSLWERFCAWITSTENRLYIGWFGCLMFPTLLTATSCFIIAFIAAPPVDIDGIREPVSGSLLYGNNIISGAVVPSSNAIG MHFYPIWEAASVDEWLYNGGPYQLIVLHFLLGVSAYMGREWELSYRLGMRPWIFVAFSAPVAAASAVFLVYPIGQGSFSD GMPLGISGTFNFMLVFQAEHNILMHPFHMAGVAGVFGGSLFSAMHGSLVTSSLIRETTENESTNYGYKFGQEEETYNIVA AHGYFGRLIFQYASFNNSRALHFFLALWPVVGIWITAMGISTMAFNLNGFNFNQSVVDSQGRVINTWADILNRANLGIEV MHERNAHNFPLDL PsbB Stephanocyclus meneghinianus 0.053504957 2 LEVO ALPWYRVHTVVLNDPGRLIAVHLMHTALVAGWAGSMALYELAVFDPSDPVLNPMWRQGMFVMPFMTRLGITDSWGGWSIT GESVSNPGIWSFEGVALSHIILSGMCFLAAIWHWVYWDLELFRDPRTGEPALDLPKIFGIHLFLSGLLCFGFGAFHVTGL FGPGIWVSDAYGITGKVQPVAPAWGADGFNPFNPGGIAAHHIAAGIFGIFAGIFHLTVRPPQRLYRALRMGNIETVLSSS ISAVFFAAFVTSGTMWYGAAATPIELFGPTRYQWDSGYFQQEIERQVETSVSEGLSESQAWSRIPDKLAFYDYIGNNPAK GGLFRAGPMNKGDGIAEAWLGHPIFRDKEGRELTVRRMPAFFETFPVILVDKDGIIRADIPFRRAESKYSIEQVGVTVDF YGGKLNGQTFKDAPTVKKFARKAQLGEVFEFDRTSLESDGVFRSSPRGWYTYGHANFALLFFFGHLWHGGRTIFRDVFTG I PsbC Stephanocyclus meneghinianus 0.049357347999999995 2 LEVO IAGRDIESTGFAWWSGNARLINVSGKLLGAHVAHAGLMVFWAGAMVLFEVSHFVPEKPTYEQGFILIQHLATLGYGIGPG GEITSTVPYFAVGVIHLISSAILGFGGIYHSLLGPDTLEESFPFFGYDWRDKNKMTTILGIHLCLLGLGSFLLVIKAMYL GGVYDTWAPGGGDVRYITTPTLNPIVIFGYVFRSPFGGDGWVVSVNNMEDVIGGHIWVGILCIVGGIWHIFTKPFAWARR AFVWSGEAYLSYSLAAISLMGFTAALYSWYNNTAYPSELYGPTGPEASQAQAFTFLVRDQRLGANVSSAQGPTGLGKYLM RSPSGEIIFGGETMRFWDLRAPWVEPLRGPNGLDINKIKNDIQPWQERRAAEYMTHAPLGSLNSVGGVATEINSVNYVSP RSWLCCSHFFLAFFFLVGHWWHAGRARAAAAGFEKGIDRDFEPVLSMTPL PsbD Stephanocyclus meneghinianus 0.037826109 2 LEVO GLFDLVDDWLKKDRFVFVGWSGLLLFPTAYLAAGGWMTGTTFVTSWYTHGLASSYLEGCNFLTAAVSTPANSVGHSLLLL WGPEAQGDFTRWCQIGGLWTFVALHGAFGLIGFCLRQFEIARLVGIRPYNAIAFSGPIAVFVSVFLLYPLGQASWFFAPS FGVAAIFRFLLFLQGFHNWTLNPFHMMGVAGILGGALLCAIHGATVENTLFEDGDAANTFRAFTPTQSEETYSMVTANRF WSQIFGVAFSNKRWLHFFMLFVPVTGLWTSSIGIVGLALNLRAYDFVSQELRAAEDPEFETFYTKNHLLDEGIRAWMAAQ DQPHENFVFPEEVLPRGNAL PsbE Stephanocyclus meneghinianus 0.008687783999999999 2 LEVO RPFSDIITSVRYWIIHSITIPSLFVSGWLFISTGLAYDVFGTPRPNEYFTQDRQQVPLVNDRFSAKQELEDLTKG PsbF Stephanocyclus meneghinianus 0.003555263 2 LEVO IFTFRWLAVHGLAIPTVFFLGGITAMQFIQR PsbH Stephanocyclus meneghinianus 0.007188501 2 LEVO ALRTRLGEILRPLNAEYGKVAPGWGTTPIMGIVMLAFLIFLVIILQIYNSSLIIENVDVDWANGI PsbI Stephanocyclus meneghinianus 0.003940673 2 LEVO MLTLKILVYTTVIFFVSLFIFGFLSSDPSRNPNR PsbJ Stephanocyclus meneghinianus 0.003487078 2 LEVO GRVPLWLVGLVGGFAVITIVSLFIYGSYSGLGSS PsbK Stephanocyclus meneghinianus 0.004225085 2 LEVO KLPEAYAFLNPIVDVMPVIPVLFFLLAFVWQAAVSFR PsbL Stephanocyclus meneghinianus 0.00423588 2 LEVO TGPNPNKQAVELNRTSLYWGLLLIFVLAVLFSSYFFN PsbM Stephanocyclus meneghinianus 0.004358022 2 LEVO EVQFGAYLAVLLGTFLPALFLVNLFIQTEARKAGKAGGQDS Psb34 Stephanocyclus meneghinianus 0.0025711609999999998 2 LEVO (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) PsbO Stephanocyclus meneghinianus 0.026749297 2 LEVO LTKSQINELSYLQVKGTGLANRCAEVVGEDSIKPKPGAKLVDMCIEPKAWAVEEEVGKAGKTEKKFVNSKVMTRQTYTLD AIEGPITVDGGKITFSEKEGIDYAATTVQLPGGERVPFLFTVKDLVAKGNGDTFKPGFQMGGDFNTPSYRTGLFLDPKGR GGTTGYDMAVALPALQLGEEGDAELFGENNKVFDITQGRIEMEVNKVNAEDSEIGGVFVATQLSDTDMGSKTPKKVLTKG IFYAKVEQ PsbQ' Stephanocyclus meneghinianus 0.016001863999999998 2 LEVO SVFGLIGDGTSYSEGAAYGTDQADKLYSPYSVYSPEGEKSLYKPDSAEYLARKKAVLAETKNRLQKIPGYVDKKEWFNVK DELTRYMYETRGAVRSLSSSVTQKEKAEVFFRALEDTYGAATLKKGDAVKASNDKAIAALDAFTA PsbT Stephanocyclus meneghinianus 0.003441195 2 LEVO MEALVYTFLLIGTLMVIFFAVFFRETPRI PsbU Stephanocyclus meneghinianus 0.010010334000000001 2 LEVO VIDYENIGYLGGSSIVDINNANIRAYLKMPGMYPTVAGKIVSHGPYSGVSDLYKIPGLSSAEADVIKKYESRLTAKTPSP DYVIDRINNGLY PsbV Stephanocyclus meneghinianus 0.014757662999999999 2 LEVO IDLDEATRTVVVDNAGNTTVLTPEQVKRGKRLFNATCGACHVGGITKTNPNVGLDPEALSLATPRRDNINALVDYIKNPT TYDGLESIAEVHPSIKSADIYPRMRSLTDEDLYSIAGHIMLSPKIASEKWGGGKIY PsbW Stephanocyclus meneghinianus 0.005606404999999999 2 LEVO ARFANGKPQSIEAKYIMRSPAEWDRFMRFMDRYAEANGLGFSS(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) PsbX Stephanocyclus meneghinianus 0.003389061 2 LEVO MTASLSNFIASLIAGGVVVGVIAIALIVISKSDR PsbY Stephanocyclus meneghinianus 0.0036343429999999995 2 LEVO DTRLLVIAAPVLVAASWALFNIGRLAIQQIQRL PsbZ Stephanocyclus meneghinianus 0.0062333119999999995 2 LEVO MITALTALFVLVSLALVVTVPVALATPGEWETSKDQFNKIFQLWVGLVVAIATADGIST FCPII-G, fucoxanthin chlorophyll a/c binding protein Stephanocyclus meneghinianus 0.018512004 2 LEVO APPGLVGALPPVGFFDPAGFAAKASPEELSRYREVEIMHGRFAQLAVLGFIIPEKCAYDGSFGDDFLAPTGRALEVFNTD PLWLGLTLAVISALETVRLIETEPGTRTDAKIESLGWRPKTESEYINYQVRELQQGRLAMLAFAGEVAQELVNDKPLLVN LQDSGFVSW FCPII-H2, fucoxanthin chlorophyll a/c binding protein Stephanocyclus meneghinianus 0.018251734 2 LEVO FENELGVIAPTGFFDPLGLSKNISKEKFDEYRTAELKHGRAAMLAVLGYIAPETYRFGFDIAPGVSTYDIPNGVAAIDYI PALGWAQIIFLIGAVDYWGVLGDFSFGKPDLGDKEEERKLQELQHGRLAMLAFLELLRHDSQNFVSPGFDGYDKMITGLP FMYG FCPII-H1, fucoxanthin chlorophyll a/c binding protein Stephanocyclus meneghinianus 0.018085544999999998 2 LEVO FENELGVIAPTGFFDPLGFTQDIDQEKFDQYRTAELKHGRVAQLAVVGYVVPEFFRWGFDIAPGIACADVPNGVAAINAI PALGWAQIIFAIGAVDVRGWFGNFDIGKPDLKGKEEERALQELQHGRLAMLAILELLRHDSQNLVKPGFDGLDNLITGLP FLYN FCPII-I, fucoxanthin chlorophyll a/c binding protein Stephanocyclus meneghinianus 0.02327917 2 LEVO SPRALPFGSAPATLDGSLVGDVGFDPIGFSTAPFASFNNPLYKEGDFMSDLEWLREAELTHGRIAQLAVLGFIWPALFGT FPGNENFGGADAFSYVNPLEAITHVPDLAIYQIVGGMAWVEYQRVIRIKEQGKNRVSGDIGLGYPGGWNPFNLNYSPEEY AEKQLQEIKHCRLAMIGAFGLFFQALNSGTDIVSQLSPAFAAPDYAAKAGYFLP FCPII-K, fucoxanthin chlorophyll a/c binding protein Stephanocyclus meneghinianus 0.013039064 2 LEVO (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) FCPII-J, fucoxanthin chlorophyll a/c binding protein Stephanocyclus meneghinianus 0.017850196999999998 2 LEVO ENEIGALAPTGFFDPAKLSDGISQEKFDQYRLAELKHGRAAMLAVLGYVAPETYRFGYDLIPGELSTRDIPNGVAALNAI PFGGWVQMIAFVGTVEAYGWFTSPTGVLDLPADILAKRQTSELQHGRLAMLAFLELIRHDSQNLAQPGFDGYDNLITGLP FLY CA-MN4-O5 CLUSTER 0.00033982699999999996 2 OEX FE (II) ION 5.5845e-05 2 FE2 CHLOROPHYLL A 0.000893489 206 CLA 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 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 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE 0.00072297 14 LHG 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE 0.0007871579999999999 22 LMG CHLORIDE ION 3.5453e-05 2 CL DIGALACTOSYL DIACYL GLYCEROL (DGDG) 0.0009492989999999999 8 DGD BICARBONATE ION 6.1017e-05 2 BCT PROTOPORPHYRIN IX CONTAINING FE 0.000616487 4 HEM (3S,3'S,5R,5'R,6S,6'R,8'R)-3,5'-dihydroxy-8-oxo-6',7'-didehydro-5,5',6,6',7,8-hexahydro-5,6-epoxy-beta,beta-caroten-3'- yl acetate 0.0006589059999999999 24 A86 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