2026-08-12 REL PDBj INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY EXPERIMENTAL_SUMMARY em_admin em_software _em_admin.last_update _em_software.name EXPERIMENTAL_SUMMARY em_admin _em_admin.last_update REMEDIATION REPOSITORY Metalloprotein remediation STRUCTURE_SUMMARY chem_comp_atom em_admin pdbx_entry_details pdbx_modification_feature pdbx_nonpoly_atom_coordination pdbx_struct_conn_angle pdbx_validate_chiral pdbx_validate_close_contact struct_conn struct_conn_type _chem_comp_atom.pdbx_stereo_config _em_admin.last_update _pdbx_entry_details.has_protein_modification PDBj PDBj 2023-12-26 2024-07-31 2024-07-31 2026-08-12 National Basic Research Program of China (973 Program) China Si L Li M Photosystem II associated with CAC antenna from Rhodomonas Salina, PHOTOSYNTHESIS Si L Zhang S Su X Li M Nat Commun UK 15 6812 6812 2024 39122741 doi:10.1038/s41467-024-51206-y 2041-1723 EMD-38912 consensus EM volume EMD-38913 focused EM volume 8xlp FULLOVERLAP EMDB EMD-38455 associated EM volume

Structure of inactive Photosystem II associated with CAC antenna from Rhodomonas Salina

EMDB EMD-38912 consensus EM volume EMDB EMD-38913 focused EM volume Inactive Photosystem II associated with chlorophyll a/c binding protein Inactive Photosystem II associated with chlorophyll a/c binding protein 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 Rhodomonas salina Photosystem II protein D1 Rhodomonas salina 0.036342285 2 LEVO ESASLWERFCSWITSTDNRLYIGWFGVLMIPTLLTATTVYIIAFIAAPPVDIDGIREPVAGSLLYGNNIITGAVIPSSAS IGIHFYPIWEAASLDEWLYNGGPYQLIVDHFLLGVCGWIGREWEFSYRLGMRPWISVAFTAPVAAASAVFLVYPIGQGSF SDGMPLGISGTFNFMLVFQAEHNILMHPFHQLGVAGVFGGSLFSAMHGSLVTSSLIRETTENESANYGYKFGQEEETYNI VAAHGYFGRLIFQYASFNNSRALHFFLGLWPVVGIWFTALGIMTMAFNLNGFNFNQSVVDSQGRVINTWADILNRANLGM EVMHERNA A6MVT2 1.10.3.9 Photosystem II CP47 reaction center protein Rhodomonas salina 0.056331055 2 LEVO MGLPWYRVHTVVLNDPGRLIAVHLMHTALVAGWAGSMALYELAVFDPSDPVLNPMWRQGMFVMPFMARIGVTDSWGGWSI TGESVANPGFWSFEGVALAHIGLSGLLFLAAVWHWVYWDLELFRDPRTGNPALDLPKIFGIHLLLSGVLCFGFGAFHVTG AWGPGIWVSDAYGITGKVQPVAPAWGPEGFNPFNPSGVASHHIAAGILGFAAGIFHIAVRPPQRLYRALRMGNIETVLSS SIAAVFWSAFITTGTMWYGSATTPIELFGPTRYQWDSGYFQQEIERRVENSLNEGLSLSEAWSRIPDKLAFYDYVGNNPA KGGLFRAGPMNKGDGIAEAWLGHPIFQDKEGRELTVRRMPAFFETFPVILVDKDGIIRADIPFRRAESKYSIEQVGVTTS FYGGKLNGQVFTDAPTVKKYARKAQLGEVMEFDRTTLESDGVFRSSPRGWYTFGHANFALLFFLGHLWHGSRTLFRDVFS GIGAEVTEQVEFGAFQKLGDRSTKKQGAV A6MW31 Photosystem II CP43 reaction center protein Rhodomonas salina 0.053609383 2 LEVO MKVFALGWLLKISLMKTLYSLRRFYHVETPFNSNLGIAGRDIESTGFAWWSGNSRLINVSGKLLGAHVAHAGLMVFWCGA MTLFEVAHYIPEKPLYEQGLILLPHLATLGWGVGPGGEIVDIYPYFVVGILHIISSAVLGFGGVYHSLIGPDTLEESFPA FGYDWRDKNKITTILGIHLVILGFGALLLVVKAMYVGGLYDTWAPGGGDVRIIDNPTLNPVVIIGYVLKSPWGGDGWIVS VNNMEDIVGGHIWIGFTCIAGGFWHILTKPFAWARRAYVWSGEAYLSYSLVAVSLMGFIASQYSWYNNTAYPSEFYGPTG PEASQSQAFTFLVRDQRLGASVASAQGPTGLGKYLMRSPSGEIILGGETQRFWDLRAPWIEPLRGPNGLDLNKIKNDIQP WQERRAAEYMTHAPLGSLNSVGGVATEINSVNFVSPRSWLTCAHFLLGFVFYIGHLWHAGRARAAAAGFEKGINRENEPT LSLRPID A6MVR2 Photosystem II D2 protein Rhodomonas salina 0.039220824 2 LEVO MTIAIGQEEGRGWFDLMDDWLKRDRFVFVGWSGLLLFPTSYLSIGGWFTGTTFVTSWYTHGLASSYLEGCNFFTAAVSTP ANSMGHSLLLLWGPEAQGDFTRWCQIGGLWAFCALHGSFGLIGFCLRQFEIARLVGIRPYNAIAFSGPIAIFVSVFLMYP LGQASWFFAPSLGVAAIFRFLLFIQGFHNFTLNPFHMMGVAGILGAALLCAIHGATVQNTIFEDGDAANTFRAFTPTQAE ETYSMVTANRFWSQIFGVAFSNKRWLHFFMLFVPLAGLWTSAIGIVGLALNLRAYDFVSQELRAAEDPEFETFYTKNILL NEGIRSWMAAQDQPHENFIFPEEVLPRGNAL A6MVR3 1.10.3.9 Cytochrome b559 subunit alpha Rhodomonas salina 0.009503719999999998 2 LEVO MSGGSTGERPFSDIITSIRYWIIHSITIPALFVAGWLFVSTGLAYDIFGTPRPNEYFTQERQQVPLVNDRFSAKQELEDL TKGL A6MVV5 Cytochrome b559 subunit beta Rhodomonas salina 0.004860847 2 LEVO MSKIKQPISYPIFTFRWLAIHGLAVPTVFFLGAITSMQFIQR A6MVV4 Photosystem II reaction center protein H Rhodomonas salina 0.007429764 2 LEVO MALRTRLGELLRPLNSEYGKVAPGWGTTPIMGFVMLLFAVFLLIILQIYNSSLIIENVDVDWASLGS A6MW35 Photosystem II reaction center protein I Rhodomonas salina 0.004390064999999999 2 LEVO MFTLKIVVYTTVTLFVSLFTFGFLSNDASRNPNRKDLE A6MVW0 Photosystem II reaction center protein K Rhodomonas salina 0.005025104 2 LEVO MEGIFLLAKLPEAYAVFKPIIDVAPVIPVFFLLLAFVWQAAVGFR A6MVZ3 Photosystem II reaction center protein L Rhodomonas salina 0.004363087 2 LEVO MSGPNPNKQPVELNRTSLFWGLLLIFVLAVLFSSYFFN A6MVV3 Photosystem II protein M Rhodomonas salina 0.004300023 2 LEVO MNVSVAAYLAVLLGTFIPVVFLITLFIQSEARKAAESGQE Photosystem II reaction center protein T Rhodomonas salina 0.0037085 2 LEVO METLVYTFLLIGTLGVLFFAVFFRDPPRIAKK A6MW32 Photosystem II protein W Rhodomonas salina 0.007864870999999999 2 LEVO MNANVAKALAPAVAAFSVAAPAFAEGTGEALGVDDGRLLVPLVLIPVFIAILFSNFASTQDNEDFFDTYDQRRK Photosystem II reaction center X protein Rhodomonas salina 0.004192965 2 LEVO MTPSFSAFINSLLAGLFIVIIPIGTALLIVSQSDRLTRN A6MVU5 Photosystem II reaction center protein Psb30 Rhodomonas salina 0.003662478 2 LEVO MPNLQTVAQLISLFLILTSGPAIIVLIALRRGNL A6MVU9 Photosystem II reaction center protein Z Rhodomonas salina 0.006656092 2 LEVO MVAILQLLVSMLILLSFALVVSVPVILVSPGEWEKSKGLVYTGAGLWFGLVIMTAAFNSFVI A6MVZ2 NCP Rhodomonas salina 0.030760854999999997 2 LEVO RTVLVLACSLLLFAPSSHAFAPAGVARVGMPLRGKSVSARSARVTPAKMAMDPSQLSHIADGAQTFLSTLDTVPFIDEVT GEPQGFTSPKNHFASVIGLWVLFALPVWSAAYKQAGCTTPDWFGVSQVAEDAPGVGLLAKAAPEYNGPSFREGLEYVFSF VWKPPILIAWKPRADLDRDAMDPARDTVVSSLYKGLGGALDKTAVYDEEDQLLILSDIVTFEETDLGRRREAIAEASGWY TGNPSFGRSLIEYSEQTRKGKRDQGTVTISTEELAKLRAEAAKK CAC2 Rhodomonas salina 0.023912699 2 LEVO MLRTALIAACVASASAFVPASGFAPMAMKSRTSAVSSMRMQEGDFSAAVPFLKRPSNLDGAYIGDVGFDPLGFSDVFDLR VLREAELKHGRFAMLAVLGFIVQELYTFPFFPKMAPVDAHDYFVKQGGGSQIIFWISFVELFGVVALFETLQGKREPGDF AFDPLGLAKDEATLERYRLAEVKHARLAMIAIGGFIHQYWVTKQTVLEQLGNFKSLA CAC3 Rhodomonas salina 0.023723541 2 LEVO MAVLALACVAAASAFSSPALLGGVTRATRASAISGMKMQDRSYSMPFLSRPPALDGTMAGDVGFDPLGFSNYFDLKWLRE AELKHGRICMLGCLGFITQEKIQLPLPGFDNKVATEAFFSVPAGGLWQIFFTLGAIEILSNGGKLAPADMFAEGRAPGDL GFDPLNLSGDDAALRRFELAELKHARLAMIGLGGMLHQMLITKQAPLEQLANFQPIQYYGL CAC4 Rhodomonas salina 0.023111849999999996 2 LEVO MAVVASASAFAPAGVLPRAATRAAAKSSAPTMQLYQEGILQGITVNAIPKAERPPGLDGTYVGDIGFDPLGFSSIIDMRW LREAELKHGRVCMLAATGMIVQDVYQFPGVTKSFGDAKMTTLHDVAVKQGSMQQLLVWLGFLEIFGFVAIVQMLQGSDRQ PGDFGFDPLNCAANPDALARRQLVELKNGRLAMIATAGMLHHFFITGKGPIQLITG CAC5 Rhodomonas salina 0.024738434 2 LEVO MLRTTLALAAVAGAAAFAPSPAFAPKAATTRAVATQGPRMAVFGGDFSESVPFLKTPTNLDGSLPGDVGFDPLGFSEVFD IRVLREAELKHGRIAMLATLGYLVQEAYVLPFFEKVPPIQAHDALVKSGGMSQILLWTSFLEIFGGIALFSTIQGRRYPG DFSFDPLGLSQGKNADKLEQYQLAEIKHSRLAMLAFSGFVHQGFITKQGVLEQLGNFRPIPGFPEATFF CAC6 Rhodomonas salina 0.024792469 2 LEVO MDKHADIETEKSCIPGRIPRSRRCTLISIPRRVSDGCTLCSAAAIARGPTMQDNAMPFLERPPKLDGSLAGDVGFDPVGF SNYFDLRWLRESELKHGRVCMLGVTGLLVQEAVCLPQFSNGKTPVDDFFVVPAAGLWQVFFAIGAVEFFSHGFKLTPGDM FSEGREAGDFGFDPLNLSGNPDALARRRLVEVKNGRLAMIAFGGLLHQQLLTGQGTFEQLANFKAIA CAC1 Rhodomonas salina 0.025265215 2 LEVO MRFAFAALCASASAFTASPALFTRQSTRAAVSRGPSMQLYQEGVLQGLGVDAIPGTDRPKNLDGTLVGDIGFDPLGFSNW LDLRWAREAEIKHGRVAMLAATGMIVQDVYKFPGVQQTFGDASMMKLHNVAVGQGAMQQLFLWITVLETLTGIPAIIQTL KGSERQPGDFGFDPLGCGSNPEQLARRQLVELKNGRLAMIAVGGMVHHYLLVGRGPIEFIKNIPNFKNPLPPF FE (II) ION 5.5845e-05 2 FE2 CHLOROPHYLL A 0.000893489 194 CLA PHEOPHYTIN A 0.0008712 4 PHO 1,3,3-trimethyl-2-[(1E,3E,5E,7E,9E,11E,13E,15E,17E)-3,7,12,16-tetramethyl-18-[(1R)-2,6,6-trimethylcyclohex-2-en-1-yl]octadeca-1,3,5,7,9,11,13,15,17-nonaenyl]cyclohexene 0.000536873 24 WVN 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL 0.0007951159999999999 4 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 BICARBONATE ION 6.1017e-05 2 BCT 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE 0.00072297 20 LHG CHLORIDE ION 3.5453e-05 4 CL MANGANESE (II) ION 5.4938e-05 4 MN 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE 0.0007871579999999999 22 LMG DIGALACTOSYL DIACYL GLYCEROL (DGDG) 0.0009492989999999999 4 DGD PROTOPORPHYRIN IX CONTAINING FE 0.000616487 2 HEM Chlorophyll c2 0.000608926 24 KC2 (1~{R})-3,5,5-trimethyl-4-[(3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E})-3,7,12,16-tetramethyl-18-[(4~{R})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-3,5,7,9,11,13,15-heptaen-1,17-diynyl]cyclohex-3-en-1-ol 0.00056484 48 II0 (1~{R})-3,5,5-trimethyl-4-[(3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-3,7,12,16-tetramethyl-18-(2,6,6-trimethylcyclohexen-1-yl)octadeca-3,5,7,9,11,13,15,17-octaen-1-ynyl]cyclohex-3-en-1-ol 0.000550856 8 IHT water 1.8015e-05 2 HOH singleParticle threeDArray 7.5 ETHANE FEI TITAN FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 1.2 2.2 DIRECT ELECTRON DE-16 (4k x 4k) 60.0 1 PHASE FLIPPING AND AMPLITUDE CORRECTION 6JLU 2.57 FSC 0.143 CUT-OFF 112613 ANGULAR RECONSTITUTION ANGULAR RECONSTITUTION