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8QCQ

B. subtilis apda-stalled ribosomal complex

PDB DOI: 10.2210/pdb8qcq/pdb

Classification: RIBOSOME
Organism(s): Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168

Deposited: 2023-08-28
Deposition Author(s): Morici, M. , Wilson, D.N.

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.3 Å

8qcq
Literature

B. subtilis apda-stalled ribosomal complex

Morici, M. , Wilson, D.N.

Primary Citation of Related Structures: 8QCQ


Proteins
Molecule Chains Sequence Length Organism Sequence
50S ribosomal protein L32 0 59 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MAVPFRRTSKMKKRLRRTHFKLNVPGMTECPSCGEMKLSHRVCKACGSYNGKDINVKSN
50S ribosomal protein L3 D 209 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MTKGILGRKIGMTQVFAENGDLIPVTVIEAAPNVVLQKKTAENDGYEAIQLGFDDKREKLSNKPEKGHVAKAETAPKRFVKELRGVEMDAYEVGQEVKVEIFSAGEIVDVTGVSKGKGFQGAIKRHGQSRGPMSHGSRYHRRPGSMGPVDPNRVFKGKLLPGRMGGEQITVQNLEIVKVDAERNLLLIKGNVPGAKKSLITVKSAVKSK
30S ribosomal protein S5 E 166 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MRRIDPSKLELEERLVTVNRVAKVVKGGRRFRFAALVVVGDKNGHVGFGTGKAQEVPEAIRKAVEDAKKNLIEVPMVGTTIPHEIIGRFGAGNILLKPASEGTGVIAGGPVRAVLELAGVADILSKSLGSNTPINMIRATLQGLSELKRAEDVAKLRGKSVEELLG
30S ribosomal protein S6 F 95 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MRKYEVMYIIRPNIDEESKKAVIERFNNVLTSNGAEITGTKDWGKRRLAYEINDFRDGFYQIVNVQSDAAAVQEFDRLAKISDDIIRHIVVKEEE
Small ribosomal subunit protein uS7 G 156 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MPRKGPVAKRDVLPDPIYNSKLVSRLINKMMIDGKKGKSQTILYKSFDIIKERTGNDAMEVFEQALKNIMPVLEVKARRVGGANYQVPVEVRPERRTTLGLRWLVNYARLRGEKTMEERLANEILDAANNTGAAVKKREDTHKMAEANKAFAHYRW
30S ribosomal protein S10 J 102 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MAKQKIRIRLKAYDHRILDQSAEKIVETAKRSGASVSGPIPLPTEKSVYTILRAVHKYKDSREQFEMRTHKRLIDIVNPTPQTVDALMRLDLPSGVDIEIKL
30S ribosomal protein S11 K 131 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MAAARKSNTRKRRVKKNIESGIAHIRSTFNNTIVTITDTHGNAISWSSAGALGFRGSRKSTPFAAQMAAETAAKGSIEHGLKTLEVTVKGPGSGREAAIRALQAAGLEVTAIRDVTPVPHNGCRPPKRRRV
30S ribosomal protein S12 L 138 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MPTINQLIRKGRVSKVENSKSPALNKGYNSFKKEHTNVSSPQKRGVCTRVGTMTPKKPNSALRKYARVRLTNGIEVTAYIPGIGHNLQEHSVVLIRGGRVKDLPGVRYHIVRGALDTAGVENRAQGRSKYGTKKPKAK
30S ribosomal protein S13 M 121 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MARIAGVDIPRDKRVVISLTYIFGIGRTTAQQVLKEAGVSEDTRVRDLTEEELGKIRDIIDKLKVEGDLRREVSLNIKRLIEIGSYRGIRHRRGLPVRGQNSKNNARTRKGPRRTVANKKK
30S ribosomal protein S14 N 61 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MAKKSMIAKQQRTPKFKVQEYTRCERCGRPHSVIRKFKLCRICFRELAYKGQIPGVKKASW
30S ribosomal protein S15 O 89 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MAITQERKNQLINEFKTHESDTGSPEVQIAILTDSINNLNEHLRTHKKDHHSRRGLLKMVGKRRNLLTYLRNKDVTRYRELINKLGLRR
50S ribosomal protein L33 1 1 49 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MRVNITLACTECGERNYISKKNKRNNPDRVEFKKYCPRDKKSTLHRETK
50S ribosomal protein L19 P 115 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MQKLIEDITKEQLRTDLPAFRPGDTLRVHVKVVEGNRERIQIFEGVVIKRRGGGISETFTVRKISYGVGVERTFPVHTPKIAKIEVVRYGKVRRAKLYYLRELRGKAARIKEIRR
30S ribosomal protein S17 Q 87 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MSERNQRKVYQGRVVSDKMDKTITVVVETYKKHTLYGKRVKYSKKFKAHDENNQAKIGDIVKIMETRPLSATKRFRLVEVVEEAVII
30S ribosomal protein S18 R 79 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MAGGRRGGRAKRRKVCYFTSNGITHIDYKDVDLLKKFVSERGKILPRRVTGTNAKYQRKLTAAIKRARQMALLPYVSGE
30S ribosomal protein S19 S 92 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MARSLKKGPFVDGHLMTKIEKLNETDKKQVVKTWSRRSTIFPQFIGHTIAVYDGRKHVPVFISEDMVGHKLGEFAPTRTYKGHASDDKKTRR
30S ribosomal protein S20 T 88 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MPNIKSAIKRTKTNNERRVHNATIKSAMRTAIKQVEASVANNEADKAKTALTEAAKRIDKAVKTGLVHKNTAARYKSRLAKKVNGLSA
50S ribosomal protein L24 U 103 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MHVKKGDKVMVISGKDKGKQGTILAAFPKKDRVLVEGVNMVKKHSKPTQANPQGGISNQEAPIHVSNVMPLDPKTGEVTRVGYKVEDGKKVRVAKKSGQVLDK
50S ribosomal protein L28 X 62 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MARKCVITGKKTTAGNNRSHAMNASKRTWGANLQKVRILVNGKPKKVYVSARALKSGKVERV
Large ribosomal subunit protein uL30 Z 59 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MAKLEITLKRSVIGRPEDQRVTVRTLGLKKTNQTVVHEDNAAIRGMINKVSHLVSVKEQ
50S ribosomal protein L34 2 44 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MKRTFQPNNRKRSKVHGFRSRMSSKNGRLVLARRRRKGRKVLSA
50S ribosomal protein L2 C 277 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MAIKKYKPTSNGRRGMTTSDFAEITTDKPEKSLLAPLHKKGGRNNQGKLTVRHQGGGHKRQYRVIDFKRDKDGIPGRVATVEYDPNRSANIALINYADGEKRYILAPKGIQVGTEIMSGPEADIKVGNALPLINIPVGTVVHNIELKPGKGGQLVRSAGTSAQVLGKEGKYVLVRLNSGEVRMILSACRASIGQVGNEQHELINIGKAGRSRWKGIRPTVRGSVMNPNDHPHGGGEGRAPIGRKSPMSPWGKPTLGFKTRKKKNKSDKFIVRRRKNK
50S ribosomal protein L35 3 66 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MPKMKTHRGSAKRFKKTGSGKLKRSHAYTSHLFANKSQKQKRKLRKSAVVSAGDFKRIKQMLANIK
30S ribosomal protein S9 I 130 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MAQVQYYGTGRRKSSVARVRLVPGEGRIVVNNREISEHIPSAALIEDIKQPLTLTETAGTYDVLVNVHGGGLSGQAGAIRHGIARALLEADPEYRTTLKRAGLLTRDARMKERKKYGLKGARRAPQFSKR
30S ribosomal protein S8 H 132 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MVMTDPIADMLTRIRNANMVRHEKLEIPASKLKREIAEILKREGFIRDVEFVEDSKQGIIRVFLKYGQNNERVITGLKRISKPGLRVYAKSNEVPRVLNGLGIAIISTSQGVLTDKEARAKQAGGEVLAYVW
ApdA nascent chain 7 9 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 RLALGDRAP
50S ribosomal protein L36 4 37 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MKVRPSVKPICEKCKVIRRKGKVMVICENPKHKQKQG
Large ribosomal subunit protein bL31-A 6 65 Amycolatopsis Japonica , Bacillus Subtilis Subsp. Subtilis Str. 168 MKAGIHPNFKKATVKCACGNEFETGSVKEEVRVEICSECHPFYTGRKFASADGRVDRFNKKYGLK

Nucleic Acids / Hybrid
Molecule Chains Sequence Length Organism Sequence
Pro-tRNA w 77 NA CGGGAAGUAGCUCAGCUUGGUAGAGCACAUGGUUUGGGACCAUGGGGUCGCAGGUUCGAAUCCUGUCUUCCCGACCA
Pro-tRNA y 77 NA CGGGAAGUAGCUCAGCUUGGUAGAGCACAUGGUUUGGGACCAUGGGGUCGCAGGUUCGAAUCCUGUCUUCCCGACCA
23S rRNA a 2925 NA GGUUAAGUUAGAAAGGGCGCACGGUGGAUGCCUUGGCACUAGGAGCCGAUGAAGGACGGGACGAACACCGAUAUGCUUCGGGGAGCUGUAAGCAAGCUUUGAUCCGGAGAUUUCCGAAUGGGGAAACCCACCACUCGUAAUGGAGUGGUAUCCAUAUCUGAAUUCAUAGGAUAUGAGAAGGCAGACCCGGGGAACUGAAACAUCUAAGUACCCGGAGGAAGAGAAAGCAAAUGCGAUUCCCUGAGUAGCGGCGAGCGAAACGGGAUCAGCCCAAACCAAGAGGCUUGCCUCUUGGGGUUGUAGGACACUCUGUACGGAGUUACAAAGGAACGAGGUAGAUGAAGAGGUCUGGAAAGGCCCGCCAUAGGAGGUAACAGCCCUGUAGUCAAAACUUCGUUCUCUCCUGAGUGGAUCCUGAGUACGGCGGAACACGUGAAAUUCCGUCGGAAUCCGGGAGGACCAUCUCCCAAGGCUAAAUACUCCCUAGUGACCGAUAGUGAACCAGUACCGUGAGGGAAAGGUGAAAAGCACCCCGGAAGGGGAGUGAAAGAGAUCCUGAAACCGUGUGCCUACAAGUAGUCAGAGCCCGUUAACGGGUGAUGGCGUGCCUUUUGUAGAAUGAACCGGCGAGUUACGAUCUCGUGCAAGGUUAAGCAGAAGAUGCGGAGCCGCAGCGAAAGCGAGUCUGAAUAGGGCGCAUGAGUACGUGGUCGUAGACCCGAAACCAGGUGAUCUACCCAUGUCCAGGGUGAAGUUCAGGUAACACUGAAUGGAGGCCCGAACCCACGCACGUUGAAAAGUGCGGGGAUGAGGUGUGGGUAGGGGUGAAAUGCCAAUCGAACCUGGAGAUAGCUGGUUCUCUCCGAAAUAGCUUUAGGGCUAGCCUCAAGGUAAGAGUCUUGGAGGUAGAGCACUGAUUGGACUAGGGGCCCCUACCGGGUUACCGAAUUCAGUCAAACUCCGAAUGCCAAUGACUUAUCCUUGGGAGUCAGACUGCGAGUGAUAAGAUCCGUAGUCGAAAGGGAAACAGCCCAGACCGCCAGCUAAGGUCCCAAAGUAUACGUUAAGUGGAAAAGGAUGUGGAGUUGCUUAGACAACCAGGAUGUUGGCUUAGAAGCAGCCACCAUUUAAAGAGUGCGUAAUAGCUCACUGGUCGAGUGACUCUGCGCCGAAAAUGUACCGGGGCUAAACGUAUCACCGAAGCUGCGGACUGUUCUUCGAACAGUGGUAGGAGAGCGUUCUAAGGGCUGUGAAGCCAGACCGGAAGGACUGGUGGAGCGCUUAGAAGUGAGAAUGCCGGUAUGAGUAGCGAAAGAGGGGUGAGAAUCCCCUCCACCGAAUGCCUAAGGUUUCCUGAGGAAGGCUCGUCCGCUCAGGGUUAGUCGGGACCUAAGCCGAGGCCGAAAGGCGUAGGCGAUGGACAACAGGUUGAUAUUCCUGUACCACCUCCUCACCAUUUGAGCAAUGGGGGGACGCAGGAGGAUAGGGUAAGCGCGGUAUUGGAUAUCCGCGUCCAAGCAGUUAGGCUGGGAAAUAGGCAAAUCCGUUUCCCAUAAGGCUGAGCUGUGAUGGCGAGCGAAAUAUAGUAGCGAAGUUCCUGAUUCCACACUGCCAAGAAAAGCCUCUAGCGAGGUGAGAGGUGCCCGUACCGCAAACCGACACAGGUAGGCGAGGAGAGAAUCCUAAGGUGAUCGAGAGAACUCUCGUUAAGGAACUCGGCAAAAUGACCCCGUAACUUCGGGAGAAGGGGUGCUCUGUUAGGGUGCAAGCCCGAGAGAGCCGCAGUGAAUAGGCCCAGGCGACUGUUUAGCAAAAACACAGGUCUCUGCGAAGCCGUAAGGCGAAGUAUAGGGGCUGACGCCUGCCCGGUGCUGGAAGGUUAAGAGGAGCGCUUAGCGUAAGCGAAGGUGCGAAUUGAAGCCCCAGUAAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAAAUUCCUUGUCGGGUAAGUUCCGACCCGCACGAAAGGCGCAACGAUCUGGGCACUGUCUCAACGAGAGACUCGGUGAAAUUAUAGUACCUGUGAAGAUGCAGGUUACCCGCGACAGGACGGAAAGACCCCGUGGAGCUUUACUGCAGCCUGAUAUUGAAUGUUGGUACAGCUUGUACAGGAUAGGUAGGAGCCUUGGAAACCGGAGCGCCAGCUUCGGUGGAGGCAUCGGUGGGAUACUACCCUGGCUGUAUUGACCUUCUAACCCGCCGCCCUUAUCGGGCGGGGAGACAGUGUCAGGUGGGCAGUUUGACUGGGGCGGUCGCCUCCUAAAAGGUAACGGAGGCGCCCAAAGGUUCCCUCAGAAUGGUUGGAAAUCAUUCGCAGAGUGUAAAGGCACAAGGGAGCUUGACUGCGAGACCUACAAGUCGAGCAGGGACGAAAGUCGGGCUUAGUGAUCCGGUGGUUCCGCAUGGAAGGGCCAUCGCUCAACGGAUAAAAGCUACCCCGGGGAUAACAGGCUUAUCUCCCCCAAGAGUCCACAUCGACGGGGAGGUUUGGCACCUCGAUGUCGGCUCAUCGCAUCCUGGGGCUGUAGUCGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGUACGCGAGCUGGGUUCAGAACGUCGUGAGACAGUUCGGUCCCUAUCCGUCGCGGGCGCAGGAAAUUUGAGAGGAGCUGUCCUUAGUACGAGAGGACCGGGAUGGACGCACCGCUGGUGUACCAGUUGUUCUGCCAAGGGCAUCGCUGGGUAGCUAUGUGCGGACGGGAUAAGUGCUGAAAGCAUCUAAGCAUGAAGCCCCCCUCAAGAUGAGAUUUCCCAUUCCGCAAGGAAGUAAGAUCCCUGAAAGAUGAUCAGGUUGAUAGGUCUGAGGUGGAAGUGUGGCGACACAUGGAGCUGACAGAUACUAAUCGAUCGAGGACUUAAC
mRNA 8 6 NA CCUCCU
5S rRNA b 119 NA UUUGGUGGCGAUAGCGAAGAGGUCACACCCGUUCCCAUACCGAACACGGAAGUUAAGCUCUUCAGCGCCGAUGGUAGUCGGGGGUUUCCCCCUGUGAGAGUAGGACGCCGCCAAGCAAG
Experimental Data

Method: ELECTRON MICROSCOPY

Deposited Date: 2023-08-28
Deposition Author(s): Morici, M. , Wilson, D.N.