2026-09-23 REL PDBj INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY STRUCTURE_SUMMARY chem_comp_atom chem_comp_bond citation em_admin pdbx_entry_details pdbx_modification_feature pdbx_validate_close_contact struct_conn struct_conn_type _citation.journal_id_ISSN _em_admin.last_update _pdbx_entry_details.has_protein_modification EXPERIMENTAL_SUMMARY citation em_admin _citation.journal_id_ISSN _em_admin.last_update EXPERIMENTAL_SUMMARY em_admin _em_admin.last_update REMEDIATION REPOSITORY Metalloprotein remediation STRUCTURE_SUMMARY chem_comp chem_comp_atom em_admin 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.formula _chem_comp_atom.pdbx_stereo_config _em_admin.last_update STRUCTURE_SUMMARY em_admin pdbx_modification_feature _em_admin.last_update EXPERIMENTAL_SUMMARY em_admin _em_admin.last_update STRUCTURE_SUMMARY em_admin pdbx_modification_feature pdbx_validate_close_contact struct_conn struct_conn_type _em_admin.last_update EXPERIMENTAL_SUMMARY em_admin _em_admin.last_update PDBj PDBj 2020-12-25 2022-02-16 2022-02-16 2026-09-23 Structure of GraFix PSI tetramer from Cyanophora paradoxa Kato K Nagao R Photosystem I, ELECTRON TRANSPORT, PHOTOSYNTHESIS Kato K Nagao R Ueno Y Yokono M Suzuki T Jiang TY Dohmae N Akita F Akimoto S Miyazaki N Shen JR Structure of a tetrameric photosystem I from a glaucophyte alga Cyanophora paradoxa. Nat Commun UK 13 1679 1679 2022 35354806 doi:10.1038/s41467-022-29303-7 2041-1723 Kato K Nagao R Ueno Y Yokono M Suzuki T Jiang TY Dohmae N Akita F Akimoto S Miyazaki N Shen JR Structural insights into an evolutionary turning-point of photosystem I from prokaryotes to eukaryotes Biorxiv US 2022 doi:10.1101/2022.01.03.474851 2692-8205 7dr2 FULLOVERLAP EMDB EMD-30823 associated EM volume
Structure of GraFix PSI tetramer from Cyanophora paradoxa
 PSI tetramer PSI tetramer 0 1 2 3 4 5 6 7 8 9 10 11 Cyanophora paradoxa 1.4 Photosystem I P700 chlorophyll a apoprotein A1 Cyanophora paradoxa 0.08339730499999999 4 LEVO MRISPPEREAKKVKIVIDKDPVSTSFDKWAVPGHFSRTLAKGPKTTTWIWNLHADVHDFDSYTSDLEEVSRKIFSAHFGH LAVVFIWLSGAYFHGARFSNYEAWLSNPTTIKPSAQVVWPIVGQEILNGDVGGGFQGIQITSGLFQMWRASGITTELQLY VTAIGALVMAALMLFAGWFHYHKAAPKLEWFQNAESMMNHHLGGLFGLGSLSWAGHQIHVSLPVNKLLDSGVSPQEIPLP HEFILNKDLIAQLYPSFGQGLTPFFTLNWNEYSDFLTFKGGLNPVTGGLWLSDSAHHHLAIAVLFIVAGHMYRTNWGIGH SMKEMYDSHKGPFTGEGHKGVYEIFTNSWHAQLSLNLALFGSLSIIVAHHMYSMPPYPYLATDYATSLCLFTHHVWIGGF LIVGAGAHAAIFMVRDYDPAQNYNNLVDRVLRHRDAIISHLNWVCIFLGFHSFGLYIHNDTMRALGRPQDMFSDAAIQLQ PVFAQWVQGVNSAAAGNTAPNALANASYAFGGDIVSVGGKVAMMPISLGTADFLVHHIHAFTIHVTVLILLKGVLFARNS RLIPDKANLGFRFPCDGPGRGGTCQVSAWDHVFLGLFWMYNSLSVVLFHFSWKMQSDVWGNVTADGAVSHITGNNFAQGA ITINGWLRDFLWAQASQVIQSYGSALSAYGLMFLGAHFIWAFSLMFLFSGRGYWQELIESIVWAHNKLKFAPSIQPRALS ITQGRAVGVAHYLLGGIATTWSFFHARIISVG A0A097PBL3 1.97.1.12 Photosystem I P700 chlorophyll a apoprotein A2 Cyanophora paradoxa 0.082316312 4 LEVO MGTKFPKASQALAQDPTTRRIWYGIATANDFETNDGITEENLYQKIFASHFGHLAIIFLWTSGNLFHVAWQGNFEQWVKD PLNTRPIAHAISDPHFGQRAIEAFSQAGASSPVNISYSGVYQWWYTQGMRTNEELYNGAIFLLILSALSLFAGWLHLQPK FRPNLSWFKNAESRLNHHLGGLFGTSSLAWTGHIVHVAIPESRGQHVGWDNFLQVAPHPAGLQPFFTGNWGVYTENPDTA NHVFGSSDGAGTAILTFLGGFHPQTQSLWLTDIAHHHLAIAVLFIVAGHMYRTNFGIGHSIKEILNGHRPPGGRLGAGHV GLYDTVNNSLHFQLGLALAALGVITSLVAQHMYSIPPYAYLARDFTTQAALYTHHQYIAGFLMVGAFAHGAIFLVRDYDA EQNKNNVLARIIDHKEAIISHLSWVSLFLGFHTLGLYVHNDVVQAFGTPEKQILIEPVFAQWIQSVHGKSLYGFEVLLNN ADSITRVAPGSAQPIWLPGWLDAINSGNNSLFLTIGPGDFLVHHAIALGLHTTTLILVKGALDARGSKLMPDKKDFGYSF PCDGPGRGGTCDISAWDAFYLAVFWMLNTIGWTTFYWHWKHLGVWQGNVAQFNESSTYLMGWFRDYLWLNSSQLINGYNP FGMNNLSVWAWMFLFGHLIWATGFMFLISWRGYWQELIETLVWAHERTPLANLVRWKDKPVALSIVQARLVGLAHFAVGY IVTYAAFLIASTASKFG P48113 1.97.1.12 Photosystem I iron-sulfur center Cyanophora paradoxa 0.008850220999999998 4 LEVO MAHTVKIYDTCIGCTQCVRACPTDVLEMVPWDGCRANQIASAPRTEDCVGCKRCESACPTDFLSIRVYLGAETTRSMGLG Y P31173 1.97.1.12 Photosystem I reaction center subunit II, cyanelle Cyanophora paradoxa 0.023693258000000002 4 LEVO MNAFVASVAPIAVAGSATLSSAVCAQKKAFFGAQVAAKKTTFEAAPARFIVRAEEEEAAPAEKVEKKAAAPKPFSVPTLN LNAPTPIFGGSTGGLLRKAEVEEFYSITWTGKSETVFELPTGGAAIMRAGENLLRLARKEQCIALGAQLKDKFKITDYKI YRVYPSGEVQFLHPKDGVFPEKVNPGRVAVGSNKRRIGQNPDPAKLKFKGQETFDSDLKL Q9T4W8 Photosystem I reaction center subunit IV Cyanophora paradoxa 0.008058164 4 LEVO MVQRGSKVRILRKESYWYQEIGTVASIDQSGIKYPVIVRFEKVNYSNVNSNNFSLDEVVEVEPPPSKKKA P48114 Photosystem I reaction center subunit III Cyanophora paradoxa 0.020697776999999997 4 LEVO MRKLFLLMFCLSGLILTTDIRPVRADVAGLIPCSQSDAFERRLKNTTQRLENRLKKYEPGSAPAEALQKQIDKTQQRFDK YRNSGLLCGADGLPHLITDGRWSHAGEFTIPGLLFLYIAGFIGWSGRSYLQAVAASDNSTEKEIIIDIPVALQSVSKGFV WPLAALQEFSSGKLTARDEEITISPR P48115 Photosystem I reaction center subunit VIII Cyanophora paradoxa 0.0037726199999999995 4 LEVO MVSNLPSILVPMVGIVLPAIVMALLFVYIETDEIA P48116 Photosystem I reaction center subunit IX Cyanophora paradoxa 0.004483274 4 LEVO MSFSKYLSTAPVIGTLTAFFLAGLLIEINRFNPDLLVYPF P48117 Photosystem I reaction center subunit PsaK 1 Cyanophora paradoxa 0.015704348 2 LEVO MAFVAPAPLAPARKFDAAQARNVCIRGAAVRPAAKPAAQPAVSFEVEAADKKAKFVAAASVASAIFLAHTGAAHAAEMVP VIAGAMTQSVGEAAEKSFVMLASVLFAGAVGGPGIKMKGQGPAWPFNAQIPFTPSEFLAVTALGHIIGTGVILGIGL Photosystem I reaction center subunit XI Cyanophora paradoxa 0.015376591 4 LEVO MAKDAVKPFYDDAFIGHLSTPISNSSAVNGLLANLPAYRKGLTPRLRGLEIGMAHGYFLTGPFVELGPLRNTDGGILYGS LSAVGLVVILTACLALYGKANFSGSSKSKDATLWESGEGWSDFVSGWLIGGAGSVGFAYLLLQYIL Photosystem I reaction center subunit XII Cyanophora paradoxa 0.0033340649999999998 4 LEVO MLADGQIFTALAVALVPGILALRLALELYKF P48185 CHLOROPHYLL A ISOMER 0.000893489 4 CL0 CHLOROPHYLL A 0.000893489 326 CLA PHYLLOQUINONE 0.000450696 8 PQN BETA-CAROTENE 0.000536873 76 BCR 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE 0.00072297 8 LHG IRON/SULFUR CLUSTER 0.00035163999999999996 12 SF4 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE 0.0007871579999999999 4 LMG singleParticle particle 0.048 6.5 50.0 MES-NaOH 0.03 DDM Quantifoil R2/1 COPPER 300 CARBON HOLEY ARRAY GLOW DISCHARGE ETHANE 100 277 FEI VITROBOT MARK IV FEI TALOS ARCTICA FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 200 FEI FALCON III (4k x 4k) 50.0 1 723316 Gctf 1.18 PHASE FLIPPING AND AMPLITUDE CORRECTION
De novo generation
 FOURIER SPACE 3.8 FSC 0.143 CUT-OFF RELION 3 40679 MAXIMUM LIKELIHOOD RELION 3 MAXIMUM LIKELIHOOD RELION 3 RELION 3 emd_30823.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 412 412 412 0 0 0 412 412 412 450.316 450.316 450.316 90.0 90.0 90.0 X Y Z -0.103816226 0.22017008 0.0006426144 0.005867366 1.093 1.093 1.093 0.05 AUTHOR FLEXIBLE FIT Correlation coefficient REAL