NDB ID: NA2185 PDB ID: 4IOA 
Title:
CRYSTAL STRUCTURE OF COMPOUND 4E BOUND TO LARGE RIBOSOMAL SUBUNIT (50S) FROM DEINOCOCCUS RADIODURANS
Molecular Description:
50S ribosomal subunit
Structural Keywords:
SINGLE STRAND, HAIRPIN LOOP
Nucleic Acid Sequence:
Click to show/hide 2 nucleic acid sequences
Chain X
GGUCAAGAUAGUAAGGGUCCACGGUGGAUGCCCUGGCGCUGGAGCCGAUGAAGGACGCGAUUACCUGCGAAAAGCCCCGA CGAGCUGGA
GAUACGCUUUGACUCGGGGAUGUCCGAAUGGGGAAACCCACCUCGUAAGAGGUAUCCGCAAGGAUGGGAAC UCAGGGAACUGAAACAUC
UCAGUACCUGAAGGAGAAGAAAGAGAAUUCGAUUCCGUUAGUAGCGGCGAGCGAACCCGGAU CAGCCCAAACCGAAACGCUUGCGUUUC
GGGGUUGUAGGACCAGUUUUUAAGAUUCAACCCCUCAAGCCGAAGUGGCUGGA AAGCUACACCUCAGAAGGUGAGAGUCCUGUAGGCGA
ACGAGCGGUUGACUGUACUGGCACCUGAGUAGGUCGUUGUUCGU GAAACGAUGACUGAAUCCGCGCGGACCACCGCGCAAGGCUAAAUA
CUCCCAGUGACCGAUAGCGCAUAGUACCGUGAGGG AAAGGUGAAAAGAACCCCGGGAGGGGAGUGAAAGAGAACCUGAAACCGUGGACU
UACAAGCAGUCAUGGCACCUUAUGCG UGUUAUGGCGUGCCUAUUGAAGCAUGAGCCGGCGACUUAGACCUGACGUGCGAGCUUAAGUUG
AAAAACGGAGGCGGAGC GAAAGCGAGUCCGAAUAGGGCGGCAUUAGUACGUCGGGCUAGACUCGAAACCAGGUGAGCUAAGCAUGACCA
GGUUGAAA CCCCCGUGACAGGGGGCGGAGGACCGAACCGGUGCCUGCUGAAACAGUCUCGGAUGAGUUGUGUUUAGGAGUGAAAAGCU
AACCGAACCUGGAGAUAGCUAGUUCUCCCCGAAAUGUAUUGAGGUACAGCCUCGGAUGUUGACCAUGUCCUGUAGAGCAC UCACAAGGC
UAGGGGGCCUACCAGCUUACCAAACCUUAUGAAACUCCGAAGGGGCACGCGUUUAGUCCGGGAGUGAGGCU GCGAGAGCUAACUUCCGU
AGCCGAGAGGGAAACAACCCAGACCAUCAGCUAAGGUCCCUAAAUGAUCGCUCAGUGGUUAA GGAUGUGUCGUCGCAUAGACAGCCAGG
AGGUUGGCUUAGAAGCAGCCACCCUUCAAAGAGUGCGUAAUAGCUCACUGGUC GAGUGACGAUGCGCCGAAAAUGAUCGGGGCUCAAGU
GAUCUACCGAAGCUAUGGAUUCAACUCGCGAAGCGAGUUGUCUG GUAGGGGAGCGUUCAGUCCGCGGAGAAGCCAUACCGGAAGGAGUG
GUGGAGCCGACUGAAGUGCGGAUGCCGGCAUGAGU AACGAUAAAAGAAGUGAGAAUCUUCUUCGCCGUAAGGACAAGGGUUCCUGGGGA
AGGGUCGUCCGCCCAGGGAAAGUCGG GACCUAAGGUGAGGCCGAACGGCGCAGCCGAUGGACAGCAGGUCAAGAUUCCUGCACCGAUCA
UGUGGAGUGAUGGAGGG ACGCAUUACGCUAUCCAAUGCCAAGCUAUGGCUAUGCUGGUUGGUACGCUCAAGGGCGAUCGGGUCAGAAAA
UCUACCGG UCACAUGCCUCAGACGUAUCGGGAGCUUCCUCGGAAGCGAAGUUGGAAACGCGACGGUGCCAAGAAAAGCUUCUAAACGU
UGAAACAUGAUUGCCCGUACCGCAAACCGACACAGGUGUCCGAGUGUCAAUGCACUAAGGCGCGCGAGAGAACCCUCGUU AAGGAACUU
UGCAAUCUCACCCCGUAACUUCGGAAGAAGGGGUCCCCACGCUUCGCGUGGGGCGCAGUGAAUAGGCCCAG GCGACUGUUUACCAAAAU
CACAGCACUCUGCCAACACGAACAGUGGACGUAUAGGGUGUGACGCCUGCCCGGUGCCGGAA GGUCAAGUGGAGCGGUGCAAGCUGCGA
AAUGAAGCCCCGGUGAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAA AUUCCUUGUCGGGUAAGUUCCGACCUGCACGAAAGG
CGUAACGAUCUGGGCGCUGUCUCAACGAGGGACUCGGUGAAAUU GAAUUGGCUGUAAAGAUGCGGCCUACCCGUAGCAGGACGAAAAGA
CCCCGUGGAGCUUUACUAUAGUCUGGCAUUGGGAU UCGGGUUUCUCUGCGUAGGAUAGGUGGGAGCCUGCGAAACUGGCCUUUUGGGGU
CGGUGGAGGCAACGGUGAAAUACCAC CCUGAGAAACUUGGAUUUCUAACCUGAAAAAUCACUUUCGGGGACCGUGCUUGGCGGGUAGUU
UGACUGGGGCGGUCGCC UCCCAAAAUGUAACGGAGGCGCCCAAAGGUCACCUCAAGACGGUUGGAAAUCGUCUGUAGAGCGCAAAGGUA
GAAGGUGG CUUGACUGCGAGACUGACACGUCGAGCAGGGAGGAAACUCGGGCUUAGUGAACCGGUGGUACCGUGUGGAAGGGCCAUCG
AUCAACGGAUAAAAGUUACCCCGGGGAUAACAGGCUGAUCUCCCCCGAGAGUCCAUAUCGGCGGGGAGGUUUGGCACCUC GAUGUCGGC
UCGUCGCAUCCUGGGGCUGAAGAAGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGCACGCGAGCUG GGUUCAGAACGUCGUGAG
ACAGUUCGGUCUCUAUCCGCUACGGGCGCAGGAGAAUUGAGGGGAGUUGCUCCUAGUACGAG AGGACCGGAGUGAACGGACCGCUGGUC
UCCCUGCUGUCGUACCAACGGCACAUGCAGGGUAGCUAUGUCCGGAACGGAUA ACCGCUGAAAGCAUCUAAGCGGGAAGCCAGCCCCAA
GAUGAGUUCUCCCACUGUUUAUCAGGUAAGACUCCCGGAAGACC ACCGGGUUAAGAGGCCAGGCGUGCACGCAUAGCAAUGUGUUCAGC
GGACUGGUGCUCAUCAGUCGAGGUCUUGACCACUC
Chain Y
ACACCCCCGUGCCCAUAGCACUGUGGAACCACCCCACCCCAUGCCGAACUGGGUCGUGAAACACAGCAGCGCCAAUGAUA CUCGGACCG
CAGGGUCCCGGAAAAGUCGGUCAGCGCGGGGGUU
Protein Sequence:
Click to show/hide 28 protein sequences
Chain V
MKPSEMRNLQATDFAKEIDARKKELMELRFQAAAGQLAQPHRVRQLRREVAQLNTVKAELARKGEQQ
Chain W
MKIKLVRSVIGRPGNQVKTVQALGLRKIGDSREVSDTPAVRGMVKTVKHLLEVQE
Chain Z
MAKHPVPKKKTSKSKRDMRRSHHALTAPNLTECPQCHGKKLSHHICPNCGYYDGRQVLAV
Chain 1
MAKDGPRIIVKMESSAGTGFYYTTTKNRRNTQAKLELKKYDPVAKKHVVFREKKV
Chain R
MPRPSAGSHHNDKLHFKKGDTVIVLSGKHKGQTGKVLLALPRDQKVVVEGVNVITKNVKPSMTNPQGGQEQRELALHASK VALVDPETG
KATRVRKQIVDGKKVRVAVASGKTID
Chain S
MELTAKPRTPKQKLDESMIAAVAYNKENNVSFALDRKAFDRAFRQQSTTGLFDITVEGGETFPALVKAVQMDKRKRAPIH VDFYMVTYG
EPVEVSVPVHTTGRSQGEVQGGLVDIVVHNLQIVAPGPRRIPQELVVDVTKMNIGDHITAGDIKLPEGCTL AADPELTVVSVLPPRLTA
EELEAEVQAAQVAGLVAAGELSEEAAEAVLEGDASLEEVKAEASEDNAGTDSEDNSDAQ
Chain T
MAHKKGVGSSKNGRDSNPKYLGVKKFGGEVVKAGNILVRQRGTKFKAGQGVGMGRDHTLFALSDGKVVFINKGKGARFIS IEAAQTEVA
AD
Chain U
MSRECYLTGKKNLVVNSVIRRGKARADGGVGRKTTGITKRVQRANLHKKAIRENGQVKTVWLSANALRTLSKGPYKGIEL I
Chain 2
MKRTYQPNNRKRAKTHGFRARMKTKSGRNILARRRAKGRHQLTVSDE
Chain 3
MPKMKTHKMAKRRIKITGTGKVMAFKSGKRHQNTGKSGDEIRGKGKGFVLAKAEWARMKLMLPRGK
Chain A
AVKKYRPYTPSRRQMTTADFSGLTKKRPEKALTEALPKTGGRNNRGRITSRFIGGGHKRLYRIIDFKRRDKSGVNAKVAA IEYDPNRSA
RIALLHYADGEKRYILAPEGLTVGATVNAGPEAEPKLGNALPLRFVPVGAVVHALELVPGKGAQLARSAGT SVQVQGKESDYVIVRLPS
GELRRVHSECYATIGAVGNAEHKNIVLGKAGRSRWLGRKPHQRGSAMNPVDHPHGGGEGRTG AGRVPVTPWGKPTKGLKTRRKRKTSDR
FIVTRRK
Chain C
MAQINVIGQNGGRTIELPLPEVNSGVLHEVVTWQLASRRRGTASTRTRAQVSKTGRKMYGQKGTGNARHGDRSVPTFVGG GVAFGPKPR
SYDYTLPRQVRQLGLAMAIASRQEGGKLVAVDGFDIADAKTKNFISWAKQNGLDGTEKVLLVTDDENTRRA ARNVSWVSVLPVAGVNVY
DILRHDRLVIDAAALEIVEEEAGEEQQ
Chain B
MKGILGTKIGMTQIWKNDRAIPVTVVLAGPCPIVQRKTAQTDGYEAVQIGYAPKAERKVNKPMQGHFAKAGVAPTRILRE FRGFAPDGD
SVNVDIFAEGEKIDATGTSKGKGTQGVMKRWNFAGGPASHGSKKWHRRPGSIGQRKTPGRVYKGKRMAGHM GMERVTVQNLEVVEIRAG
ENLILVKGAIPGANGGLVVLRSAAKASAAKGGK
Chain E
MSRIGKQPIAVPSGVTVNAQDGVFKVKGPKGELTVPYNTELTVRQDGDQLLVERPSDAQKHRALHGLTRTLVANAVKGVS DGYTINLEL
RGVGFRAKLTGKALEMNIGYSHPVIIEPPAGVTFAVPEPTRIDVSGIDKQLVGQVAANVRKVRKPDAYHGK GVRFVGEQIALKAGKAGA
TGGKGKK
Chain D
MQQLKTKYNDQVRPALMQQFGYSSVMAVPRIEKIVVNEGLGSSKEDSKAIDKAAKELALITLQKPIITKAKKSISNFKLR QGMPVGIKV
TLRGERMYVFLEKLINIGLPRIRDFRGINPNAFDGRGNYNLGIKEQLIFPEITYDMVDKTRGMDITIVTTA KTDEEARALLQSMGLPFR
KQ
Chain G
MAFPDTDVSPPRGGPSSPAKSPLLRSFKVKTYIPKNDEQNWVVVDASGVPLGRLATLIASRIRGKHRPDFTPNMIQGDFV VVINAAQVA
LTGKKLDDKVYTRYTGYQGGLKTETAREALSKHPERVIEHAVFGMLPKGRQGRAMHTRLKVYAGETHPHSA QKPQVLKTQPLEVK
Chain F
MKKVAGIVKLQLPAGKATPAPPVGPALGQYGANIMEFTKAFNAQTADKGDAIIPVEITIYADRSFTFITKTPPMSYLIRK AAGIGKGSS
TPNKAKVGKLNWDQVLEIAKTKMPDLNAGSVEAAANTVAGTARSMGVTVEGGPNA
Chain I
MKLHDLKPTPGSRKDRKRVGRGPGGTDKTAGRGHKGQKSRSGAGKGAFFEGGRSRLIARLPKRGFNNVGTTYEVVKLSQL QDLEDTTFD
RDTLEAYRLVRRKNRPVKLLASGEISRAVTVHVDAASAAAIKAVEAAGGRVVLPEVQTQQDDAQKAE
Chain H
MIMPQSRLDVADNSGAREIMCIRVLNSGIGGKGLTTGGGGNKRYAHVGDIIVASVKDAAPRGAVKAGDVVKAVVVRTSHA IKRADGSTI
RFDRNAAVIINNQGEPRGTRVFGPVARELRDRRFMKIVSLAPEVL
Chain K
MRHGKAGRKLNRNSSARVALARAQATALLREGRIQTTLTKAKELRPFVEQLITTAKGGDLHSRRLVAQDIHDKDVVRKVM DEVAPKYAE
RPGGYTRILRVGTRRGDGVTMALIELV
Chain J
MLLPKRTKFRKQFRGRMTGDAKGGDYVAFGDYGLIAMEPAWIKSNQIEACRIVMSRHFRRGGKIYIRIFPDKPVTKKPAE TRMGKGKGA
VEYWVSVVKPGRVMFEVAGVTEEQAKEAFRLAGHKLPIQTKMVKREVYDEAQ
Chain M
MQTHIKINRGELLRGIEQDHTRQLPDFRPGDTVRVDTKVREGNRTRSQAFEGVVIAINGSGSRKSFTVRKISFGEGVERV FPFASPLVN
QVTIVERGKVRRAKLYYLRELRGKAARIKSDRSRVMKDAARAQQDKANASASQAAAAQADVTVISAAPEVA PETQGE
Chain L
MATATTIRRKLRTRRKVRTTTAASGRLRLSVYRSSKHIYAQIIDDSRGQTLAAASSAALKSGNKTDTAAAVGKALAAAAA EKGIKQVVF
DRGSYKYHGRVKALADAAREGGLDF
Chain O
MFAIIQTGGKQYRVSEGDVIRVESLQGEAGDKVELKALFVGGEQTVFGEDAGKYTVQAEVVEHGRGKKIYIRKYKSGVQY RRRTGHRQN
FTAIKILGIQG
Chain N
MPRAKTGIVRRRRHKKVLKRAKGFWGSRSKQYRNAFQTLLNAATYEYRDRRNKKRDFRRLWIQRINAGARLHGMNYSTFI NGLKRANID
LNRKVLADIAAREPEAFKALVDASRNARQ
Chain Q
MSHYDILQAPVISEKAYSAMERGVYSFWVSPKATKTEIKDAIQQAFGVRVIGISTMNVPGKRKRVGRFIGQRNDRKKAIV RLAEGQSIE
ALAGQA
Chain P
MTAPEQTFRNKKQRKQQVKLRKPGFAVAKYVRMSPRKVRLVVDVIRGKSVQDAEDLLRFIPRSASEPVAKVLNSAKANAL HNDEMLEDR
LFVKEAYVDAGPTLKRLIPRARGSANIIKKRTSHITIIVAEKGNK
Chain 4
MKVRSSVKKMCDNCKVVRRHGRVLVICSNVKHKQRQG
Primary Citation:
Magee, T.V., Han, S., McCurdy, S.P., Nguyen, T.T., Granskog, K., Marr, E.S., Maguire, B.A., Huband, M.D., Chen, J.M., Subashi, T.A., Shanmugasundaram, V.
Novel 3-O-carbamoyl erythromycin A derivatives (carbamolides) with activity against resistant staphylococcal and streptococcal isolates. 
Bioorg.Med.Chem.Lett., 23, pp. 1727 - 1731, 2013.
Experimental Information:
X-RAY DIFFRACTION
Space Group:
I 2 2 2
Cell Constants:
a = 169.767 b = 406.661 c = 696.738 (Ångstroms)
α = 90.0 β = 90.0 γ = 90.0 (degrees)
Refinement:
The structure was refined using the autobuster program.
The R value is 0.1989 for 343669 reflections in
the resolution range 30.0 to 3.2 Ångstroms
with Fobs > 1.0 sigma(Fobs) and with I > 0.0 sigma(I)