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9FY1

Structure of clim-stalled bacillus subtilis 70s ribosome with release factor bound in the a-site

PDB DOI: 10.2210/pdb9fy1/pdb

Classification: RIBOSOME
Organism(s): Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct

Deposited: 2024-07-02
Deposition Author(s): Gersteuer, F. , Wilson, D.N.

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.3 Å

Literature

Structure of clim-stalled bacillus subtilis 70s ribosome with release factor bound in the a-site

Gersteuer, F. , Wilson, D.N.

Primary Citation of Related Structures: 9FY1


Proteins
Molecule Chains Sequence Length Organism Sequence
Large ribosomal subunit protein bL32 0 59 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MAVPFRRTSKVKKRLRRTHFKLNVPGMTECPSCGEMKLSHRVCKACGSYNGKDINVKSN
Small ribosomal subunit protein uS3 C 218 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MGQKVNPVGLRIGVIRDWESKWYAGKDYADFLHEDLKIREYISKRLSDASVSKVEIERAANRVNITIHTAKPGMVIGKGGSEVEALRKALNSLTGKRVHINILEIKRADLDAQLVADNIARQLENRVSFRRAQKQQIQRTMRAGAQGIKTMVSGRLGGADIARSEYYSEGTVPLHTLRADIDYATSEADTTYGKLGVKVWIYRGEVLPTKKKNEEGGK
30S ribosomal protein S4 D 200 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MARYTGPSWKLSRRLGISLSGTGKELEKRPYAPGPHGPGQRKKLSEYGLQLQEKQKLRHMYGVNERQFRTLFDKAGKLAGKHGENFMILLDSRLDNVVYKLGLARTRRQARQLVNHGHILVDGSRVDIPSYLVKPGQTIGVREKSRNLSIIKESVEVNNFVPEYLTFDAEKLEGTFTRLPERSELAPEINEALIVEFYSR
30S ribosomal protein S5 E 166 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MRRIDPSKLELEERLVTVNRVAKVVKGGRRFRFAALVVVGDKNGHVGFGTGKAQEVPEAIRKAVEDAKKNLIEVPMVGTTIPHEIIGRFGAGNILLKPASEGTGVIAGGPVRAVLELAGVADILSKSLGSNTPINMIRATLQGLSELKRAEDVAKLRGKSVEELLG
30S ribosomal protein S6 F 95 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MRKYEVMYIIRPNIDEESKKAVIERFNNVLTSNGAEITGTKDWGKRRLAYEINDFRDGFYQIVNVQSDAAAVQEFDRLAKISDDIIRHIVVKEEE
Small ribosomal subunit protein uS7 G 156 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MPRKGPVAKRDVLPDPIYNSKLVSRLINKMMIDGKKGKSQTILYKSFDIIKERTGNDAMEVFEQALKNIMPVLEVKARRVGGANYQVPVEVRPERRTTLGLRWLVNYARLRGEKTMEERLANEILDAANNTGAAVKKREDTHKMAEANKAFAHYRW
30S ribosomal protein S10 J 102 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MAKQKIRIRLKAYDHRILDQSAEKIVETAKRSGASVSGPIPLPTEKSVYTILRAVHKYKDSREQFEMRTHKRLIDIVNPTPQTVDALMRLDLPSGVDIEIKL
30S ribosomal protein S11 K 131 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MAAARKSNTRKRRVKKNIESGIAHIRSTFNNTIVTITDTHGNAISWSSAGALGFRGSRKSTPFAAQMAAETAAKGSIEHGLKTLEVTVKGPGSGREAAIRALQAAGLEVTAIRDVTPVPHNGCRPPKRRRV
Small ribosomal subunit protein uS12 L 138 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MATINQLIRKGRVSKVENSKSPALNKGYNSFKKEHTNVSSPQKRGVCTRVGTMTPKKPNSALRKYARVRLTNGIEVTAYIPGIGHNLQEHSVVLIRGGRVKDLPGVRYHIVRGALDTAGVENRAQGRSKYGTKKPKAK
Small ribosomal subunit protein uS13 M 121 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MARIAGVDIPRDKRVVISLTYIFGIGRTTAQQILKEAGVSEDTRVRDLTEEELGKIRDIIDKLKVEGDLRREVSLNIKRLIEIGSYRGIRHRRGLPVRGQNSKNNARTRKGPRRTVANKKK
30S ribosomal protein S14 N 61 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MAKKSMIAKQQRTPKFKVQEYTRCERCGRPHSVIRKFKLCRICFRELAYKGQIPGVKKASW
50S ribosomal protein L33 1 1 49 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MRVNITLACTECGERNYISKKNKRNNPDRVEFKKYCPRDKKSTLHRETK
30S ribosomal protein S15 O 89 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MAITQERKNQLINEFKTHESDTGSPEVQIAILTDSINNLNEHLRTHKKDHHSRRGLLKMVGKRRNLLTYLRNKDVTRYRELINKLGLRR
30S ribosomal protein S16 P 90 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MAVKIRLKRMGAKKSPFYRIVVADSRSPRDGRFIETVGTYNPVAKPAEVKIDEELALKWLQTGAKPSDTVRNLFSSQGIMEKFHNAKQGK
30S ribosomal protein S17 Q 87 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MSERNQRKVYQGRVVSDKMDKTITVVVETYKKHTLYGKRVKYSKKFKAHDENNQAKIGDIVKIMETRPLSATKRFRLVEVVEEAVII
30S ribosomal protein S18 R 79 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MAGGRRGGRAKRRKVCYFTSNGITHIDYKDVDLLKKFVSERGKILPRRVTGTNAKYQRKLTAAIKRARQMALLPYVSGE
30S ribosomal protein S19 S 92 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MARSLKKGPFVDGHLMTKIEKLNETDKKQVVKTWSRRSTIFPQFIGHTIAVYDGRKHVPVFISEDMVGHKLGEFAPTRTYKGHASDDKKTRR
30S ribosomal protein S20 T 88 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MPNIKSAIKRTKTNNERRVHNATIKSAMRTAIKQVEASVANNEADKAKTALTEAAKRIDKAVKTGLVHKNTAARYKSRLAKKVNGLSA
50S ribosomal protein L24 U 103 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MHVKKGDKVMVISGKDKGKQGTILAAFPKKDRVLVEGVNMVKKHSKPTQANPQGGISNQEAPIHVSNVMPLDPKTGEVTRVGYKVEDGKKVRVAKKSGQVLDK
Large ribosomal subunit protein bL28 X 62 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MARKCVITGKKTTAGNNRSHAMNASKRTWGANVQKVRILVNGKPKKVYVSARALKSGKVERV
50S ribosomal protein L29 Y 66 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MKANEIRDLTTAEIEQKVKSLKEELFNLRFQLATGQLENTARIREVRKAIARMKTVIREREIAANK
Large ribosomal subunit protein uL30 Z 59 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MAKLEITLKRSVIGRPEDQRVTVRTLGLKKTNQTVVHEDNAAIRGMINKVSHLVSVKEQ
50S ribosomal protein L34 2 44 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MKRTFQPNNRKRSKVHGFRSRMSSKNGRLVLARRRRKGRKVLSA
30S ribosomal protein S8 H 132 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MVMTDPIADMLTRIRNANMVRHEKLEIPASKLKREIAEILKREGFIRDVEFVEDSKQGIIRVFLKYGQNNERVITGLKRISKPGLRVYAKSNEVPRVLNGLGIAIISTSQGVLTDKEARAKQAGGEVLAYVW
Small ribosomal subunit protein uS9 I 130 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MAQVQYYGTGRRKSSVARVRLVPGEGRIVVNNREISEHIPSAALIEDIKQPLTLTETAGTYDVLVNVHGGGFSGQAGAIRHGIARALLEADPEYRTTLKRAGLLTRDARMKERKKYGLKGARRAPQFSKR
50S ribosomal protein L35 3 66 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MPKMKTHRGSAKRFKKTGSGKLKRSHAYTSHLFANKSQKQKRKLRKSAVVSAGDFKRIKQMLANIK
50S ribosomal protein L36 4 37 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MKVRPSVKPICEKCKVIRRKGKVMVICENPKHKQKQG
Peptide chain release factor 2 8 366 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MELSEIRAELENMASRLADFRGSLDLESKEARIAELDEQMADPEFWNDQQKAQTVINEANGLKDYVNSYKKLNESHEELQMTHDLLKEEPDTDLQLELEKELKSLTKEFNEFELQLLLSEPYDKNNAILELHPGAGGTESQDWGSMLLRMYTRWGERRGFKVETLDYLPGDEAGIKSVTLLIKGHNAYGYLKAEKGVHRLVRISPFDSSGRRHTSFVSCEVMPEFNDEIDIDIRTEDIKVDTYRASGAGGQHVNTTDSAVRITHLPTNVVVTCQTERSQIKNRERAMKMLKAKLYQRRIEEQQAELDEIRGEQKEIGWGSQIRSYVFHPYSMVKDHRTNTEMGNVQAVMDGDIDTFIDAYLRSKLS
Large ribosomal subunit protein bL27 W 94 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MLRLDLQFFASKKGVGSTKNGRDSEAKRLGAKRADGQFVTGGSILYRQRGTKIYPGENVGRGGDDTLFAKIDGTVKFERFGRDRKKVSVYPVAQ
Nascent Chain CliM 5 38 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct YVLIRDIFVNRITYSEERLPKQYIVFQKYDIWRYCSLF
50S ribosomal protein L31 6 66 Bacillus Subtilis Subsp. Subtilis Str. 168 , Clostridioides Difficile 630 , Synthetic Construct MKAGIHPNFKKATVKCACGNEFETGSVKEEVRVEICSECHPFYTGRQKFASADGRVDRFNKKYGLK

Nucleic Acids / Hybrid
Molecule Chains Sequence Length Organism Sequence
P-site tRNA-Phe v 76 NA GGCUCGGUAGCUCAGUUGGUAGAGCAACGGACUGAAAAUCCGUGUGUCGGCGGUUCGAUUCCGUCCCGAGCCACCA
16S rRNA a 1554 NA UUUAUCGGAGAGUUUGAUCCUGGCUCAGGACGAACGCUGGCGGCGUGCCUAAUACAUGCAAGUCGAGCGGACAGAUGGGAGCUUGCUCCCUGAUGUUAGCGGCGGACGGGUGAGUAACACGUGGGUAACCUGCCUGUAAGACUGGGAUAACUCCGGGAAACCGGGGCUAAUACCGGAUGGUUGUUUGAACCGCAUGGUUCAAACAUAAAAGGUGGCUUCGGCUACCACUUACAGAUGGACCCGCGGCGCAUUAGCUAGUUGGUGAGGUAACGGCUCACCAAGGCGACGAUGCGUAGCCGACCUGAGAGGGUGAUCGGCCACACUGGGACUGAGACACGGCCCAGACUCCUACGGGAGGCAGCAGUAGGGAAUCUUCCGCAAUGGACGAAAGUCUGACGGAGCAACGCCGCGUGAGUGAUGAAGGUUUUCGGAUCGUAAAGCUCUGUUGUUAGGGAAGAACAAGUGCCGUUCGAAUAGGGCGGUACCUUGACGGUACCUAACCAGAAAGCCACGGCUAACUACGUGCCAGCAGCCGCGGUAAUACGUAGGUGGCAAGCGUUGUCCGGAAUUAUUGGGCGUAAAGGGCUCGCAGGCGGUUUCUUAAGUCUGAUGUGAAAGCCCCCGGCUCAACCGGGGAGGGUCAUUGGAAACUGGGGAACUUGAGUGCAGAAGAGGAGAGUGGAAUUCCACGUGUAGCGGUGAAAUGCGUAGAGAUGUGGAGGAACACCAGUGGCGAAGGCGACUCUCUGGUCUGUAACUGACGCUGAGGAGCGAAAGCGUGGGGAGCGAACAGGAUUAGAUACCCUGGUAGUCCACGCCGUAAACGAUGAGUGCUAAGUGUUAGGGGGUUUCCGCCCCUUAGUGCUGCAGCUAACGCAUUAAGCACUCCGCCUGGGGAGUACGGUCGCAAGACUGAAACUCAAAGGAAUUGACGGGGGCCCGCACAAGCGGUGGAGCAUGUGGUUUAAUUCGAAGCAACGCGAAGAACCUUACCAGGUCUUGACAUCCUCUGACAAUCCUAGAGAUAGGACGUCCCCUUCGGGGGCAGAGUGACAGGUGGUGCAUGGUUGUCGUCAGCUCGUGUCGUGAGAUGUUGGGUUAAGUCCCGCAACGAGCGCAACCCUUGAUCUUAGUUGCCAGCAUUCAGUUGGGCACUCUAAGGUGACUGCCGGUGACAAACCGGAGGAAGGUGGGGAUGACGUCAAAUCAUCAUGCCCCUUAUGACCUGGGCUACACACGUGCUACAAUGGACAGAACAAAGGGCAGCGAAACCGCGAGGUUAAGCCAAUCCCACAAAUCUGUUCUCAGUUCGGAUCGCAGUCUGCAACUCGACUGCGUGAAGCUGGAAUCGCUAGUAAUCGCGGAUCAGCAUGCCGCGGUGAAUACGUUCCCGGGCCUUGUACACACCGCCCGUCACACCACGAGAGUUUGUAACACCCGAAGUCGGUGAGGUAACCUUUUAGGAGCCAGCCGCCGAAGGUGGGACAGAUGAUUGGGGUGAAGUCGUAACAAGGUAGCCGUAUCGGAAGGUGCGGCUGGAUCACCUCCUUUCUA
5S rRNA b 112 NA UGGUGGCGAUAGCGAAGAGGUCACACCCGUUCCCAUACCGAACACGGAAGUUAAGCUCUUCAGCGCCGAUGGUAGUCGGGGGUUUCCCCCUGUGAGAGUAGGACGCCGCCAA
mRNA 7 9 NA UUGUUUUAA
Experimental Data

Method: ELECTRON MICROSCOPY

Deposited Date: 2024-07-02
Deposition Author(s): Gersteuer, F. , Wilson, D.N.