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FASTA Sequence PDB Format mmCIF Format
FASTA Sequence PDB Format PDB Format(gz) PDBx/mmCIF Format PDBx/mmCIF Format(gz) PDBML/XML Format Validation Full PDF Validation CIF

5XYM

Large subunit of mycobacterium smegmatis

PDB DOI: 10.2210/pdb5xym/pdb

Classification: RIBOSOME
Organism(s): Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9

Deposited: 2017-07-09
Deposition Author(s): Gao, N. , Ge, X. , Li, Z. , Sanyal, S. , Zhang, Y. , Zheng, L.

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.08 Å

5xym
Literature

Large subunit of mycobacterium smegmatis

Gao, N. , Ge, X. , Li, Z. , Sanyal, S. , Zhang, Y. , Zheng, L.

Primary Citation of Related Structures: 5XYM


Proteins
Molecule Chains Sequence Length Organism Sequence
50S ribosomal protein L32 0 57 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MAVPKRRMSRANTRSRRAQWKAEAPGLVTVSVAGQQRKVPRRLLKAARLGLVDLDKR
50S ribosomal protein L4 E 215 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MTLKVDVKTPAGKTDGSVELPAELFDVEPNIALMHQVVTAQLAAKRQGTHSTKTRGEVSGGGKKPYRQKGTGRARQGSTRAPQFTGGGTVHGPKPRDYSQRTPKKMIAAALRGALSDRARNDRIHAVTELVEGQTPSTKSAKTFLGTLTENKKVLVVIGRTDEVGAKSVRNLPGVHVISPDQLNTYDVLNADDVVFSVEALNAYISANSKEGASV
50S ribosomal protein L5 F 187 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MTTTEKALPRLKQRYREEIREALQQEFNYANVMQIPGVVKVVVNMGVGDAARDAKLINGAINDLALITGQKPEVRRARKSIAQFKLREGMPIGARVTLRGDRMWEFLDRLISIALPRIRDFRGLSPKQFDGTGNYTFGLNEQSMFHEIDVDSIDRPRGMDITVVTTATNDAEGRALLRALGFPFKEN
50S ribosomal protein L6 G 179 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MSRIGKQPVPVPSGVDVTINGQNLSVKGPKGTLTLDVAEPISVSRAEDGAIVVTRPDDERRSRSLHGLSRTLIANLVTGVTEGYTQKMEIFGVGYRVQLKGQNLEFALGYSHPVLIEAPEGITFAVESPTKFSVSGIDKQKVGQISAVIRRLRRPDPYKGKGVRYEGEQIRRKVGKTGK
50S ribosomal protein L9 H 151 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MKLILTAEVEHLGAAGDTVEVKDGYGRNYLLPRGLAIVASRGAERQAEEIRRARESKVIRDIEHANELKTALEGLGDVTLSVNAAGDTGKLFGSVTAADVVNAIKKAGGPNLDKRTVQLAKAHIKSVGTHPVTVKLHTGVEAKVSLNVVAQ
50S ribosomal protein L13 J 147 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MPTYTPKAGDTTRSWYVIDASDVVLGRLASAAATLLRGKHKPTFTPNVDGGDFVIVINADKIAVSGDKLTKKFAYRHSGYPGGLRKRTIGELLEKHPTRVVENAIIGMLPHNKLGRQIQKKLKVYAGPDHPHAAQQPIPFEIKQVAQ
50S ribosomal protein L14 K 122 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MIQQESRLKVADNTGAKEILCIRVLGGSSRRYAGIGDVIVATVKDAIPGGNVKRGDVVKAVVVRTVKERRRADGSYIKFDENAAVIIKNDNDPRGTRIFGPVGRELREKKFMKIVSLAPEVL
50S ribosomal protein L15 L 147 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MSVIKLHDLKPAPGEKKAKTRVGRGEGSKGKTAGRGTKGTKARKNVPVMFEGGQMPIHMRLPKLKGFKNRFRTEYQVVNVGDINKAFPQGGTVGVDELVAKGLVRKNSLVKVLGDGKLTVKVDVTANKFSGSAREAITAAGGSATEL
50S ribosomal protein L16 M 138 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MLIPRKVKHRKQHHPEQRGIASGGTSVSFGDYGIQALEHAYITNRQIESARIAINRHIKRGGKVWINIFPDRPLTKKPAETRMGSGKGSPEWWVANVKPGRVLFELSYPDEKTARDALTRAIHKLPIKARIVTREEQF
50S ribosomal protein L17 N 199 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MPKPTKGPRLGGSSSHQSALLANLATSLFEHGRIKTTEPKARALRPYAEKLITHAKKGALHNRREVMKKIRDKDVVHTLFAEIGPFYADRNGGYTRIIKVENRKGDNAPMAVIELVREKTVTDEANRARRAAASQAKADERADEKADEKAEETVEETTEAPAEESTEAAAEETVEETTEAPAEESTEAAEESEAKDDTK
50S ribosomal protein L18 O 127 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MAHKPVGQNISEVRRNARLRRHARLRKKVAGTAEVPRLVVNRSARHIHVQLVNDLNGTTLAAASSIEADVRAIDGDKKAHSVRVGQLIAERAKAAGVETVVFDRGGYTYGGRIAALADAAREAGLKF
50S ribosomal protein L33 2 1 54 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MARNEIRPIVKLRSTAGTGYTYVTRKNRRNDPDRIVLRKYDPVLRRHVEFREER
50S ribosomal protein L19 P 113 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MNTLDFVDQASLRDDIPTFSPGDTVNVHVKVIEGSKERIQVFKGVVIRRQGGGISETFTVRKESYGVGVERTFPVHSPNIDHIDVLTRGDVRRAKLYYLRELRGKKAKIKEKR
50S ribosomal protein L20 Q 129 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MARVKRALNAQKKRRTVLKASKGYRGQRSRLYRKAKEQQLHSLTYAYRDRRARKGEFRKLWISRINAAARANDITYNRLIQGLKAAGVEVDRKNLAELAVSDPAAFTALVDVARAALPEDVNAPSGEAA
50S ribosomal protein L21 R 103 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MATYAIVKTGGKQYKVAAGDVVKVEKLDSEPGASVSLPVALVVDGANVTSKADDLAKVAVTAEVLEHTKGPKIRIHKFKNKTGYHKRQGHRQQLTVLKVTGIK
50S ribosomal protein L22 S 153 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MSTVTEFPSATAKARYVRVSATKARRVIDLVRGKSVEEALDILRWAPQAASEPVAKVIASAAANAQNNEGLDPSTLVVATVYADEGPTAKRIRPRAQGRAFRIRKRTSHITVIVESRPPKQKGASAASARSRRAQGSKAAATKKSAETKEGSE
50S ribosomal protein L23 T 100 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MATITDPRDIILAPVISEKSYGLIEDNVYTFVVHPDSNKTQIKIAIEKIFDVKVDSVNTANRQGKRKRTRTGFGKRKSTKRAIVKLAAGSKPIDLFGAPA
50S ribosomal protein L24 U 105 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MKVHKGDTVLVISGKDKGAKGKVLVAYPDRNKVLVEGVNRIKKHTAVSANERGASSGGIVTQEAPIHVSNVMVVDSDGKPTRVGYRIDDETGKKVRIAKTNGKDI
50S ribosomal protein L25 V 215 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MAKTANIPNKLTANVRTRTGKGASRQARRDGKVPAVLYGHGTDPQHLELNARDFAAVLRSHGTNAILTLDIEGTEQLALTKALDVHPIRRNIQHADLLVVQRGEKVTVEVTVLVEGDATPGTLVTQDANTIEIEAEALSIPEQLTVSVEGVEAGTQITAGQISLPEGVNLISDPELLVVNVVEAPSAEALEEEGAGETGAAEAPAEEAPAEEPAE
50S ribosomal protein L27 W 88 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MAHKKGASSSRNGRDSAAQRLGVKRFGGQVVKAGEILVRQRGTHFHPGVNVGRGGDDTLFALAPGAVEFGAKRGRKTVNIVPVARPEA
50S ribosomal protein L28 X 64 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MAAVCDICGKGPGFGKSVSHSHRRTSRRWNPNIQPVRAVTRPGGNKQRINACTSCIKAGKVSRA
50S ribosomal protein L29 Y 77 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MAVGTTPGELRELTDDELKDKLRESKEELFNLRFQMATGQLSNNRRLRTVRQEIARVYTVLRERELGLASGPAGEES
50S ribosomal protein L34 2 47 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MAKGKRTFQPNNRRRARVHGFRLRMRTRAGRAIVANRRSKGRRALTA
50S ribosomal protein L30 Z 61 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MAELKITQVRSTIGARWKQRESLRTLGLKKIRQSVVREDNAQTRGLINTVHHLVEVEEVGK
50S ribosomal protein L35 3 64 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MPKAKTHSGASKRFRRTGTGKIVRQKANRRHLLEHKPTKRTRRLDGRTTVSAADNSRINKLLNG
50S ribosomal protein L36 4 37 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MKVNPSVKPICDKCRVIRRHGRVMVICSDPRHKQRQG
50S ribosomal protein L2 C 278 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MGIRKYKPTTPGRRGASVSDFAEITRSTPEKSLVRPLHGKGGRNAHGRITTRHKGGGHKRAYRVIDFRRHDKDGVNAKVAHIEYDPNRTANIALLHYLDGEKRYIIAPQGLKQGDVIESGANADIKPGNNLPLRNIPAGTVIHAVELRPGGGAKLARSAGVSIQLLGKEGTYAALRMPSGEIRRVDVRCRATVGEVGNAEQSNINWGKAGRMRWKGKRPTVRGVVMNPVDHPHGGGEGKTSGGRHPVSPWGKPEGRTRKPNKPSDKLIVRRRRTGKKR
50S ribosomal protein L3 D 217 Leptospira Kmetyi Serovar Malaysia Str. Bejo-Iso9 MARKGILGTKLGMTQVFDENNKVVPVTVVKAGPNVVTRIRTTERDGYSAVQLAYGEISPRKVIKPVAGQFAAAGVNPRRHVAELRLDDEAAVAEYEVGQELTAEIFSDGAYVDVTGTSKGKGFAGTMKRHGFRGQGAAHGAQAVHRRPGSIGGCATPGRVFKGTRMSGRMGNDRVTTQNLKVHKVDAENGVLLIKGAIPGRNGGLVVVRSAIKRGEK

Nucleic Acids / Hybrid
Molecule Chains Sequence Length Organism Sequence
23S RNA a 3164 NA UUGUAAGUGUUUAAGGGCGCAUGGUGGAUGCCUUGGCACUGGGAGCCGAUGAAGGACGUAGGAGGCUGCGAUAAGCCUCGGGGAGCUGUCAACCGAGCGUUGAUCCGAGGAUGUCCGAAUGGGGAAACCCGGCACGAGUGAUGUCGUGUCACCAGGCGCUGAAUAUAUAGGCGUCUGGGGGGAACGCGGGGAAGUGAAACAUCUCAGUACCCGUAGGAAGAGAAAACAAAAUGUGAUUCCGUGAGUAGUGGCGAGCGAAAGCGGAGGAUGGCUAAACCGUAUGCAUGUGAUACCGGGUAGGGGUUGUGUGUGCGGGGUUGUGGGACCUAUCUUUCCGGCUCUACCUGGCUGGAGGGCAGUGAGAAAAUGUUGUGGUUAGCGGAAAUGGCUUGGGAUGGCCUGCCGUAGACGGUGAGAGCCCGGUACGUGAAAACCCGACGUCUGUCUUGAUGGUGUUCCCGAGUAGCAGCGGGCCCGUGGAAUCUGCUGUGAAUCUGCCGGGACCACCCGGUAAGCCUGAAUACUUCCCAGUGACCGAUAGCGGAUUAGUACCGUGAGGGAAUGGUGAAAAGUACCCCGGGAGGGGAGUGAAAGAGUACCUGAAACCGUGCGCUUACAAUCCGUCAGAGCCCUCGACGUGUCGUGGGGUGAUGGCGUGCCUUUUGAAGAAUGAGCCUGCGAGUCAGGGACAUGUCGCGAGGUUAACCCGGGUGGGGUAGCCGCAGCGAAAGCGAGUCUGAAUAGGGCGUAUCCACACAAGAGUGUGUGGUGUAGUGGUGUGUUCUGGACCCGAAGCGGAGUGAUCUACCCAUGGCCAGGGUGAAGCGCGGGUAAGACCGCGUGGAGGCCCGAACCCACUUAGGUUGAAGACUGAGGGGAUGAGCUGUGGGUAGGGGUGAAAGGCCAAUCAAACUCCGUGAUAGCUGGUUCUCCCCGAAAUGCAUUUAGGUGCAGCGUCGCAUGUUUCUUGCCGGAGGUAGAGCUACUGGAUGGCCGAUGGGCCCCACAGGGUUACUGACGUCAGCCAAACUCCGAAUGCCGGUAAGUCCAAGAGUGCGGCAGUGGGACGGCGGGGGAUAAGCUCCGUGCGUCGAGAGGGAAACAGCCCAGAUCGCCGGCUAAGGCCCCUAAGCGUGUGCUAAGUGGAAAAGGAUGUGCAGUCGCGAAGACAACCAGGAGGUUGGCUUAGAAGCAGCCACCCUUGAAAGAGUGCGUAAUAGCUCACUGGUCAAGUGAUUGUGCGCCGAUAAUGUAGCGGGGCUCAAGCACACCGCCGAAGCCGCGGCAGCCAACGUGUUGGCUGGGUAGGGGAGCGUCCUGCAUCCGGUGAAGCCGCCGAGUGAUCGAGUGGUGGAGGGUGUGGGAGUGAGAAUGCAGGCAUGAGUAGCGAUUAGGCAAGUGAGAACCUUGCCCGCCGAAAGACCAAGGGUUCCUGGGCCAGGCCAGUCCGCCCAGGGUGAGUCGGGACCUAAGGCGAGGCCGACAGGCGUAGUCGAUGGACAACGGGUUGAUAUUCCCGUACCCGUGUAUGUGCGUCCAUGAUGAAUCAGCGGUACUAACCAUCCAAAACCACCGUGACCGCACCUUUCGGGGUGUGGCGUUGGUGGGGCUGCAUGGGACCUUCGUUGGUAGUAGUCAAGCGAUGGGGUGACGCAGGAAGGUAGCCGUACCGGUCAGUGGUAAUACCGGGGUAAGCCUGUAGGGAGUCAGAUAGGUAAAUCCGUCUGGCAUAUAUCCUGAGAGGUGAUGCAUAGCCGAGUGAGGCGAAUUCGGUGAUCCUAUGCUGCCGAGAAAAGCCUCUAGCGAGGACAUACACGGCCCGUACCCCAAACCAACACAGGUGGUCAGGUAGAGAAUACUAAGGCGUACGAGUGAACUAUGGUUAAGGAACUCGGCAAAAUGCCCCCGUAACUUCGGGAGAAGGGGGACCCACAUGGCGUGUAAGCCUUUACGGCCCAAGCGUGAGUGGGUGGCACAAACCAGUGAGAAGCGACUGUUUACUAAAAACACAGGUCCGUGCGAAGUCGCAAGACGAUGUAUACGGACUGACGCCUGCCCGGUGCUGGAAGGUUAAGAGGACCCGUUAACUCCCUUUGGGGGUGAAGCGGAGAAUUUAAGCCCCAGUAAACGGCGGUGGUAACUAUAACCAUCCUAAGGUAGCGAAAUUCCUUGUCGGGUAAGUUCCGACCUGCACGAAUGGCGUAACGACUUCUCAACUGUCUCAACCAUAGACUCGGCGAAAUUGCACUACGAGUAAAGAUGCUCGUUACGCGCGGCAGGACGAAAAGACCCCGGGACCUUCACUACAACUUGGUAUUGGUGCUCGAUACGGUUUGUGUAGGAUAGGUGGGAGACUGUGAAGCUCACACGCCAGUGUGGGUGGAGUCGUUGUUGAAAUACCACUCUGAUCGUAUUGGGCCUCUAACCUCGGACCGUAUAUCCGGUUCAGGGACAGUGCCUGGUGGGUAGUUUAACUGGGGCGGUUGCCUCCUAAAAUGUAACGGAGGCGCCCAAAGGUUCCCUCAACCUGGACGGCAAUCAGGUGUUGAGUGUAAGUGCACAAGGGAGCUUGACUGCGAGACGGACAUGUCGAGCAGGGACGAAAGUCGGGACUAGUGAUCCGGCACCUCUGAGUGGAAGGGGUGUCGCUCAACGGAUAAAAGGUACCCCGGGGAUAACAGGCUGAUCUUCCCCAAGAGUCCAUAUCGACGGGAUGGUUUGGCACCUCGAUGUCGGCUCGUCGCAUCCUGGGGCUGGAGCAGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGCACGCGAGCUGGGUUUAGAACGUCGUGAGACAGUUCGGUCUCUAUCCGCCGCGCGCGUCAGAAGCUUGAGGAAACCUGUCCCUAGUACGAGAGGACCGGGACGGACGAACCUCUGGUAUACCAGUUGUCCCACCAGGGGCACGGCUGGAUAGCCACGUUCGGACAGGAUAACCGCUGAAAGCAUCUAAGCGGGAAACCUCUUCCAAGACCAGGCUUCUCACCCUCUAGGAGGGAUAAGGCCCCCCGCAGACCACGGGAUUGAUAGACCAGACCUGGAAGCCUAGUAAUAGGUGCAGGGAACUGGCACUAACCGGCCGAAAACUUACAACACCCCAUAAUCGUUGUAAGAAGAAAACAUUGACGCACC
5S RNA b 118 NA GUUACGGCGGUCCAUAGCGGCAGGGAAACGCCCGGUCCCAUCCCGAACCCGGAAGCUAAGCCUGCCAGCGCCGAUGAUACUACCCUUCCGGGUGGAAAAGUAGGACACCGCCGAACAC
Experimental Data

Method: ELECTRON MICROSCOPY

Deposited Date: 2017-07-09
Deposition Author(s): Gao, N. , Ge, X. , Li, Z. , Sanyal, S. , Zhang, Y. , Zheng, L.