2024-03-27 REL PDBj PDBj PDBj 2020-01-24 2021-03-17 2021-03-17 2024-03-27 Japan Science and Technology JPMJCR13M4 Japan Ministry of Education, Culture, Sports, Science and Technology (Japan) 16H06560 Japan Cyanobacterial PSI Monomer from T. elongatus by Single Particle CRYO-EM at 3.2 A Resolution Kurisu G Coruh O monomer, complex, photosystem, photosynthesis, MEMBRANE PROTEIN Coruh O Frank A Tanaka H Kawamoto A El-Mohsnawy E Kato T Namba K Gerle C Nowaczyk MM Kurisu G Cryo-EM structure of a functional monomeric Photosystem I from Thermosynechococcus elongatus reveals red chlorophyll cluster. Commun Biol UK 4 304 304 2021 33686186 doi:10.1038/s42003-021-01808-9 2399-3642 6lu1 FULLOVERLAP Cyanobacterial PSI Monomer from T. elongatus Cyanobacterial PSI Monomer from T. elongatus 0 1 2 3 4 5 6 7 8 9 10
The monomers in this sample are generated by the monomerization of trimers of PSI during the purification process.
Thermosynechococcus elongatus BP-1 350 Photosystem I P700 chlorophyll a apoprotein A1 Thermosynechococcus elongatus BP-1 BP-1 0.083267773 1 LEVO MTISPPEREPKVRVVVDNDPVPTSFEKWAKPGHFDRTLARGPQTTTWIWNLHALAHDFDTHTSDLEDISRKIFSAHFGHL AVVFIWLSGMYFHGAKFSNYEAWLADPTGIKPSAQVVWPIVGQGILNGDVGGGFHGIQITSGLFQLWRASGITNEFQLYC TAIGGLVMAGLMLFAGWFHYHKRAPKLEWFQNVESMLNHHLAGLLGLGSLAWAGHQIHVSLPINKLLDAGVAAKDIPLPH EFILNPSLMAELYPKVDWGFFSGVIPFFTFNWAAYSDFLTFNGGLNPVTGGLWLSDTAHHHLAIAVLFIIAGHMYRTNWG IGHSLKEILEAHKGPFTGAGHKGLYEVLTTSWHAQLAINLAMMGSLSIIVAQHMYAMPPYPYLATDYPTQLSLFTHHMWI GGFLVVGGAAHGAIFMVRDYDPAMNQNNVLDRVLRHRDAIISHLNWVCIFLGFHSFGLYVHNDTMRAFGRPQDMFSDTGI QLQPVFAQWVQNLHTLAPGGTAPNAAATASVAFGGDVVAVGGKVAMMPIVLGTADFMVHHIHAFTIHVTVLILLKGVLFA RSSRLIPDKANLGFRFPCDGPGRGGTCQVSGWDHVFLGLFWMYNCISVVIFHFSWKMQSDVWGTVAPDGTVSHITGGNFA QSAITINGWLRDFLWAQASQVIGSYGSALSAYGLLFLGAHFIWAFSLMFLFSGRGYWQELIESIVWAHNKLKVAPAIQPR ALSIIQGRAVGVAHYLLGGIATTWAFFLARIISVG P0A405 1.97.1.12 Photosystem I P700 chlorophyll a apoprotein A2 Thermosynechococcus elongatus (strain BP-1) BP-1 0.083123648 1 LEVO MATKFPKFSQDLAQDPTTRRIWYAIAMAHDFESHDGMTEENLYQKIFASHFGHLAIIFLWVSGSLFHVAWQGNFEQWVQD PVNTRPIAHAIWDPQFGKAAVDAFTQAGASNPVDIAYSGVYHWWYTIGMRTNGDLYQGAIFLLILASLALFAGWLHLQPK FRPSLSWFKNAESRLNHHLAGLFGVSSLAWAGHLIHVAIPESRGQHVGWDNFLSTMPHPAGLAPFFTGNWGVYAQNPDTA SHVFGTAQGAGTAILTFLGGFHPQTESLWLTDMAHHHLAIAVLFIVAGHMYRTQFGIGHSIKEMMDAKDFFGTKVEGPFN MPHQGIYETYNNSLHFQLGWHLACLGVITSLVAQHMYSLPPYAFIAQDHTTMAALYTHHQYIAGFLMVGAFAHGAIFLVR DYDPAQNKGNVLDRVLQHKEAIISHLSWVSLFLGFHTLGLYVHNDVVVAFGTPEKQILIEPVFAQFIQAAHGKLLYGFDT LLSNPDSIASTAWPNYGNVWLPGWLDAINSGTNSLFLTIGPGDFLVHHAIALGLHTTTLILVKGALDARGSKLMPDKKDF GYAFPCDGPGRGGTCDISAWDAFYLAMFWMLNTIGWVTFYWHWKHLGVWEGNVAQFNESSTYLMGWLRDYLWLNSSQLIN GYNPFGTNNLSVWAWMFLFGHLVWATGFMFLISWRGYWQELIETLVWAHERTPLANLVRWKDKPVALSIVQARLVGLAHF SVGYILTYAAFLIASTAAKFG P0A407 1.97.1.12 Photosystem I iron-sulfur center Thermosynechococcus elongatus (strain BP-1) BP-1 0.008809207 1 LEVO MAHTVKIYDTCIGCTQCVRACPTDVLEMVPWDGCKAGQIASSPRTEDCVGCKRCETACPTDFLSIRVYLGAETTRSMGLA Y P0A415 1.97.1.12 Photosystem I reaction center subunit II Thermosynechococcus elongatus (strain BP-1) BP-1 0.015389494 1 LEVO MTTLTGQPPLYGGSTGGLLSAADTEEKYAITWTSPKEQVFEMPTAGAAVMREGENLVYFARKEQCLALAAQQLRPRKIND YKIYRIFPDGETVLIHPKDGVFPEKVNKGREAVNSVPRSIGQNPNPSQLKFTGKKPYDP P0A420 Photosystem I reaction center subunit IV Thermosynechococcus elongatus (strain BP-1) BP-1 0.008399485 1 LEVO MVQRGSKVKILRPESYWYNEVGTVASVDQTPGVKYPVIVRFDKVNYTGYSGSASGVNTNNFALHEVQEVAPPKKGK P0A423 Photosystem I reaction center subunit III Thermosynechococcus elongatus BP-1 BP-1 0.017716586 1 LEVO MRRFLALLLVLTLWLGFTPLASADVAGLVPCKDSPAFQKRAAAAVNTTADPASGQKRFERYSQALCGEDGLPHLVVDGRL SRAGDFLIPSVLFLYIAGWIGWVGRAYLIAVRNSGEANEKEIIIDVPLAIKCMLTGFAWPLAALKELASGELTAKDNEIT VSPR P0A401 Photosystem I reaction center subunit VIII Thermosynechococcus elongatus BP-1 BP-1 0.0042972340000000005 1 LEVO MMGSYAASFLPWIFIPVVCWLMPTVVMGLLFLYIEGEA P0A427 Photosystem I reaction center subunit IX Thermosynechococcus elongatus BP-1 BP-1 0.004770698 1 LEVO MKHFLTYLSTAPVLAAIWMTITAGILIEFNRFYPDLLFHPL P0A429 Photosystem I reaction center subunit XI Thermosynechococcus elongatus (strain BP-1) BP-1 0.016261684999999998 1 LEVO MAEELVKPYNGDPFVGHLSTPISDSGLVKTFIGNLPAYRQGLSPILRGLEVGMAHGYFLIGPWVKLGPLRDSDVANLGGL ISGIALILVATACLAAYGLVSFQKGGSSSDPLKTSEGWSQFTAGFFVGAMGSAFVAFFLLENFSVVDGIMTGLFN Q8DGB4 Photosystem I reaction center subunit XII Thermosynechococcus elongatus (strain BP-1) BP-1 0.0034261149999999995 1 LEVO MALTDTQVYVALVIALLPAVLAFRLSTELYK P0A403 CHLOROPHYLL A 0.000893489 82 CLA PHYLLOQUINONE 0.000450696 2 PQN BETA-CAROTENE 0.000536873 26 BCR 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE 0.00072297 2 LHG IRON/SULFUR CLUSTER 0.00035163999999999996 3 SF4 1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE 0.0007871579999999999 1 LMG water 1.8015e-05 5 HOH singleParticle particle 5 7.5 20.0 HEPES 2-[4-(2-hydroxyethyl)piperazin-1-yl]ethanesulfonic acid 10.0 MgCl2 Magnesium Chloride 0.0005 C56H92O25 Glyco-diosgenin (GDN) Quantifoil R1.2/1.3 COPPER 300 CARBON HOLEY 20.0 GLOW DISCHARGE ETHANE 95 277.15 FEI VITROBOT MARK IV
Sample was monodisperse.
 JEOL CRYO ARM 200 FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 200 1.4 0.5 3.5 60000.0 56497.0 JEOL NITROGEN 100.4 100.4 GATAN K2 SUMMIT (4k x 4k) COUNTING 3710 3838 1-60 1 12.0 1.34 1 182018
Initial model by stochastic gradient descent.
 1 C1 BACK PROJECTION 3.2 FSC 0.143 CUT-OFF RELION 3.0 46105 MAXIMUM LIKELIHOOD RELION 3.0 MAXIMUM LIKELIHOOD RELION 3.0 1 46105.0 RELION 3.0
Only one class selected out of four classes.
 emd_0977.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 227.84 227.84 227.84 90.0 90.0 90.0 X Y Z -0.106297866 0.18965338 -0.0000073780034 0.007665535 0.89 0.89 0.89 0.0416 AUTHOR 1JB0 PDB experimental model OTHER REAL 45.0 emd_0977_msk_1.map emd_0977_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 227.84 227.84 227.84 90.0 90.0 90.0 X Y Z 0.0 1.0 0.113568254 0.30802354 0.89 0.89 0.89 AUTHOR This is the masked map generated in the postprocessing. It is not used in the modelling. emd_0977_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 227.84 227.84 227.84 90.0 90.0 90.0 X Y Z -0.106297866 0.18965338 -0.0000073780034 0.007665535 0.89 0.89 0.89 AUTHOR emd_0977_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 227.84 227.84 227.84 90.0 90.0 90.0 X Y Z -0.106297866 0.18965338 -0.0000073780034 0.007665535 0.89 0.89 0.89 AUTHOR