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6SPD
Pseudomonas aeruginosa 50s ribosome from a clinical isolate
PDB DOI: 10.2210/pdb6spd/pdb
Classification: RIBOSOME Organism(s): Vibrio Nigripulchritudo
Deposited: 2019-09-01 Deposition Author(s): Bashan, A. , Belousoff, M. , Espinos, R. , Eyal, Z. , Halfon, Y. , Jimenez-Fernande, A. , Krogh Johansen, H. , La Ros, R. , Matzov, D. , Molin, S. , Yonath, A. , Zimmerman, E.
Experimental Data Snapshot
Method: ELECTRON MICROSCOPY Resolution: 3.28 Å
Pseudomonas aeruginosa 50s ribosome from a clinical isolate
Bashan, A. , Belousoff, M. , Espinos, R. , Eyal, Z. , Halfon, Y. , Jimenez-Fernande, A. , Krogh Johansen, H. , La Ros, R. , Matzov, D. , Molin, S. , Yonath, A. , Zimmerman, E.
Primary Citation of Related Structures: 6SPD
| Nucleic Acids / Hybrid | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 23S ribosomal RNA | a | 2888 | NA | GUCAAGUGAAGAAGCGCAUACGGUGGAUGCCUUGGCAGUCAGAGGCGAUGAAAGACGUGGUAGCCUGCGAAAAGCUUCGGGGAGUCGGCAAACAGACUUUGAUCCGGAGAUCUCUGAAUGGGGGAACCCACCUAGGAUAACCUAGGUAUCUUGUACUGAAUCCAUAGGUGCAAGAGGCGAACCAGGGGAACUGAAACAUCUAAGUACCCUGAGGAAAAGAAAUCAACCGAGAUUCCCUUAGUAGUGGCGAGCGAACGGGGAUUAGCCCUUAAGCUUCAUUGAUUUUAGCGGAACGCUCUGGAAAGUGCGGCCAUAGUGGGUGAUAGCCCCGUACGCGAAAGGAUCUUUGAAGUGAAAUCAAGUAGGACGGAGCACGAGAAACUUUGUCUGAACAUGGGGGGACCAUCCUCCAAGGCUAAAUACUACUGACUGACCGAUAGUGAACCAGUACCGUGAGGGAAAGGCGAAAAGAACCCCGGAGAGGGGAGUGAAAUAGAACCUGAAACCGUAUGCGUACAAGCAGUGGGAGCCUACUUGUUAGGUGACUGCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUAUUCAGUGGCAAGCUUAACCGUAUAGGGUAGGCGUAGCGAAAGCGAGUCUUAAUAGGGCGUUUAGUCGCUGGGUAUAGACCCGAAACCGGGCGAUCUAUCCAUGAGCAGGUUGAAGGUUAGGUAACACUGACUGGAGGACCGAACCCACUCCCGUUGAAAAGGUAGGGGAUGACUUGUGGAUCGGAGUGAAAGGCUAAUCAAGCUCGGAGAUAGCUGGUUCUCCUCGAAAGCUAUUUAGGUAGCGCCUCAUGUAUCACUCUGGGGGGUAGAGCACUGUUUCGGCUAGGGGGUCAUCCCGACUUACCAAACCGAUGCAAACUCCGAAUACCCAGAAGUGCCGAGCAUGGGAGACACACGGCGGGUGCUAACGUCCGUCGUGAAAAGGGAAACAACCCAGACCGCCAGCUAAGGUCCCAAAGUUGUGGUUAAGUGGUAAACGAUGUGGGAAGGCUUAGACAGCUAGGAGGUUGGCUUAGAAGCAGCCACCCUUUAAAGAAAGCGUAAUAGCUCACUAGUCGAGUCGGCCUGCGCGGAAGAUGUAACGGGGCUCAAACCACACACCGAAGCUGCGGGUGUCACGUAAGUGACGCGGUAGAGGAGCGUUCUGUAAGCCUGUGAAGGUGAGUUGAGAAGCUUGCUGGAGGUAUCAGAAGUGCGAAUGCUGACAUGAGUAACGACAAUGGGUGUGAAAAACACCCACGCCGAAAGACCAAGGGUUCCUGCGCAACGUUAAUCGACGCAGGGUUAGUCGGUUCCUAAGGCGAGGCUGAAAAGCGUAGUCGAUGGGAAACAGGUUAAUAUUCCUGUACUUCUGGUUACUGCGAUGGAGGGACGGAGAAGGCUAGGCCAGCUUGGCGUUGGUUGUCCAAGUUUAAGGUGGUAGGCUGAAAUCUUAGGUAAAUCCGGGGUUUCAAGGCCGAGAGCUGAUGACGAGUCGUCUUUUAGAUGACGAAGUGGUUGAUGCCAUGCUUCCAAGAAAAGCUUCUAAGCUUCAGGUAACCAGGAACCGUACCCCAAACCGACACAGGUGGUCGGGUAGAGAAUACCAAGGCGCUUGAGAGAACUCGGGUGAAGGAACUAGGCAAAAUGGCACCGUAACUUCGGGAGAAGGUGCGCCGGCUAGGGUGAAGGAUUUACUCCGUAAGCUCUGGCUGGUCGAAGAUACCAGGCCGCUGCGACUGUUUAUUAAAAACACAGCACUCUGCAAACACGAAAGUGGACGUAUAGGGUGUGACGCCUGCCCGGUGCCGGAAGGUUAAUUGAUGGGGUUAGCGCAAGCGAAGCUCUUGAUCGAAGCCCCGGUAAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAAAUUCCUUGUCGGGUAAGUUCCGACCUGCACGAAUGGCGUAACGAUGGCGGCGCUGUCUCCACCCGAGACUCAGUGAAAUUGAAAUCGCUGUGAAGAUGCAGUGUAUCCGCGGCUAGACGGAAAGACCCCGUGAACCUUUACUGUAGCUUUGCACUGGACUUUGAGCCUGCUUGUGUAGGAUAGGUGGGAGGCUUUGAAGCGUGGACGCCAGUUCGCGUGGAGCCAUCCUUGAAAUACCACCCUGGCAUGCUUGAGGUUCUAACUCUGGUCCGUAAUCCGGAUCGAGGACAGUGUAUGGUGGGCAGUUUGACUGGGGCGGUCUCCUCCUAAAGAGUAACGGAGGAGUACGAAGGUGCGCUCAGACCGGUCGGAAAUCGGUCGCAGAGUAUAAAGGCAAAAGCGCGCUUGACUGCGAGACAGACACGUCGAGCAGGUACGAAAGUAGGUCUUAGUGAUCCGGUGGUUCUGUAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUUCAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGCCGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUCGUGAGACAGUUCGGUCCCUAUCUGCCGUGGACGUUUGAGAUUUGAGAGGGGCUGCUCCUAGUACGAGAGGACCGGAGUGGACGAACCUCUGGUGUUCCGGUUGUCACGCCAGUGGCAUUGCCGGGUAGCUAUGUUCGGAAAAGAUAACCGCUGAAAGCAUCUAAGCGGGAAACUUGCCUCAAGAUGAGAUCUCACUGGGAACUUGAUUCCCCUGAAGGGCCGUCGAAGACUACGACGUUGAUAGGCUGGGUGUGUAAGCGUUGUGAGGCGUUGAGCUAACCAGUACUAAUUGCCCGUGAGGCUUGACC |
| 5S ribosomal RNA | b | 116 | NA | UUGACGAUCAUAGAGCGUUGGAACCACCUGAUCCCUUCCCGAACUCAGAAGUGAAACGACGCAUCGCCGAUGGUAGUGUGGGGUCUCCCCAUGUGAGAGUAGGUCAUCGUCAAGCU |
| Proteins | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 50S ribosomal protein L13 | J | 141 | Vibrio Nigripulchritudo | KTYTAKPETVQRDWFVVDAAGQTLGRLATEIARRLRGKHKPEYTPHVDTGDYIVVINAEQVRVTGAKTTDKMYYHHSGFPGGIKSINFEKLIAKAPERVIETAVKGMLPKNPLGRDMYRKLKVYKGASHPHTAQQPQELKI |
| 50S ribosomal protein L14 | K | 120 | Vibrio Nigripulchritudo | MIQTQSMLDVADNSGARRVMCIKVLGGSHRRYAGIGDIIKVTVKEAIPRGKVKKGQVMTAVVVRTKHGVRRTDGSIIRFDGNAAVLLNNKQEPIGTRIFGPVTRELRTEKFMKIVSLAPE |
| 50S ribosomal protein L15 | L | 143 | Vibrio Nigripulchritudo | QLNDLRSAPGARREKHRPGRGIGSGLGKTGGRGHKGLTSRSGGKVAPGFEGGQQPLHRRLPKFGFVSLKAMDRAEVRTSELAKVEGDVVSLQTLKDANLINQHVQRVKVMLSGEVGRAVTLKGIAATKGARAAIEAAGGKFED |
| 50S ribosomal protein L16 | M | 135 | Vibrio Nigripulchritudo | MLQPKRTKFRKQMTGHNRGLAHRGSKVSFGEYALKATSRGRLTARQIESARRALTRHVKRGGKIWIRVFPDKPVTKKPLEVRMGKGKGGVEYWVAQIQPGKVLYEIEGVSEELAREAFALAAAKLPLATSFVKRT |
| 50S ribosomal protein L17 | N | 118 | Vibrio Nigripulchritudo | MRHRKSGRHLSRTSAHRKAMFQNMAVSLFEHELIKTTLPKAKELRRVAEPLITLAKEDSVANRRLAFDRTRSKAAVGKLFNDLGKRYANRPGGYLRILKCGFRAGDNAPMAYVELVDR |
| 50S ribosomal protein L18 | O | 115 | Vibrio Nigripulchritudo | SVKKETRLRRARKARLKMRELETVRLCVYRSSQHIYAQVIAADGGKVLASASTLDKDLREGATGNIDAAKKVGQLVAERAKAAGVTQVAFDRSGFKYHGRVKALADAAREGGLEF |
| 50S ribosomal protein L19 | P | 113 | Vibrio Nigripulchritudo | KIIQQIEAEQMNKEIPAFAPGDTVIVQVKVKEGDRQRLQAFEGVVIAKRNRGLNSAFTVRKISNGVGVERTFQTYSPIVDSLSVKRRGDVRKAKLYYLRALSGKAARIKEKLV |
| 50S ribosomal protein L20 | Q | 117 | Vibrio Nigripulchritudo | ARVKRGVIARRRHKKILKLAKGYYGARSRVFRVAKQAVIKAGQYAYRDRRQRKRQFRALWIARINAGARQNGLSYSRLIAGLKKAAIEIDRKVLADLAVNEKAAFTAIVEKAKASLA |
| 50S ribosomal protein L21 | R | 103 | Vibrio Nigripulchritudo | MYAVIVTGGKQHKVTEGEFLKVEKLDVATGEAIDFDRVLLVANGEDVKIGLPVVEGAKVTAEVVSHGRHDKVRIIKFRRRKHHMKRQGHRQWFTEIKITGIQA |
| 50S ribosomal protein L22 | S | 109 | Vibrio Nigripulchritudo | EVAAKLSGARISAQKARLVADQIRGKKVGEALNLLAFSSKKAAEIMKKVLESAVANAEHNEGADVDDLKVSTVFVNEGRSLKRIMPRAKGRADRIVKRSCHITVKVADK |
| 50S ribosomal protein L23 | T | 92 | Vibrio Nigripulchritudo | NQERVFKVLLGPHISEKATGLADGKSQFVFKVATDATKLEIKKAVESLFSVKVQRVTTLNVKGKTKRTARGLGKRNDWKKAYIALQPGQDLD |
| 50S ribosomal protein L24 | U | 103 | Vibrio Nigripulchritudo | MQKIRRDDEVIVIAGKDKGKRGKVLKVLADDRLVVGGVNLIKRHTKPNPMLGQQGGIVEKEAPLHVSNVAIFNTETSKADRVGFKVEDGKKIRVFKSTQKPVQ |
| 50S ribosomal protein L25 | V | 188 | Vibrio Nigripulchritudo | FIVNAQVRSDLGKGASRRLRRNAGLVPAVVYGGDKEPQSVTLELREIAKLLENEAAFSHVIALNVGGVKETVLIKALQRHPAKGFVMHADFLRVVADHKLTAHVPLHFINEEVAVGVKQAGGEISHTISEVEVSCLPKDLPEFIEVDMAKVELGQIVHLSDLKAPKGVELVQLAHGNDLAVANIHASR |
| 50S ribosomal protein L27 | W | 76 | Vibrio Nigripulchritudo | TRNGRDSESKRLGVKLFGGQAVKAGNILVRLRGTKFHAGYGVGLGKDHTLFAKVDGVVKFETKGAFGRKYVSIVAA |
| 50S ribosomal protein L28 | X | 77 | Vibrio Nigripulchritudo | SRVCQVTGKGPVTGNNISHAHNKTRRRFLPNLQHHRFWVESEKRFVRLRVSAKGMRIIDKRGIEAVLADLRARGEKF |
| Ribosomal protein uL29 | Y | 60 | Vibrio Nigripulchritudo | KANELREEKSGPVTGNNISHLLRDQFNLRMQKATGQLGQSHLLSQVKRDIARVKTVLNQQ |
| 50S ribosomal protein L30 | Z | 57 | Vibrio Nigripulchritudo | ATVKVTLVKSLNGRLANHKACVKGLGLRRINHTVEVQDTPENRGMINKAYYLLRVEG |
| 50S ribosomal protein L31 | 1 | 31 | Vibrio Nigripulchritudo | KADIHPTYEAIEATCSCGNVIKTRSTLCKPI |
| 50S ribosomal protein L32 | 2 | 53 | Vibrio Nigripulchritudo | AVQQNKKSRSARDMRRSHDALESNALSVEKSTGEVHLRHHVSPDGFYRGRKVV |
| 50S ribosomal protein L33 | 3 | 50 | Vibrio Nigripulchritudo | RELIRLVSSAGTGHFYTTDKNKRTKPEKIEIKKYDPVVRQHVIYKEAKIK |
| 50S ribosomal protein L2 | C | 271 | Vibrio Nigripulchritudo | IVKCKPTSAGRRFVVKVVNQELHKGAPYAPLLEKKSKSGGRNNNGRITTRHIGGGHKQHYRLVDFRRNKDGIPAIVERVEYDPNRTAHIALLKYADGERRYIIAPKGVAAGDQLISGIGAPIKAGNSMPLRNIPVGSTVHGIELKPGKGAQIARSAGASAQLVAREGAYVTLRLRSGEMRKVLAECRATLGEVSNSEHSLRSLGKAGATRWRGVRPTVRGVAMNPVDHPHGGGEGRTSAGRHPVSPWGLQTKGKKTRSNKRTDNMIVRRRK |
| 50S ribosomal protein L34 | 4 | 44 | Vibrio Nigripulchritudo | MKRTFQPSTLKRARVHGFRARMATKNGRQVLSRRRAKGRKRLTV |
| 50S ribosomal protein L35 | 5 | 63 | Vibrio Nigripulchritudo | PKMKTKSGAAKRFKKTAGGLKHKHAFKSHILTKMTTKRKRQLRGTSMLNKSDVARVERSLRLR |
| 50S ribosomal protein L36 | 6 | 38 | Vibrio Nigripulchritudo | MKVRASVKKLCRNCKIIRRDGIVRVICSAEPRHKQRQG |
| 50S ribosomal protein L3 | D | 207 | Vibrio Nigripulchritudo | IGVVGRKCGMTRIFTEEGVSIPVTVIEVEPNRVTQFKTEETDGYRAVQVTAGERRASRVTKAQAGHFAKANVAAGRGVWEFRLGEEQYAAGDQITVDLFQAGQMVDVTGESKGKGFAGTIKRWNFRGQDNTHGNSVSHRVPGSIGQCQTPGRVFKGKKMSGHLGAERVTVQSLEIVRVDAERNLLLVKGAVPGATGGDVIVRPAAKA |
| 50S ribosomal protein L4 | E | 199 | Vibrio Nigripulchritudo | QLNVNGAQAIEVSERTFGGEFNETLVHQAVVAYMAGGRQGSKAQKTRSEVSGGGKKPWRQKGTGRARAGTIRSPIWRGGGTTFAAKPRSHEQKLNKKMYRAALRSILAELVRLDRLVVVADFAVDAPKTKGLVAKLDTLGLKDVLIVTDGVDENLYLAARNLAHVDVRDVQGSDPVSLIAYDKVLVTVSAVKKFEELLG |
| 50S ribosomal protein L5 | F | 175 | Vibrio Nigripulchritudo | RLKELYRKEIAPKLKEELQLANVMEVPRVTKITLNMGLGEAVGDKKIIENAVADLEKITGQKPVVTYARKSIAGFKIREGWPIGVKVTLRSDRMYEFLDRLLSISLPRVRDFRGLNAKSFDGRGNYSMGVKEQIIFPEIDYDKIDALRGLDITLTTTARTDDEGRALLRAFKFPF |
| 50S ribosomal protein L6 | G | 173 | Vibrio Nigripulchritudo | SRVAKNPVKLPAGVEIKLAGQQLSIKGAKGALELKVHPSVEVIQDSGELRFAARNGDQQTRAMAGTTRALVNNMVVGVSQGFERKLQLVGVGYKAQAKGQVLSLSLGFSHPVDYELPAGIVAETPSQTDILIKGIDKQLVGQVAAEIRDFRPPEPYKGKGVRYADEVVRRKEA |
| 50S ribosomal protein L9 | H | 147 | Vibrio Nigripulchritudo | EVILLEKVANLGNLGDKVNIKGGYARNFLLPQGKATVATAENVAAFEARRAELEKAAAEKKAAAEARAAQLSELVVTLGAHAGDEGKLFGSIGTRDIAEAVSAAGYPLEKAEVRLPNGALRNTGEFDVAVHLHTDVETTLKLIIVAE |
| 50S ribosomal protein L11 | I | 140 | Vibrio Nigripulchritudo | KKIQAYIKLQVKAGQANPSPPVGPALGQHGVNIMEFCKAFNAKTQGQEPGLPTPVIITVYSDRSFTFETKSTPAAVLLKKAAGITSGSARPNSQKVGTVTRAQLEEIAKTKQADLTAADLDAAVRTIAGSARSMGLNVEG |
Experimental Data
Method: ELECTRON MICROSCOPY
Deposited Date: 2019-09-01 Deposition Author(s): Bashan, A. , Belousoff, M. , Espinos, R. , Eyal, Z. , Halfon, Y. , Jimenez-Fernande, A. , Krogh Johansen, H. , La Ros, R. , Matzov, D. , Molin, S. , Yonath, A. , Zimmerman, E.