Cryo-EM structure of the RC-LH core comples from Halorhodospira halochloris

2026-08-12 REL PDBj INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY STRUCTURE_SUMMARY em_admin entity _em_admin.last_update _entity.formula_weight DATA_COLLECTION em_admin _em_admin.last_update REMEDIATION REPOSITORY Metalloprotein remediation STRUCTURE_SUMMARY chem_comp chem_comp_atom chem_comp_bond em_admin entity pdbx_modification_feature pdbx_nonpoly_atom_coordination pdbx_nonpoly_atom_coordination_sphere pdbx_nonpoly_atom_coordination_sphere_order pdbx_struct_conn_angle pdbx_unobs_or_zero_occ_atoms pdbx_validate_chiral pdbx_validate_close_contact struct_conn _chem_comp.formula _chem_comp.formula_weight _em_admin.last_update _entity.formula_weight PDBj PDBj 2023-07-22 2024-05-22 2024-05-22 2026-08-12 Ministry of Science and Technology (MoST, China) 2022YFC3401800 China Cryo-EM structure of the RC-LH core comples from Halorhodospira halochloris Wang G-L Qi C-H Yu L-J RC-LH complex, HALORHODOSPIRA HALOCHLORIS, PHOTOSYNTHESIS Qi CH Wang GL Wang FF Wang J Wang XP Zou MJ Ma F Madigan MT Kimura Y Wang-Otomo ZY Yu LJ Structural insights into the unusual core photocomplex from a triply extremophilic purple bacterium, Halorhodospira halochloris. J Integr Plant Biol CN 66 2262 2272 2024 38411333 doi:10.1111/jipb.13628 1744-7909 8k5o FULLOVERLAP EMDB EMD-36907 associated EM volume

RC-LH core complex RC-LH core complex 0 1 3 4 5 6 7 8 9 10 11 Halorhodospira halochloris Photosynthetic reaction center cytochrome c subunit Halorhodospira halochloris 0.041612858999999995 1 LEVO MDGRYLTRSLAVGALAAGFLVVAGCERPPFEQEQTGPRGTGMYVLDNPRILESRLDLHTAPEARPMASEDGERAGDVHEN VQVLADLSDEQFWRIKEEMTDWVAGDEGCTYCHTDDLASDEKYQYRVSRDMIEMTRYLNANWADTHLTHSNEAGVTCYTC HRGEPIPPASWHSEEESGETRFMTGMGDLQLQNKISSKTAYTAFPRDALDTFLVGHEGELSIVGEGEGGLRTATTEGVSL REAYEAVGLMMHLSYSLDAGCTLCHNVSRWASWEDSPKERETAWHGIRMARDINVNWINPLIDEYPEDADVLGPTGDVGK VSCQTCHNKERRPLYGEEFLELYPELVGEPDPDFDYLQFGDLGTDLLKGVND A0A0X8X829 Reaction center protein L chain Halorhodospira halochloris 0.031115025 1 LEVO MAMLDFERKYRVRGGTLLGGDLFDFWVGPFYVGFFGVTAIFCAVFGFLMIGLKAAISETWSIFQLVLAPPNLENGFALAP LDEGGLWQIVTACAIGAFVSWALREVEISRKLGIGYHIPFAFGVAISFFVLAQLGRPLLLGGWGHAFPYGIIAHLDWVNN VGYQNLHYHYHWAHMLGCSLFFATSFALALHGGLILSVTNPKKGEVVKTAEHENTFFRDFVGYSIGSLGIHRLGLALALS TSISCIFGILTTGPFWSRGWPEWWYTWWPQIPIWNWGVS A0A0X8XAH6 Reaction center protein M chain Halorhodospira halochloris 0.036221676 1 LEVO MAEYQNVFTRVQVRGPAEQGLEVPGGSWNRVGRPRFSYLLGKIGDAQVGPIYLGATGVVASLGFLIFCLMVGFNWLAAVD WSVREVFRQFWWLAVEVPPPEYGLRIPPFNDGGWFLWGLAICSLSLLMWWARTYIRARALGLGTHVAWAFAAALWFYFII TIIRPVAIGSWDESLPIGMFAHLDWLVAISERYGNFYYNPFHMLSIAFCFGSALLFAAHGATILATGRYNSEREIEQITD RGTGSERAALFWRWTMGFNATMESIHRWGYWMAILVPLVASIGLFLSGTVIESWYEWGLKHNLVPIYEELSDPARNPAAQ A0A0X8X847 Photosynthetic reaction center H subunit Halorhodospira halochloris 0.031293768 1 LEVO MEAFYPMGIARFDWGIWAVIFFFVFLAGLIVYCRREDKREGYPLISDPNDKYGAPRLVSGTIPRVPKPKTFLLRDGRTIQ VPRQEKVEWDRNYKLEAQPTAPWPGSPLEPIGNPMKAAIGPGAYAKREDKPELTWHNKQKIVPMRIATEYYVVEDDPDLR GAPVVGLCGGQGGRVRDIWVDRSECRIMYYEVEISPHTSGKDSVLLPQCFARETRRMDGVWEIRVNSITAEQFRDVPRLS NPDQITPQEEDMVCAYYGAGTLYAVPGRTEPFLP A0A0X8X838 Antenna complex alpha/beta subunit domain-containing protein Halorhodospira halochloris 0.012053332 1 LEVO MANDIRPLRDFTDEEAQEFHQAAVQSFFLYVAVAFVAHLLVWAWRPFWPPEQGYRLEDFAPEEIRTDSFYSDFLPTTSWN SVTEGVNSLAAQLSTVVHYIAPFAG A0A110B4Z6 Light-harvesting LHI Halorhodospira halochloris 0.007562917999999999 1 LEVO MWRIWKVFDPRRILIATALWLIIISLTIHVILMTTERFNWLQGAPAAEYYSEVVEDGAALSPRLV A0A120MZP7 Antenna complex alpha/beta subunit domain-containing protein Halorhodospira halochloris 0.007696814999999999 16 LEVO MWKLWKFVDFRMTAVGFHLFFALLAFAVHFACISSERFNWLEGAPAAEYYMDEDPGIWKRTSYDG A0A0X8XBE4 Beta subunit of light-harvesting 1 Halorhodospira halochloris 0.009555675 16 LEVO MTDIRTGLTDEECQEIHEMNMLGMHAYWSIGLIANALAYAWRPFHQGRAGNRLEDHAPDYVRSALTSVQEQASSVTAAVQ QTPMVG A0A0X8X9B2 Gamma subunit of light-harvesting 1 Halorhodospira halochloris 0.003123757 16 LEVO MGDAGIVVAVLVILAILGWPNISSTLRRW reaction center small polypeptide Halorhodospira halochloris 0.003531281 1 LEVO MTGEAVWLIWFMAALALIGGALPIVVKWWRE reactin center small polypeptide Halorhodospira halochloris 0.0037624899999999994 1 LEVO MEGHMDVVDISWLVTLAVLALLAGAYPVFKRWR HEME C 0.0006205189999999999 4 HEC (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE 0.0007490069999999999 50 PGV 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE 0.00072297 1 LHG Trans-Geranyl Bacteriochlorophyll B 0.000907472 54 A1LZM Trans-Geranyl Bacteriopheophytin B 0.000885183 2 A1LZP Ubiquinone-8 0.000727109 1 UQ8 UNKNOWN LIGAND 0.000909488 57 UNL FE (III) ION 5.5845e-05 1 FE MENAQUINONE 8 0.000717116 2 MQ8 CARDIOLIPIN 0.0014640429999999997 3 CDL LYCOPENE 0.000536873 1 LYC Trans-Geranyl 8-vinyl-bacteriochlorophyll B 0.000907472 16 A1LZQ DI-PALMITOYL-3-SN-PHOSPHATIDYLETHANOLAMINE 0.0006919589999999999 1 PEF 2-O-octyl-beta-D-glucopyranose 0.000292369 2 BGL singleParticle particle 7.5 ETHANE FEI TALOS ARCTICA FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 0.7000000000000001 2.3000000000000003 GATAN K2 BASE (4k x 4k) 60.8 1 PHASE FLIPPING ONLY 2.42 FSC 0.143 CUT-OFF 353518 MAXIMUM LIKELIHOOD MAXIMUM LIKELIHOOD emd_36907.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 0 0 0 360 360 360 367.19998 367.19998 367.19998 90.0 90.0 90.0 X Y Z -1.6558168 2.8824334 0.00016962357 0.07369802 1.02 1.02 1.02 0.4 AUTHOR ::::EMDATABANK.org::::EMD-36907:::: emd_36907_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 0 0 0 360 360 360 367.19998 367.19998 367.19998 90.0 90.0 90.0 X Y Z -0.4187421 1.0469608 0.0009628921 0.0417458 1.02 1.02 1.02 AUTHOR ::::EMDATABANK.org::::EMD-36907:::: emd_36907_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 360 360 360 0 0 0 360 360 360 367.19998 367.19998 367.19998 90.0 90.0 90.0 X Y Z -0.40110114 1.0085349 0.00095428416 0.041728087 1.02 1.02 1.02 AUTHOR ::::EMDATABANK.org::::EMD-36907::::