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4WFN

Crystal structure of the large ribosomal subunit (50s) of deinococcus radiodurans containing a three residue insertion in l22 in complex with erythromycin

PDB DOI: 10.2210/pdb4wfn/pdb

Classification: RIBOSOME
Organism(s): Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1

Deposited: 2014-09-16
Deposition Author(s): Bashan, A. , Rozenberg, H. , Wekselman, I. , Yonath, A. , Zimmerman, E.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.54 Å

4wfn
Literature

Crystal structure of the large ribosomal subunit (50s) of deinococcus radiodurans containing a three residue insertion in l22 in complex with erythromycin

Bashan, A. , Rozenberg, H. , Wekselman, I. , Yonath, A. , Zimmerman, E.

Primary Citation of Related Structures: 4WFN


Proteins
Molecule Chains Sequence Length Organism Sequence
50S ribosomal protein L2 A 275 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MAVKKYRPYTPSRRQMTTADFSGLTKKRPEKALTEALPKTGGRNNRGRITSRFIGGGHKRLYRIIDFKRRDKSGVNAKVAAIEYDPNRSARIALLHYADGEKRYILAPEGLTVGATVNAGPEAEPKLGNALPLRFVPVGAVVHALELVPGKGAQLARSAGTSVQVQGKESDYVIVRLPSGELRRVHSECYATIGAVGNAEHKNIVLGKAGRSRWLGRKPHQRGSAMNPVDHPHGGGEGRTGAGRVPVTPWGKPTKGLKTRRKRKTSDRFIVTRRK
50S ribosomal protein L17 K 116 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MRHGKAGRKLNRNSSARVALARAQATALLREGRIQTTLTKAKELRPFVEQLITTAKGGDLHSRRLVAQDIHDKDVVRKVMDEVAPKYAERPGGYTRILRVGTRRGDGVTMALIELV
50S ribosomal protein L18 L 114 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MATATTIRRKLRTRRKVRTTTAASGRLRLSVYRSSKHIYAQIIDDSRGQTLAAASSAALKSGNKTDTAAAVGKALAAAAAEKGIKQVVFDRGSYKYHGRVKALADAAREGGLDF
50S ribosomal protein L19 M 165 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 QTHIKINRGELLRGIEQDHTRQLPDFRPGDTVRVDTKVREGNRTRSQAFEGVVIAINGSGSRKSFTVRKISFGEGVERVFPFASPLVNQVTIVERGKVRRAKLYYLRELRGKAARIKSDRSRVMKDAARAQQDKANASASQAAAAQADVTVISAAPEVAPETQGE
50S ribosomal protein L20 N 118 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MPRAKTGIVRRRRHKKVLKRAKGFWGSRSKQYRNAFQTLLNAATYEYRDRRNKKRDFRRLWIQRINAGARLHGMNYSTFINGLKRANIDLNRKVLADIAAREPEAFKALVDASRNARQ
50S ribosomal protein L21 O 100 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MFAIIQTGGKQYRVSEGDVIRVESLQGEAGDKVELKALFVGGEQTVFGEDAGKYTVQAEVVEHGRGKKIYIRKYKSGVQYRRRTGHRQNFTAIKILGIQG
50S ribosomal protein L22,50S ribosomal protein L22 P 137 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MTAPEQTFRNKKQRKQQVKLRKPGFAVAKYVRMSPRKVRLVVDVIRGKSVQDAEDLLRFIPRSASEPVAKVLNSAKANALHNDEMLEDRLFVKEAYVDAGPTLKRLIPRVPRARGSANIIKKRTSHITIIVAEKGNK
50S ribosomal protein L23 Q 95 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MSHYDILQAPVISEKAYSAMERGVYSFWVSPKATKTEIKDAIQQAFGVRVIGISTMNVPGKRKRVGRFIGQRNDRKKAIVRLAEGQSIEALAGQA
50S ribosomal protein L24 R 115 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MPRPSAGSHHNDKLHFKKGDTVIVLSGKHKGQTGKVLLALPRDQKVVVEGVNVITKNVKPSMTNPQGGQEQRELALHASKVALVDPETGKATRVRKQIVDGKKVRVAVASGKTID
50S ribosomal protein L25 S 237 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MELTAKPRTPKQKLDESMIAAVAYNKENNVSFALDRKAFDRAFRQQSTTGLFDITVEGGETFPALVKAVQMDKRKRAPIHVDFYMVTYGEPVEVSVPVHTTGRSQGEVQGGLVDIVVHNLQIVAPGPRRIPQELVVDVTKMNIGDHITAGDIKLPEGCTLAADPELTVVSVLPPRLTAEELEAEVQAAQVAGLVAAGELSEEAAEAVLEGDASLEEVKAEASEDNAGTDSEDNSDAQ
50S ribosomal protein L27 T 91 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MAHKKGVGSSKNGRDSNPKYLGVKKFGGEVVKAGNILVRQRGTKFKAGQGVGMGRDHTLFALSDGKVVFINKGKGARFISIEAAQTEVAAD
50S ribosomal protein L3 B 211 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MKGILGTKIGMTQIWKNDRAIPVTVVLAGPCPIVQRKTAQTDGYEAVQIGYAPKAERKVNKPMQGHFAKAGVAPTRILREFRGFAPDGDSVNVDIFAEGEKIDATGTSKGKGTQGVMKRWNFAGGPASHGSKKWHRRPGSIGQRKTPGRVYKGKRMAGHMGMERVTVQNLEVVEIRAGENLILVKGAIPGANGGLVVLRSAAKASAAKGGK
50S ribosomal protein L28 U 81 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MSRECYLTGKKNLVVNSVIRRGKARADGGVGRKTTGITKRVQRANLHKKAIRENGQVKTVWLSANALRTLSKGPYKGIELI
50S ribosomal protein L29 V 67 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MKPSEMRNLQATDFAKEIDARKKELMELRFQAAAGQLAQPHRVRQLRREVAQLNTVKAELARKGEQQ
50S ribosomal protein L30 W 55 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MKIKLVRSVIGRPGNQVKTVQALGLRKIGDSREVSDTPAVRGMVKTVKHLLEVQE
50S ribosomal protein L32 Z 60 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MAKHPVPKKKTSKSKRDMRRSHHALTAPNLTECPQCHGKKLSHHICPNCGYYDGRQVLAV
50S ribosomal protein L33 1 55 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MAKDGPRIIVKMESSAGTGFYYTTTKNRRNTQAKLELKKYDPVAKKHVVFREKKV
50S ribosomal protein L34 2 47 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MKRTYQPNNRKRAKTHGFRARMKTKSGRNILARRRAKGRHQLTVSDE
50S ribosomal protein L35 3 65 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MPKMKTHKMAKRRIKITGTGKVMAFKSGKRHQNTGKSGDEIRGKGKGFVLAKAEWARMKLMLPRG
50S ribosomal protein L4 C 205 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MAQINVIGQNGGRTIELPLPEVNSGVLHEVVTWQLASRRRGTASTRTRAQVSKTGRKMYGQKGTGNARHGDRSVPTFVGGGVAFGPKPRSYDYTLPRQVRQLGLAMAIASRQEGGKLVAVDGFDIADAKTKNFISWAKQNGLDGTEKVLLVTDDENTRRAARNVSWVSVLPVAGVNVYDILRHDRLVIDAAALEIVEEEAGEEQQ
50S ribosomal protein L5 D 180 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MQQLKTKYNDQVRPALMQQFGYSSVMAVPRIEKIVVNEGLGSSKEDSKAIDKAAKELALITLQKPIITKAKKSISNFKLRQGMPVGIKVTLRGERMYVFLEKLINIGLPRIRDFRGINPNAFDGRGNYNLGIKEQLIFPEITYDMVDKTRGMDITIVTTAKTDEEARALLQSMGLPFRKQ
50S ribosomal protein L6 E 185 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MSRIGKQPIAVPSGVTVNAQDGVFKVKGPKGELTVPYNTELTVRQDGDQLLVERPSDAQKHRALHGLTRTLVANAVKGVSDGYTINLELRGVGFRAKLTGKALEMNIGYSHPVIIEPPAGVTFAVPEPTRIDVSGIDKQLVGQVAANVRKVRKPDAYHGKGVRFVGEQIALKAGKAGATGGKGKK
50S ribosomal protein L13 G 174 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MAFPDTDVSPPRGGPSSPAKSPLLRSFKVKTYIPKNDEQNWVVVDASGVPLGRLATLIASRIRGKHRPDFTPNMIQGDFVVVINAAQVALTGKKLDDKVYTRYTGYQGGLKTETAREALSKHPERVIEHAVFGMLPKGRQGRAMHTRLKVYAGETHPHSAQKPQVLKTQPLEVK
50S ribosomal protein L14 H 134 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MIMPQSRLDVADNSGAREIMCIRVLNSGIGGKGLTTGGGGNKRYAHVGDIIVASVKDAAPRGAVKAGDVVKAVVVRTSHAIKRADGSTIRFDRNAAVIINNQGEPRGTRVFGPVARELRDRRFMKIVSLAPEVL
50S ribosomal protein L15 I 156 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MKLHDLKPTPGSRKDRKRVGRGPGGTDKTAGRGHKGQKSRSGAGKGAFFEGGRSRLIARLPKRGFNNVGTTYEVVKLSQLQDLEDTTFDRDTLEAYRLVRRKNRPVKLLASGEISRAVTVHVDAASAAAIKAVEAAGGRVVLPEVQTQQDDAQKAE
50S ribosomal protein L16 J 141 Deinococcus Radiodurans , Deinococcus Radiodurans (Strain Atcc 13939 / Dsm 20539 / Jcm 16871 / Lmg 4051 / Nbrc 15346 / Ncimb 9279 / R1 / Vkm B-1422) , Deinococcus Radiodurans R1 MLLPKRTKFRKQFRGRMTGDAKGGDYVAFGDYGLIAMEPAWIKSNQIEACRIVMSRHFRRGGKIYIRIFPDKPVTKKPAETRMGKGKGAVEYWVSVVKPGRVMFEVAGVTEEQAKEAFRLAGHKLPIQTKMVKREVYDEAQ

Nucleic Acids / Hybrid
Molecule Chains Sequence Length Organism Sequence
23S ribosomal RNA x 2880 NA GGUCAAGAUAGUAAGGGUCCACGGUGGAUGCCCUGGCGCUGGAGCCGAUGAAGGACGCGAUUACCUGCGAAAAGCCCCGACGAGCUGGAGAUACGCUUUGACUCGGGGAUGUCCGAAUGGGGAAACCCACCUCGUAAGAGGUAUCCGCAAGGAUGGGAACUCAGGGAACUGAAACAUCUCAGUACCUGAAGGAGAAGAAAGAGAAUUCGAUUCCGUUAGUAGCGGCGAGCGAACCCGGAUCAGCCCAAACCGAAACGCUUGCGUUUCGGGGUUGUAGGACCAGUUUUUAAGAUUCAACCCCUCAAGCCGAAGUGGCUGGAAAGCUACACCUCAGAAGGUGAGAGUCCUGUAGGCGAACGAGCGGUUGACUGUACUGGCACCUGAGUAGGUCGUUGUUCGUGAAACGAUGACUGAAUCCGCGCGGACCACCGCGCAAGGCUAAAUACUCCCAGUGACCGAUAGCGCAUAGUACCGUGAGGGAAAGGUGAAAAGAACCCCGGGAGGGGAGUGAAAGAGAACCUGAAACCGUGGACUUACAAGCAGUCAUGGCACCUUAUGCGUGUUAUGGCGUGCCUAUUGAAGCAUGAGCCGGCGACUUAGACCUGACGUGCGAGCUUAAGUUGAAAAACGGAGGCGGAGCGAAAGCGAGUCCGAAUAGGGCGGCAUUAGUACGUCGGGCUAGACUCGAAACCAGGUGAGCUAAGCAUGACCAGGUUGAAACCCCCGUGACAGGGGGCGGAGGACCGAACCGGUGCCUGCUGAAACAGUCUCGGAUGAGUUGUGUUUAGGAGUGAAAAGCUAACCGAACCUGGAGAUAGCUAGUUCUCCCCGAAAUGUAUUGAGGUACAGCCUCGGAUGUUGACCAUGUCCUGUAGAGCACUCACAAGGCUAGGGGGCCUACCAGCUUACCAAACCUUAUGAAACUCCGAAGGGGCACGCGUUUAGUCCGGGAGUGAGGCUGCGAGAGCUAACUUCCGUAGCCGAGAGGGAAACAACCCAGACCAUCAGCUAAGGUCCCUAAAUGAUCGCUCAGUGGUUAAGGAUGUGUCGUCGCAUAGACAGCCAGGAGGUUGGCUUAGAAGCAGCCACCCUUCAAAGAGUGCGUAAUAGCUCACUGGUCGAGUGACGAUGCGCCGAAAAUGAUCGGGGCUCAAGUGAUCUACCGAAGCUAUGGAUUCAACUCGCGAAGCGAGUUGUCUGGUAGGGGAGCGUUCAGUCCGCGGAGAAGCCAUACCGGAAGGAGUGGUGGAGCCGACUGAAGUGCGGAUGCCGGCAUGAGUAACGAUAAAAGAAGUGAGAAUCUUCUUCGCCGUAAGGACAAGGGUUCCUGGGGAAGGGUCGUCCGCCCAGGGAAAGUCGGGACCUAAGGUGAGGCCGAACGGCGCAGCCGAUGGACAGCAGGUCAAGAUUCCUGCACCGAUCAUGUGGAGUGAUGGAGGGACGCAUUACGCUAUCCAAUGCCAAGCUAUGGCUAUGCUGGUUGGUACGCUCAAGGGCGAUCGGGUCAGAAAAUCUACCGGUCACAUGCCUCAGACGUAUCGGGAGCUUCCUCGGAAGCGAAGUUGGAAACGCGACGGUGCCAAGAAAAGCUUCUAAACGUUGAAACAUGAUUGCCCGUACCGCAAACCGACACAGGUGUCCGAGUGUCAAUGCACUAAGGCGCGCGAGAGAACCCUCGUUAAGGAACUUUGCAAUCUCACCCCGUAACUUCGGAAGAAGGGGUCCCCACGCUUCGCGUGGGGCGCAGUGAAUAGGCCCAGGCGACUGUUUACCAAAAUCACAGCACUCUGCCAACACGAACAGUGGACGUAUAGGGUGUGACGCCUGCCCGGUGCCGGAAGGUCAAGUGGAGCGGUGCAAGCUGCGAAAUGAAGCCCCGGUGAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAAAUUCCUUGUCGGGUAAGUUCCGACCUGCACGAAAGGCGUAACGAUCUGGGCGCUGUCUCAACGAGGGACUCGGUGAAAUUGAAUUGGCUGUAAAGAUGCGGCCUACCCGUAGCAGGACGAAAAGACCCCGUGGAGCUUUACUAUAGUCUGGCAUUGGGAUUCGGGUUUCUCUGCGUAGGAUAGGUGGGAGCCUGCGAAACUGGCCUUUUGGGGUCGGUGGAGGCAACGGUGAAAUACCACCCUGAGAAACUUGGAUUUCUAACCUGAAAAAUCACUUUCGGGGACCGUGCUUGGCGGGUAGUUUGACUGGGGCGGUCGCCUCCCAAAAUGUAACGGAGGCGCCCAAAGGUCACCUCAAGACGGUUGGAAAUCGUCUGUAGAGCGCAAAGGUAGAAGGUGGCUUGACUGCGAGACUGACACGUCGAGCAGGGAGGAAACUCGGGCUUAGUGAACCGGUGGUACCGUGUGGAAGGGCCAUCGAUCAACGGAUAAAAGUUACCCCGGGGAUAACAGGCUGAUCUCCCCCGAGAGUCCAUAUCGGCGGGGAGGUUUGGCACCUCGAUGUCGGCUCGUCGCAUCCUGGGGCUGAAGAAGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGCACGCGAGCUGGGUUCAGAACGUCGUGAGACAGUUCGGUCUCUAUCCGCUACGGGCGCAGGAGAAUUGAGGGGAGUUGCUCCUAGUACGAGAGGACCGGAGUGAACGGACCGCUGGUCUCCCUGCUGUCGUACCAACGGCACAUGCAGGGUAGCUAUGUCCGGAACGGAUAACCGCUGAAAGCAUCUAAGCGGGAAGCCAGCCCCAAGAUGAGUUCUCCCACUGUUUAUCAGGUAAGACUCCCGGAAGACCACCGGGUUAAGAGGCCAGGCGUGCACGCAUAGCAAUGUGUUCAGCGGACUGGUGCUCAUCAGUCGAGGUCUUGACCACUC
5S ribosomal RNA y 124 NA ACACCCCCGUGCCCAUAGCACUGUGGAACCACCCCACCCCAUGCCGAACUGGGUCGUGAAACACAGCAGCGCCAAUGAUACUCGGACCGCAGGGUCCCGGAAAAGUCGGUCAGCGCGGGGGUUU
Experimental Data

Method: X-RAY DIFFRACTION

Deposited Date: 2014-09-16
Deposition Author(s): Bashan, A. , Rozenberg, H. , Wekselman, I. , Yonath, A. , Zimmerman, E.