50s subunit of p. gingivalis ribosome with lefamulin
PDB DOI: 10.2210/pdb9i5t/pdb
Classification: RIBOSOME Organism(s): Porphyromonas Gingivalis
Deposited: 2025-01-28 Deposition Author(s): Bashan, A. , Hiregange, D.G. , Yonath, A.
50s subunit of p. gingivalis ribosome with lefamulin
Bashan, A. , Hiregange, D.G. , Yonath, A.
Primary Citation of Related Structures: 9I5T
Proteins | ||||
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Molecule | Chains | Sequence Length | Organism | Sequence |
Large ribosomal subunit protein bL28 | 0 | 79 | Porphyromonas Gingivalis | MSKICQITGKKAMVGNNVSHSKRRTKRVFDVNLFRKKFYWVEQDCWVVLRISAAGLRLINKIGLDAAIKRAAEKGFLNA |
Large ribosomal subunit protein uL2 | D | 274 | Porphyromonas Gingivalis | MGIRKLKPTTPGQRHKVIGAFDKITASTPEKSLVVGKKKTGGRNNTGKMTMRYIGGGHKQKYRFIDFKRTKDGIPATVKTIEYDPNRSSRIALLYYADGAKAYIIAPDGLEVGHTVMSGSEAAPEVGNALPLANIPVGTIIHNIELRPGQGAKMVRSAGSFAQLTSREGTYVVIKMPSGEVRRILSTCKATIGSVGNSDHALEKSGKAGRSRWLGRRPHNRGVVMNPVDHPMGGGEGRQSGGHPRSRKGLYAKGLKTRAPKKHSSKYIIERRKK |
Large ribosomal subunit protein uL3 | E | 205 | Porphyromonas Gingivalis | MPGLLGKKIGMTSVFSAEGKNLPCTVIEVGPCVVTQVKTLEKDGYSALQLGFVDAKEKHTTKPLAGHFKKANVAPKRHLAEFKNFEGEHKLGDVLNVEFFSDADFVDVVGTSKGKGFQGVVKRHGFGGVGQATHGQHNRLRAPGAVGACSYPAKVFKGTRMAGQMGNERVTVQNLEVIKVMPEHNLLLVKGSVPGAKGSILLIEK |
Large ribosomal subunit protein uL4 | F | 209 | Porphyromonas Gingivalis | MELSVYNIKGEDTGKKVVLDDSIFAIEPNDHAIYLDVKQYMANQRQGTHKAKERSELSGSTRKLIRQKGSGGARRGDINSPLLSGGARVFGPRPRNYSFKLNKKLKALARRSALSYKAKNNEIIVVEDFNFDAPKTKAFKAISAALKVGEKKVLYVLPEVNKNVYLSARNLPNTNLILANLINTYTVLASKNLVLTERSVAVVNELFKA |
Large ribosomal subunit protein uL13 | M | 151 | Porphyromonas Gingivalis | MDTLSFKTISANKATVTKEWVIVDAEGQTLGRMCAKVAKLLRGKYKPNFTPHVDCGDNVIVINADKIVLSGNKWDGRIYLRHTGYPGGQRQFTPRDFMNKGPEYLFRKVVKGMLPKNRLGAKIIGNLYVYAGTEHKHEAQQPRQLDINSLK |
Large ribosomal subunit protein uL15 | O | 148 | Porphyromonas Gingivalis | MNLSSLKPAEGAVKSRKRIGRGPGSGLGGTSTRGHKGAKSRSGYSKKIGFEGGQMPIQRRLPKFGFKNINRVEYKPINLSVLQTLSEANSLTKISVEDLIAAGLVSRNSLVKILANGTVTTALTVEAHAFSKTAEEAIVRAGGSVVKL |
Large ribosomal subunit protein uL16 | P | 144 | Porphyromonas Gingivalis | MLQPKKTKFRRQQKGRMKGFAQRGNQLSFGSFGIKSLQSKWITGRQIEAARIAVTRYMQRQGQVWVRIFPDKPITKKGEGVRMGKGKGAPEGFVAPITPGRIIFEVEGVPYEIAKEALRLAAQKLPVTTKFVVRHDYDIQNQNA |
Large ribosomal subunit protein bL17 | Q | 160 | Porphyromonas Gingivalis | MRHNKKFNHLGRKAAHRKAMLSNMAASLILHKRIFTTVAKAKALRIYVEPLLTKTKEDTTHSRRIAFSYLQNKYALKELFGDVAAKIADRPGGYTRILKTGYRLGDNAAMCFIELVDYNENMLGEAAKKATKTRRSRKRKSADVVVEAAPAEETPKAAEE |
Large ribosomal subunit protein uL18 | R | 114 | Porphyromonas Gingivalis | MVTKEQRRQKIKARVRGKISGTQEKPRLTVFRSNKQIYAQLIDDIAGRTLASASSLKLEMTGSKKEIAAKVGDEIAKAATEAGISTVVFDRNGYLFHGRIKELADAARKGGLKF |
Large ribosomal subunit protein uL29 | 1 | 64 | Porphyromonas Gingivalis | MKIAEIKELATKELQERLDAEVAAYDQMRINHAVSPLDSPAKLKHQRRMIAQMKTVLRQRELNK |
Large ribosomal subunit protein bL19 | S | 121 | Porphyromonas Gingivalis | MDFIKIVNEEFKSGKEHPKFNSGDTITVEYRIKEGNKERIQKYRGVVIRISGHGDKKRFTVRKISDGIGVERIFPIESPFIENITVEKYGKVRRAKLYYLRGLTGKKARIKERRVALSSKD |
Large ribosomal subunit protein bL20 | T | 115 | Porphyromonas Gingivalis | MPRSVNHVASRAKRKRILKLTRGYFGARKNVWTVAKNTWEKGLTYAYRDRKSKKRNFRALWIQRINAAARLEGMSYSRLMGALHANGIEINRKVLADLAMNHPEAFRAIVAKVKN |
Large ribosomal subunit protein bL21 | U | 105 | Porphyromonas Gingivalis | MYVIVDIQGQQMKVEQGRRLFVHHIKDVESGASVEFDKVLLVDNNGAITVGSPLVEGAKVVCEVLTPLVKGDKVLIFHKKRRKGYRKLNGHRQQFTEILVKEVVA |
Large ribosomal subunit protein uL22 | V | 134 | Porphyromonas Gingivalis | MGARKHNSAEARKEALKQMYFAKLRNVPTSPRKMRLVADMIRGMEVNRALGVLKFSNKEASARVEKLLRSAVANWEEKNERKAEEGELFVSRICVDGASTLKRLRPAPQGRGYRIRKRSNHVTIYVDTLNNDNN |
Large ribosomal subunit protein uL23 | W | 97 | Porphyromonas Gingivalis | MGIIIKPIISEKMTAVTEKMSERYGFRVSPNANKIEIKKAVEAMYNVKVEDVNTMRYDGKRKNRYTKSGLIRGKEASFKKAIVTLKKGETIDFFSNI |
Large ribosomal subunit protein uL24 | X | 106 | Porphyromonas Gingivalis | MSKLHIKKGDTVMVISGEDKGHSGRVLEVLVKEQRAIVEGLNMIKKHAKPSAKNPQGGIISKEAPIHISNLNVVDPKTGKATRIGRRLNENGKLVRYAKKSGEEIK |
Large ribosomal subunit protein bL25 | Y | 192 | Porphyromonas Gingivalis | MKTFQLTGTPRAEFGKKAAKAIRKEDQIPAVLYGGKGEGVNFIVSQDAVRNLIYSPEIFLVELTVEGSGSYKAILKEIQFHPVTDRIIHIDFLQVTDEKPVVMEVPVVLTGHAEGVKAGGKLSLEMRKLKVKALYSEIPEKLDIDVSDLQLGKTIQVGELHFEGLTLMNAKNAVVCAVKLTRAARGAAVKKQ |
Large ribosomal subunit protein bL27 | Z | 85 | Porphyromonas Gingivalis | MAHKKGVGSSKNGRESESKRLGVKVYGGEMAKAGNILVRQRGTVHHPGENVGIGKDHTLYALKSGVVVFTRKKNDRSYVSIKTES |
Large ribosomal subunit protein bL9 | H | 179 | Porphyromonas Gingivalis | MQVILKEDVVNLGYKDDIVTVKDGYGRNFLIPQGKAVIASESAKKVLAENLRQRAHKIAQIKKEAEEKAASMQGISLTIKAKTSSTGTIFGSVTNIQIAEELAKKGVEVDRKIIVLKPAVKEVGNYTAVVRLHKEVTVEIPFEVVSENETIIEAKPEGAPVPVAEEPAAEAEQAEVAAE |
DUF4295 domain-containing protein | 15 | 49 | Porphyromonas Gingivalis | MAKKSVATFKKGDGRTYSKVIKMVKSPKTGAYTFQEEMVPNEAVKDFFK |
Large ribosomal subunit protein uL5 | 11 | 186 | Porphyromonas Gingivalis | MSATANLKKDYQERIVPALMKQFGYTSVMQVPVLKKIVINQGLGMATGDKKIIDVAVSELTAITGQKAVPTVSKKDISNFKLRKKMPIGVMVTLRREQMYEFLERLVRIALPRIRDFKGIESKLDGRGNYTLGINEQIIFPEINIDAITKILGMNITFVTSAQSDEEGYALLKEFGLPFKNAKKQN |
Large ribosomal subunit protein uL6 | 13 | 183 | Porphyromonas Gingivalis | MSRIGKLPISIPAGVTVSHKDEIVTVKGPKGELSQYVDPRITVVIEGGMIHLERKTDDRIERSLHGLYRSLINNMVQGVSAGFKRELELVGVGYRASNQGQLLELSLGFTHSIFMQLPKEVTVETKSERNKNPLIILESADKQLLGQVCMKIRSFRKPEPYKGKGVKFVGEQIRRKSGKSAGK |
Large ribosomal subunit protein uL14 | N | 121 | Porphyromonas Gingivalis | MIQQESRLVVADNSGAKEALCIRVLGGTRRRYASVGDIIVVSVKSVIPSSDIKKGAVSKAVIVRTKKEVRRPDGSYIRFDDNACVLLNAAGDIRGSRIFGPVARELRGTNMKIVSLAPEVL |
Large ribosomal subunit protein bL33 | 5 | 62 | Porphyromonas Gingivalis | MAKKVKGNRVQVILECTEHKESGMPGISRYITTKNRKNTTQRLELKKYNPILRRMTLHKEIK |
Large ribosomal subunit protein bL31B | 12 | 85 | Porphyromonas Gingivalis | MKKGIHPENYRPVVFKDMSNEDIFITRSTMEAKETIEIDGVTYPLIKVEISNTSHPFFTGKAKLVDTAGRVDKFMSRYGDRNKKK |
Large ribosomal subunit protein uL30 | 2 | 58 | Porphyromonas Gingivalis | MAKIKIQQVRSRIRCPKDQKRTLDALGLRKLNQIVEHEATPSILGMVNKVRHLVLIVE |
Large ribosomal subunit protein bL32 | 4 | 61 | Porphyromonas Gingivalis | MAHPKRRQSKTRTAKRRTHDKAVMPTLAKCPNCGAWHIYHTVCGDCGYYRGKLAIEKEVAV |
Large ribosomal subunit protein bL34 | 6 | 50 | Porphyromonas Gingivalis | MKRTYQPSNRKRLNKHGFRSRMATANGRRVLAARRAKGRAKLTVSDEFVG |
Large ribosomal subunit protein bL35 | 7 | 65 | Porphyromonas Gingivalis | MPKLKTNSGAKKRFALTGTGKIKRKHAFKSHILTKKTKKQKRNLTYFSTVHKVDENAVKQLLCLR |
Large ribosomal subunit protein bL36 | 8 | 38 | Porphyromonas Gingivalis | MKVRASVKKRTPECKIVRRKGRLYVINKKNPKYKQRQG |
Nucleic Acids / Hybrid | ||||
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Molecule | Chains | Sequence Length | Organism | Sequence |
23S rRNA | a | 2882 | NA | UAAGGGCAGACGGUGGAUGCCUAGGCUCUCGGAGGCGAAGAAGGACGUGAUAAGCUGCGAAAAGCUGCGGGAAUCGGCACAUACGAAUUGAUCCGCAGAUAUCCGAAUGGGGCAACCCGUCAGGCCAAGGCCUGACACAUGAAUUGAUUUCAUGAGCGAACGCGGGGAACUGAAACAUCUCAUUACCCGUAGGAGAAGAAAACAAAAGUGAUUCCCUCAGUAGUGGCGAGCGAACGGGGAUUAGCCCAAACCGGCUUUGUUUCGGCAAAGUCGGGGUAAUAGGACUUCGACAAAAGUUUAAUGAUAGAUAUAGGAGAACCUACUGGAAAGUAUGGCCGAAGAGCAUGAAAGCUGCGUAUCCGACAUAUCGAACAAUAGACGACGGAGCACCUGAGUAGCGCGGGACACGAGACAUCCUGUGUGAAUUGGCGGGGCCCAUCCCGUAAGGCUAAAUACUCCCGAGAGACCGAUAGUGAACCAGUACCGUGAGGGAAAGGUGAAAAGAACCUCGAACAGAGGAGUGCAAUAGACCCUGAACCCGUCUGCCUACAAGCGGUAGGAGCGCCAUUAAGGUGUGACUGCGUGCCUUUUGCAUAAUGAACCUACGAGUUACUGUUUGUGGCAAGGUUAAUUGUUAUAAUCAAGACAAGGAGCCGAAGCGAAAGCGAGUCUUAAAAGGGCGCCCAUUUAGUCACGAGCAGUAGACGCGAAACCAAGUGAUCUACCCUUGGUCAGGUUGAAGGUUAGGUAACACUAACUGGAGGACCGAAUCGGUAAGCGUUGAAAAGCUUUCGAAUGAACUGAGGGUAGGGGUGAAAGGCUAAUCAAACUUGGAGAUAGCUCGUACUCCCCGAAAUGCAUUUAGGUGCAGCCUGUUGGAUGUUAUCAUGAGGUAGAGCGACUGAUUGGAUGCGAGGGUUUCACCGCCUAUCAAGUCCAGAUAAACUCCGAAUGCAUGAUAAUUGACCGAUGGAGUGAGGGCAUGGGUGCUAAGGUCCAUGUCCGAGAGGAGAAGAAUCCGGACCACCGGCUAAGGUCCCGAAAUAAUUGCUAAGUUGUAAAAACGAAGUCAAGAAGCAGAGACAGCUAGGAUGUUGGCUUGGAAGCAGCCAUUCAUUUAAAGAGUGCGUAACAGCUCACUAGUCGAGGAUUUUGGCAUGGAUAAUACACGGGCAUAAGCAAUUUACCGAAGCCGUGGGAUAUAGUUAAUAUAUCGGUAGGGGAGCAUUCCAGCGACGUAGAAGGGAAAAGGGCGACUUUUUCUGGAGUUUCUGGAAAAGCAAAUGUAGGUAUAAGUAACGAUAAAGGGGGCGAGAACCCCCCUCGCCGAAAGACCAAGGUUUCCUGAUCAACGCUAAUCGGAUCAGGGUUAGUCGGGGCCUAAGGAUAAGCCGAAUGGCGAUUCCGAUGGAAGAACCGGUUAAUAUUCCGGUACUGAUACUAGAGGCGAUGUGGUGACGGAGAAGUGACAGUCCGGCCGUCUGACGGAUUAGGCGGUUAAAGGGUGUAGAUGUUAUUCGGGGUAGGCAAAUCCGCCCUCAGAGUGCAACCUGACAGUACCGGAGUACAAGUACGAAGGGAUAAAGGACGUAACCCGGCUCCCAAGAAAACCCGCUAAGAUAUUUCUUGUGUUACCCGUACCGUAAACCGACACAGGUGGUUGGGUUGAGUAUACUAAGGCGCUCGAGAGAUUCGCGGUUAAGGAACUAGGCAAAAUGGUCCUGUAACUUCGGGAGAAAGGACGCCUGUCCCGGGACAGGCCGCAGAAACCAGGCCCAGGCGACUGUUUAACAAAAACACAAGGCUAUGCAAAAAAGCAAUUUGAGGUAUAUAGUCUGACACCUGCCCGGUGCUGGAAGGUUAAGAGGAGGAGUCAUGUCAAGGAGAAGCUCUGAAUUGAAGCCCCAGUAAACGGCGCCGUAACUAUAACGGUCCCUAAGGUAGCGAAAUUCCUUGUCGGGUAAGUUCCGACCUGCACGAAUGGUGUAACGAUCUGGGCACUGUCUCAACCGCGAUCUCGGUGAAAUUGUAGUAUCGGUGAAGAUGCCGAUUACCCGCAACGGGACGAAAAGACCCCGUGAACCUUUACUAUAGCUUUACAUUGUAUUGGGCAUCAGAUGUGUAGGAUAGGCCGGAGGCAGAGAAGCGGGUACGCCAGUAUUCGUGGAGUCGAUGUUGAAAUACGGCCCUUUUGAUGUUUGGGAUACUAACUCGCGGGUGGCGAGGACAGUGUAUGGUGGGUAGUUUGACUGGGGUGGUCGCCUCCAAAAGCGUAACGGAGGCUUCUAAAGGUACCCUCAGGCCGAUUGUAAACCGGUCGCAGAGUGUAAUGGCACAAGGGUGCUUGACUGGGAGACAAACAAGUCGCACAGGUAGGAAACUAGAGCAUAGUGAUCCGGUGGUCCCGCAUGGAAGGGCCAUCGCUCAAAGGAUAAAAGGUACUCCGGGGAUAACAGGCUGAUCACUCCCAAGAGUCCAUAUCGACGGAGUGGUUUGGCACCUXGAUGUCGGCUCGUCACAUCCUGGGGCUGGAGAAGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGUGGCACGCGAGCUGGGUUCAGAACGUCGUGAGACAGUUCGGUCUCUAUCUGUUGUGGGCGCAGGAAAUUUGCGAGGGUCUGACACUAGUACGAGAGGACCGUGUUGGACAGACCCCUGGUUUACCGGUUGUACCGCCAGGUGCACCGCCGGGUAUCCACGUCUGGUAAGGAUAAGUGCUGAAAGCAUCUAAGCACGAAGCCGGCCUCAAGAUAAGAUUUCCAUAAAUAGGGUGGUUAAAGACUAUGACCUUGAUAGGCUGCAGGUGUAUGAUUGGUAACAAUUAAGCCGAGCAGUACUAAUAGCCCGAACUUU |
5S rRNA | b | 109 | NA | UCAGGUGGUUAUAACGUUGGGGAUCCACCUCUUCCCAUUCCGAACAGAGAAGUUAAGCCCAACGGUGCCGAUGGUACUGCGUCACAGUGGGAGAGUAGGACGCCGCCGA |
Method: ELECTRON MICROSCOPY
Deposited Date: 2025-01-28 Deposition Author(s): Bashan, A. , Hiregange, D.G. , Yonath, A.