2025-09-17 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY DATABASE_REFERENCES citation citation_author em_admin _citation.country _citation.journal_abbrev _citation.journal_id_CSD _citation.journal_id_ISSN _citation.journal_volume _citation.page_first _citation.page_last _citation.pdbx_database_id_DOI _citation.pdbx_database_id_PubMed _citation.title _citation.year _citation_author.identifier_ORCID _citation_author.name _em_admin.last_update PDBe PDBe 2024-12-30 2025-03-05 2025-03-05 2025-09-17 Biotechnology and Biological Sciences Research Council (BBSRC) BB/S003339/1 United Kingdom In-cell Structure of Pyrenoid Rubisco Nadav E Zhen H Maud D Alireza R Juan R P Peijun P chloroplast, pyrenoid, cryo-ET, cryo-FIB, subtomogram averaging, PHOTOSYNTHESIS Elad N Hou Z Dumoux M Ramezani A Perilla JR Zhang P In-cell structure and variability of pyrenoid Rubisco. Nat Commun UK 16 7763 7763 2025 40835820 doi:10.1038/s41467-025-62998-y 2041-1723 9hvm FULLOVERLAP EMDB EMD-52438 associated EM volume
In-cell Structure of Pyrenoid Rubisco
 Pyrenoid Rubisco Pyrenoid Rubisco 0 1 2 Chlamydomonas reinhardtii CC-1690 Ribulose bisphosphate carboxylase large chain Chlamydomonas reinhardtii 0.05192403899999999 8 LEVO TKAGAGFKAGVKDYRLTYYTPDYVVRDTDILAAFRMTPQLGVPPEECGAAVAAESSTGTWTTVWTDGLTSLDRYKGRCYD IEPVPGEDNQYIAYVAYPIDLFEEGSVTNMFTSIVGNVFGFKALRALRLEDLRIPPAYVKTFVGPPHGIQVERDKLNKYG RGLLGCTIKPKLGLSAKNYGRAVYECLRGGLDFTKDDENVNSQPFMRWRDRFLFVAEAIYKAQAETGEVKGHYLNATAGT CEEMMKRAVCAKELGVPIIMHDYLTGGFTANTSLAIYCRDNGLLLHIHRAMHAVIDRQRNHGIHFRVLAKALRMSGGDHL HSGTVVGKLEGEREVTLGFVDLMRDDYVEKDRSRGIYFTQDWCSMPGVMPVASGGIHVWHMPALVEIFGDDACLQFGGGT LGHPWGNAPGAAANRVALEACTQARNEGRDLAREGGDVIRSACKWSPELAAACEVWKEIKFEFDTIDKL P00877 4.1.1.39 Ribulose bisphosphate carboxylase small subunit, chloroplastic 1 Chlamydomonas reinhardtii 0.015386769 8 Chlamydomonas reinhardtii LEVO MMVWTPVNNKMFETFSYLPPLTDEQIAAQVDYIVANGWIPCLEFAEADKAYVSNESAIRFGSVSCLYYDNRYWTMWKLPM FGCRDPMQVLREIVACTKAFPDAYVRLVAFDNQKQVQIMGFLVQRPKTARDF P00873 subtomogramAveraging cell 7.0 Quantifoil R2/1 COPPER 200 CARBON HOLEY ARRAY GLOW DISCHARGE ETHANE LEICA EM GP TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 2.5 4.5 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN FEI FALCON IV (4k x 4k) 2.18 1 D4 BACK PROJECTION 8.1 FSC 0.143 CUT-OFF RELION 4.0 17713 26 515948 CTFFIND 4.1.14 PHASE FLIPPING AND AMPLITUDE CORRECTION RELION 4.0 MAXIMUM LIKELIHOOD emd_52438.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 504.32 504.32 504.32 90.0 90.0 90.0 X Y Z -14.231144 29.887 -0.000000000034731 0.9264237 1.97 1.97 1.97 4.0 AUTHOR STA Pyrenoid Rubisco in a closed conformation 1GK8 PDB experimental model 1EJ7 PDB experimental model FLEXIBLE FIT REAL emd_52438_msk_1.map emd_52438_additional_4.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 100 100 100 0 0 0 100 100 100 394.0 394.0 394.0 90.0 90.0 90.0 X Y Z -18.575098000000001 29.69594 0.26036683 1.7980142 3.94 3.94 3.94 AUTHOR STA Pyrenoid Rubisco class 7 emd_52438_additional_3.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 100 100 100 0 0 0 100 100 100 394.0 394.0 394.0 90.0 90.0 90.0 X Y Z -21.748425000000001 29.651378999999999 0.19300617 1.6815355 3.94 3.94 3.94 AUTHOR STA Pyrenoid Rubisco class 10 emd_52438_additional_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 100 100 100 0 0 0 100 100 100 394.0 394.0 394.0 90.0 90.0 90.0 X Y Z -16.976564 29.383158000000002 0.34845933 1.6262907 3.94 3.94 3.94 AUTHOR STA Pyrenoid Rubisco class 13 emd_52438_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 100 100 100 0 0 0 100 100 100 394.0 394.0 394.0 90.0 90.0 90.0 X Y Z -14.525990500000001 27.630006999999999 0.15315682 1.7992023 3.94 3.94 3.94 AUTHOR STA Pyrenoid Rubisco class 12, asymmetric emd_52438_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 504.32 504.32 504.32 90.0 90.0 90.0 X Y Z -17.021965000000002 30.967016000000001 -0.000000000013764 1.1738594 1.97 1.97 1.97 AUTHOR STA Pyrenoid Rubisco in a closed conformation, half1 map emd_52438_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 504.32 504.32 504.32 90.0 90.0 90.0 X Y Z -15.835322 31.411149999999999 -0.000000000003328 1.1766208 1.97 1.97 1.97 AUTHOR STA Pyrenoid Rubisco in a closed conformation, half2 map