NDB ID: RR0063 PDB ID: 1NJM 
NAKB(beta): RR0063 
Title:
THE CRYSTAL STRUCTURE OF THE 50S LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH A TRNA ACCEPTOR STEM MIMIC (ASM) AND THE ANTIBIOTIC SPARSOMYCIN
Molecular Description:
50S Large ribosomal subunit
Deposited:
2003-01-02
Released:
2003-02-11
Structural Keywords:
SINGLE STRAND, LOOPS, BULGES, FLIPPED-OUT BASES, BASE TRIPLET
Nucleic Acid Sequence:
Click to show/hide 2 nucleic acid sequences
Chain 0
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 5
GGGGCUAAGCGGUUCGAUCCCGCUUAGCUCCACC(PPU)
Protein Sequence:
Click to show/hide 2 protein sequences
Chain K
MLLPKRTKFRKQFRGRMTGDAKGGDYVAFGDYGLIAMEPAWIKSNQIEACRIVMSRHFRRGGKIYIRIFPDKPVTKKPAE TRMGKGKGA
VEYWVSVVKPGRVMFEVAGVTEEQAKEAFRLAGHKLPIQTKMVKREVYDEAQ
Chain T
MELTAKPRTPKQKLDESMIAAVAYNKENNVSFALDRKAFDRAFRQQSTTGLFDITVEGGETFPALVKAVQMDKRKRAPIH VDFYMVTYG
EPVEVSVPVHTTGRSQGEVQGGLVDIVVHNLQIVAPGPRRIPQELVVDVTKMNIGDHITAGDIKLPEGCTL AADPELTVVSVLPPRLTA
EELEAEVQAAQVAGLVAAGELSEEAAEAVLEGDASLEEVKAEASEDNAGTDSEDNSDAQ
Primary Citation:
Bashan, A., Agmon, I., Zarivatch, R., Schluenzen, F., Harms, J.M., Berisio, R., Bartels, H., Franceschi, F., Auerbach, T., Hansen, H.A., Kossoy, E., Kessler, M., Yonath, A.
Structural basis of the ribosomal machinery for Peptide bond formation, translocation, and nascent chain progression 
Mol.Cell, 11, pp. 91 - 102, 2003.
Experimental Information:
X-RAY DIFFRACTION
Space Group:
I 2 2 2
Cell Constants:
a = 169.6 b = 409.4 c = 695.1 (Ångstroms)
α = 90.0 β = 90.0 γ = 90.0 (degrees)
Refinement:
The structure was refined using the CNS program.
The R value is 0.2841 for 250710 reflections in
the resolution range 15.0 to 3.6 Ångstroms
with Fobs > 0.0 sigma(Fobs) and with I > 0.0 sigma(I)