Photosynthetic assembly of Chlorobaculum tepidum (RC-FMO1)

2026-08-12 REL RCSB INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY STRUCTURE_SUMMARY em_admin entity _chem_comp.name _em_admin.last_update _entity.formula_weight _entity.pdbx_description REFINEMENT_DESCRIPTION chem_comp_atom chem_comp_bond em_3d_fitting_list pdbx_initial_refinement_model _em_3d_fitting_list.accession_code _em_3d_fitting_list.initial_refinement_model_id _em_3d_fitting_list.source_name _em_3d_fitting_list.type REMEDIATION REPOSITORY Metalloprotein remediation STRUCTURE_SUMMARY atom_site chem_comp chem_comp_atom chem_comp_bond database_PDB_caveat em_admin entity pdbx_entity_instance_feature pdbx_entity_nonpoly pdbx_entry_details pdbx_modification_feature pdbx_nonpoly_atom_coordination pdbx_nonpoly_atom_coordination_sphere pdbx_nonpoly_atom_coordination_sphere_order pdbx_nonpoly_scheme pdbx_struct_conn_angle pdbx_validate_chiral struct_conn _atom_site.B_iso_or_equiv _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.type_symbol _chem_comp.formula _chem_comp.formula_weight _chem_comp.id _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.type _database_PDB_caveat.text _em_admin.last_update _entity.formula_weight _entity.pdbx_description _pdbx_entity_instance_feature.auth_comp_id _pdbx_entity_instance_feature.comp_id _pdbx_entity_nonpoly.comp_id _pdbx_entity_nonpoly.name _pdbx_entry_details.has_protein_modification _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_validate_chiral.auth_atom_id _pdbx_validate_chiral.auth_comp_id _pdbx_validate_chiral.details RCSB RCSB 2022-03-21 2022-10-05 2022-10-05 2026-08-12 Other government W911NF2010321 National Science Foundation (NSF, United States) NSF MRI 1531991 United States Photosynthetic assembly of Chlorobaculum tepidum (RC-FMO1) Puskar R Truong CD Swain K Li S Cheng K-W Wang TY Poh Y-P Liu H Chou T-F Nannenga B Chiu P-L FMO, reaction center, single-particle cryo-EM, bacteriochlorophyll, photosynthesis, electron transport chain, energy transfer Puskar R Du Truong C Swain K Chowdhury S Chan KY Li S Cheng KW Wang TY Poh YP Mazor Y Liu H Chou TF Nannenga BL Chiu PL Molecular asymmetry of a photosynthetic supercomplex from green sulfur bacteria. Nat Commun UK 13 5824 5824 2022 36192412 doi:10.1038/s41467-022-33505-4 2041-1723 7uea FULLOVERLAP EMDB EMD-26469 associated EM volume

Photosynthetic assembly (RC-FMO1) Photosynthetic assembly (RC-FMO1) 0 1 2 3 4 5

Photosynthetic assembly from Chlorobaculum tepidum (RC-FMO1)

Chlorobaculum tepidum TLS Membrane 0.370 Photosystem P840 reaction center, large subunit Chlorobaculum tepidum TLS ATCC 49652 / DSM 12025 / NBRC 103806 / TLS 0.081784641 2 LEVO MAEQVKPAGVKPKGTVPPPKGNAPAPKANGAPGGASVIKEQDAAKMRRFLFQRTETRSTKWYQIFDTEKLDDEQVVGGHL ALLGVLGFIMGIYYISGIQVFPWGAPGFHDNWFYLTIKPRMVSLGIDTYSTKTADLEAAGARLLGWAAFHFLVGSVLIFG GWRHWTHNLTNPFTGRCGNFRDFRFLGKFGDVVFNGTSAKSYKEALGPHAVYMSLLFLGWGIVMWAILGFAPIPDFQTIN SETFMSFVFAVIFFALGIYWWNNPPNAAIHLNDDMKAAFSVHLTAIGYINIALGCIAFVAFQQPSFAPYYKELDKLVFYL YGEPFNRVSFNFVEQGGKVISGAKEFADFPAYAILPKSGEAFGMARVVTNLIVFNHIICGVLYVFAGVYHGGQYLLKIQL NGMYNQIKSIWITKGRDQEVQVKILGTVMALCFATMLSVYAVIVWNTICELNIFGTNITMSFYWLKPLPIFQWMFADPSI NDWVMAHVITAGSLFSLIALVRIAFFAHTSPLWDDLGLKKNSYSFPCLGPVYGGTCGVSIQDQLWFAMLWGIKGLSAVCW YIDGAWIASMMYGVPAADAKAWDSIAHLHHHYTSGIFYYFWTETVTIFSSSHLSTILMIGHLVWFISFAVWFEDRGSRLE GADIQTRTIRWLGKKFLNRDVNFRFPVLTISDSKLAGTFLYFGGTFMLVFLFLANGFYQTNSPLPPPVSHAAVSGQQMLA QLVDTLMKMIA Q8KAY0 Photosystem P840 reaction center iron-sulfur protein Chlorobaculum tepidum TLS ATCC 49652 / DSM 12025 / NBRC 103806 / TLS 0.023540289 1 LEVO MAEPVENKNQAPAPGAKVPPKGAPAAPKAGAPAAPKGPVAPKAGAPAAKTGASAAKQAGKPRLASLGVTLGRSGVRQESA LPYVKPKAVPPPKPAAPAAKGAPAPKGAPAAPAAKAAPGAPVAKAAPKAKKHYFIIENLCVGCGLCLDKCPPKVNAIGYK FYGDVQEGGFRCYIDQAACISCSACFSGDECPSGALIEVLPDGEVLDFSYTPPERLDFDLRFLHRFHREAR Q8KAY1 Cytochrome c Chlorobaculum tepidum TLS ATCC 49652 / DSM 12025 / NBRC 103806 / TLS 0.022741778999999997 2 LEVO MDKNSNGKLIALAVGGAVLMGALFFSVSFLTGYIPAPNHSAILTPLRSFMGWFLLIFCASIIIMGLGKMSSAISDKWFLS FPLSIFVIVMVMFLSLRVYWEKGRTTTVDGKYIRTTAELKEFLNKPAATSDVPPAPAGFDFDAAKKLVDVRCNKCHTLDS VADLFRTKYKKTGQVNLIVKRMQGFPGSGISDDDAKTIGIWLHEKF O07091 P840 reaction center 17 kDa protein Chlorobaculum tepidum TLS ATCC 49652 / DSM 12025 / NBRC 103806 / TLS 0.016633195 1 LEVO MQPQLSRPQTASNQVRKAVSGPWSGNAVHKAEKYFITSAKRDRDGKLQIELVPASGRRKLSPTPEMIRRLIDGEIEIYIL TTQPDIAIDMNKEIIDMENRYVIDFDKRGVKWTMREIPVFYHEGKGLCVELHNKIYTLDQFFK Q8KEP5 Bacteriochlorophyll a protein Chlorobaculum tepidum TLS ATCC 49652 / DSM 12025 / NBRC 103806 / TLS 0.04034343 3 LEVO MALFGSNDVTTAHSDYEIVLEGGSSSWGKVKARAKVNAPPASPLLPADCDVKLNVKPLDPAKGFVRISAVFESIVDSTKN KLTIEADIANETKERRISVGEGMVSVGDFSHTFSFEGSVVNLFYYRSDAVRRNVPNPIYMQGRQFHDILMKVPLDNNDLI DTWEGTVKAIGSTGAFNDWIRDFWFIGPAFTALNEGGQRISRIEVNGLNTESGPKGPVGVSRWRFSHGGSGMVDSISRWA ELFPSDKLNRPAQVEAGFRSDSQGIEVKVDGEFPGVSVDAGGGLRRILNHPLIPLVHHGMVGKFNNFNVDAQLKVVLPKG YKIRYAAPQYRSQNLEEYRWSGGAYARWVEHVCKGGVGQFEILYAQ Q46393 Bacteriochlorophyll A isomer 0.0009115039999999999 2 GS0 BACTERIOCHLOROPHYLL A 0.0009115039999999999 48 BCL [(2R,3S,4S,5R,6R)-6-[(10E,12E,14E)-2,6,10,14,19,23-hexamethyl-25-(2,3,6-trimethylphenyl)pentacosa-6,8,10,12,14,16,18,20,22,24-decaen-2-yl]oxy-3,4,5-tris(oxidanyl)oxan-2-yl]methyl dodecanoate 0.0008952989999999999 2 F39 2-[(1E,3E,5E,7E,9E,11E,13E,15E,17E,19E)-3,7,12,16,20,24-hexamethylpentacosa-1,3,5,7,9,11,13,15,17,19,23-undecaenyl]-1,3,4-trimethyl-benzene 0.0005328409999999999 3 F26 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE 0.00072297 6 LHG 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE 0.0007871579999999999 7 LMG CALCIUM ION 4.0078e-05 2 CA CHLOROPHYLL A 0.000893489 4 CLA IRON/SULFUR CLUSTER 0.00035163999999999996 3 SF4 singleParticle particle 0.1 8.0 20.0 Tris-Cl Tris-Cl 200.0 NaCl NaCl 0.17 DDM DDM C-flat-2/1 COPPER CARBON HOLEY ARRAY GLOW DISCHARGE 15 ETHANE HOMEMADE PLUNGER FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 70.0 2.7 0.8 2.5 47259.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GATAN K2 SUMMIT (4k x 4k) COUNTING 32898 6.0 45.4 1 1938908 cryoSPARC 3.3.1 PHASE FLIPPING AND AMPLITUDE CORRECTION 1 C1 BACK PROJECTION 3.49 FSC 0.143 CUT-OFF cryoSPARC 3.3.1 142020 MAXIMUM LIKELIHOOD cryoSPARC 3.3.1 MAXIMUM LIKELIHOOD cryoSPARC 3.3.1 cryoSPARC 3.3.1 emd_26469.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 0 0 0 360 360 360 374.4 374.4 374.4 90.0 90.0 90.0 X Y Z -3.7178452 8.113728999999999 -0.000017006132 0.09001013 1.04 1.04 1.04 0.352 AUTHOR ::::EMDATABANK.org::::EMD-26469:::: RC-FMO1 map 6M32 PDB experimental model OTHER REAL 72.890000000000001 emd_26469_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 0 0 0 360 360 360 374.4 374.4 374.4 90.0 90.0 90.0 X Y Z -2.0405133 2.180961 0.00023124252 0.15664722 1.04 1.04 1.04 AUTHOR ::::EMDATABANK.org::::EMD-26469:::: RC-FMO1 half map 1 emd_26469_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 0 0 0 360 360 360 374.4 374.4 374.4 90.0 90.0 90.0 X Y Z -1.9596267 2.2783315 0.00022965785 0.15683217 1.04 1.04 1.04 AUTHOR ::::EMDATABANK.org::::EMD-26469:::: RC-FMO1 half map 2