8FMW
The structure of a hibernating ribosome in the lyme disease pathogen
PDB DOI: 10.2210/pdb8fmw/pdb
Classification: RIBOSOME Organism(s): Gentiana Crassicaulis
Deposited: 2022-12-25 Deposition Author(s): Agrawal, E.K. , Agrawal, R.K. , Banavali, N.K. , Keshavan, P. , Koripella, R.K. , Lin, Y.P. , Majumdar, S. , Manjari, S.R. , Marcinkiewicz, A.L. , Sharma, M.R.
Experimental Data Snapshot
Method: ELECTRON MICROSCOPY Resolution: 2.86 Å
The structure of a hibernating ribosome in the lyme disease pathogen
Agrawal, E.K. , Agrawal, R.K. , Banavali, N.K. , Keshavan, P. , Koripella, R.K. , Lin, Y.P. , Majumdar, S. , Manjari, S.R. , Marcinkiewicz, A.L. , Sharma, M.R.
Primary Citation of Related Structures: 8FMW
| Nucleic Acids / Hybrid | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 16S ribosomal RNA | a | 1529 | NA | AAAUAACGAAGAGUUUGAUCCUGGCUUAGAACUAACGCUGGCAGUGCGUCUUAAGCAUGCAAGUCAAACGGGAUGUAGCAAUACAUUCAGUGGCGAACGGGUGAGUAACGCGUGGAUGAUCUACCUAUGAGAUGGGGAUAACUAUUAGAAAUAGUAGCUAAUACCGAAUAAGGUCAGUUAAUUUGUUAAUUGAUGAAAGGAAGCCUUUAAAGCUUCGCUUGUAGAUGAGUCUGCGUCUUAUUAGCUAGUUGGUAGGGUAAAUGCCUACCAAGGCAAUGAUAAGUAACCGGCCUGAGAGGGUGAACGGUCACACUGGAACUGAGAUACGGUCCAGACUCCUACGGGAGGCAGCAGCUAAGAAUCUUCCGCAAUGGGCGAAAGCCUGACGGAGCGACACUGCGUGAAUGAAGAAGGUCGAAAGAUUGUAAAAUUCUUUUAUAAAUGAGGAAUAAGCUUUGUAGGAAAUGACAAAGUGAUGACGUUAAUUUAUGAAUAAGCCCCGGCUAAUUACGUGCCAGCAGCCGCGGUAAUACGUAAGGGGCGAGCGUUGUUCGGGAUUAUUGGGCGUAAAGGGUGAGUAGGCGGAUAUAUAAGUCUAUGCAUAAAAUACCACAGCUCAACUGUGGACCUAUGUUGGAAACUAUAUGUCUAGAGUCUGAUAGAGGAAGUUAGAAUUUCUGGUGUAAGGGUGGAAUCUGUUGAUAUCAGAAAGAAUACCGGAGGCGAAGGCGAACUUCUGGGUCAAGACUGACGCUGAGUCACGAAAGCGUAGGGAGCAAACAGGAUUAGAUACCCUGGUAGUCUACGCUGUAAACGAUGCACACUUGGUGUUAACUAAAAGUUAGUACCGAAGCUAACGUGUUAAGUGUGCCGCCUGGGGAGUAUGCUCGCAAGAGUGAAACUCAAAGGAAUUGACGGGGGCCCGCACAAGCGGUGGAGCAUGUGGUUUAAUUCGAUGAUACGCGAGGAACCUUACCAGGGCUUGACAUAUAUAGGAUAUAGUUAGAGAUAAUUAUUCCCCGUUUGGGGUCUAUAUACAGGUGCUGCAUGGUUGUCGUCAGCUCGUGCUGUGAGGUGUUGGGUUAAGUCCCGCAACGAGCGCAACCCUUGUUAUCUGUUACCAGCAUGUAAUGGUGGGGACUCAGAUAAGACUGCCGGUGAUAAGUCGGAGGAAGGUGAGGAUGACGUCAAAUCAUCAUGGCCCUUAUGUCCUGGGCUACACACGUGCUACAAUGGCCUGUACAAAGCGAAGCGAAACAGUGAUGUGAAGCAAAACGCAUAAAGCAGGUCUCAGUCCGGAUUGAAGUCUGAAACUCGACUUCAUGAAGUUGGAAUCGCUAGUAAUCGUAUAUCAGAAUGAUACGGUGAAUACGUUCUCGGGCCUUGUACACACCGCCCGUCACACCACCCGAGUUGAGGAUACCCGAAGCUAUUAUUCUAACCCGUAAGGGAGGAAGGUAUUUAAGGUAUGUUUAGUGAGGGGGGUGAAGUCGUAACAAGGUAGCCGUACUGGAAAGUGCGGCUGGAUC |
| E-site t-RNA | x | 76 | NA | GUCGCUGUAGCUCAGUUGGUAGAGCAUAGGACUGAAAAUCCUUGUGUCAGGAGUUCGAUUCUCCUCGGCGACACCA |
| Proteins | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 30S ribosomal protein S11 | K | 117 | Gentiana Crassicaulis | KRNIGEGNVYIQATFNNTIVTVSDIKGNALAWASAGGMGFKGAKKSTPYAAQITAESALNKVRDFGINYVHVYIKGPGIGRESAIRAIGSIGMTVKSISDITPIPHNGCRPKKTRRV |
| 30S ribosomal protein S12 | L | 124 | Gentiana Crassicaulis | MPTINQLIRKPRKSQTEKTASPALQNCPQRRGICTRVMTVTPKKPNSALRKVARVRLSNGFEVTAYIPGIGHNLQEHSVVLIRGGRVKDLPGVRYHIVRGAKDTLGVNNRKKGRSKYGTKKPKA |
| 30S ribosomal protein S13 | M | 114 | Gentiana Crassicaulis | MARISGIDLPNNKQLKIALTSIYGIGRTRALEVCNKSSISPSKIAKDLDNDEVNRLRKVIESDYIVEGKLRSEVAMSIKRLMDIACYRGVRHRKGLPLRGQRTKTNARTRKGKR |
| 30S ribosomal protein S14 type Z | N | 60 | Gentiana Crassicaulis | AKKSMIIRALRKPKYKTRQNNRCKLCGRPRGYLRDFCMCRICFRKYASEGLIPGVSKSSW |
| 30S ribosomal protein S15 | O | 88 | Gentiana Crassicaulis | MIDKKQKQKIVSEFGKNESDTGSVGVQIALITGRIKYLTEHLKINKKDHSSKRGLLKLVGQRRSLLRYYQKKDLEAYRMLISKLGLRK |
| 30S ribosomal protein S16 | P | 83 | Gentiana Crassicaulis | MSVKIRLKRMGAKKRPYYRVVVMNSTSPRDGRAIEELGYYHPVEKQNQIKIKEDRMKDWISKGAILSDTVKMLLNKNNLNAKS |
| 30S ribosomal protein S17 | Q | 82 | Gentiana Crassicaulis | RENKKELIGKVVSDKMSKTIVVEIVQRKMHPIYHKYLKVSKKVKAHDEKEVSKVGDKVKIIEVRPISKDKRWSLVEVLEKLK |
| 30S ribosomal protein S18 | R | 63 | Gentiana Crassicaulis | SCKFCDSGKHPDYKDFDFLKKFITEQGKILPKRITGTSAKHQRRLALEIKRARYMALLPFVKK |
| 30S ribosomal protein S19 | S | 84 | Gentiana Crassicaulis | ARSIKKGPFIEKSLYQKVLSSFGSEKRVVIKTYSRSSTIIPEMVSLTISVYNGKTFIPIYITEDLVGHKLGEFSPTRIFRGHAK |
| 30S ribosomal protein S20 | T | 85 | Gentiana Crassicaulis | MRKNASALKRSRQNLKRKIRNVSVKSELKTIEKRCINMIKAGKKDEAIEFFKFVAKKLDTAARKRIIHKNKAARKKSRLNVLLLK |
| 30S ribosomal protein S3 | C | 206 | Gentiana Crassicaulis | GQKVHPYSLRVKINKDWKSKWYFDKKLYSAILHEDFLIRREIMKFLKGIKFDISDIEIIRNNPQKVTVVIVTPRPGSVIGLKGSNLEKIGQLLTKKISKKISIKIKEVKRPELDAQIIANGIAKQVENRASYRKVLKSSLSTSMLKGAQGLKIKIAGRLGGAEIARSFEVKEGRVPLHTLRANIDYGFSEAQTTYGIIGVKVWLFK |
| 30S ribosomal protein S21 | U | 69 | Gentiana Crassicaulis | MVTVTVDKNENLEKALKRFKRMIEKEAIIREWKRREYYEKPSTIRVKKEKAFKRKQAKKVRKLKQKTNR |
| 30S ribosomal protein bS22 | V | 28 | Gentiana Crassicaulis | MPCGRKRKLKKISTHKRKKKRRKNRHKK |
| Ribosomal subunit interface protein | W | 97 | Gentiana Crassicaulis | MEPKIQTVNYSLNENEKNFILKKLEKFDTHIKKHIDNLKITIKKEHELFKLDAHIHFNWGKIIHIREDGKILLNLIDSAIARLYKTATKEKEKKNNK |
| 50S ribosomal protein L29 | AA | 65 | Gentiana Crassicaulis | MKNFKNFTLEDMKAKRLELKKEYLDLRFKSVVGHVENPLKKREIRRDIARLNTMICEYELGIRKV |
| 50S ribosomal protein uL30 | AB | 100 | Gentiana Crassicaulis | IKRKLRLQLKKARFNASRSRSKNKCFIKRMENNRKIISKNNINVQVFLVRSLIGKLNKKVKVLKALGLNKIGDKKVHFLNESIKGMLNETINMILLSEVM |
| 50S ribosomal protein L31 type B | AC | 81 | Gentiana Crassicaulis | MRKDIHPKNNLVVFKDGSNGAMFLTKSTLNSKETIKYIDGKEYPLVTVEITSKSHPFYTGQQKFVDAAGRIDKFNKRYKKS |
| 50S ribosomal protein L32 | AD | 59 | Gentiana Crassicaulis | AVPKFKPSKSRSRTRRSINMRKKIPQFQECSNCGNLGVRHRICLKCGYYRNNQYLEIGL |
| 50S ribosomal protein L33 | AE | 51 | Gentiana Crassicaulis | AVELISLICEETGIRNYTTTKNRRNKQEKLELMKYCPKLRKHTLHKEGKIK |
| 50S ribosomal protein L34 | AF | 50 | Gentiana Crassicaulis | MKRTYQPSRVKRNRKFGFRARMKTKGGRLILSRRRAKGRMKLTVSDEKKK |
| 30S ribosomal protein S4 | D | 208 | Gentiana Crassicaulis | MNRKQIAKGKLVRRFGINIFEQPKYDKILKKKPHPPGMHGKARKAKITEYGKQLIEKQKIKFTYGVSERQLTNTFKEAKKHHGVTGDNLLSILERRIDNVVYRAGFAISRAHARQIVSHGIIILNGRRVTIPSIILRANDQIQIKEKDSLKKLIRSNIEKTSSLRNLPTWIEVNADDLNIKVKHAPSRDEIPTLANEQMVVEYYSKRA |
| 50S ribosomal protein L35 | AG | 66 | Gentiana Crassicaulis | MANKMKTRKSAKKRYSFTVNGKVKYKKQNLRHILTKKSSKRKRNLRKSGNLSCFEVKRIKTLLPYG |
| 50S ribosomal protein L36 | AH | 37 | Gentiana Crassicaulis | MKVRVSVKPICEKCKVIKRKGVLRIICDNLKHKQRQK |
| 50S ribosomal protein bL38 | AI | 46 | Gentiana Crassicaulis | RVGSKELISRWGGKIIMKSKFENGKIKHYAECQTSKNTARKPRDLF |
| 50S ribosomal protein L10 | AJ | 162 | Gentiana Crassicaulis | MSAKINAKKLEMFDLLKQFIDSKQNLFFLDYRGLNVAQLTELRNKIEGEHGSLKVVKNNIMKMVLKEKNINVVDSCLVGPTVVVTALEEANVIAKIFYDFVKSSTLKVKGGFVLGEFYDEAKVQAYSKLPTKKESISLFASVLKAPVSKLARTLKALADVKN |
| 50S ribosomal protein L11 | AK | 139 | Gentiana Crassicaulis | KAISWIKLQVPAAQAAPGAKIGQALGPHGVSGPQFVKEFNERTAKMDPGIVVPVIITVYSDKSFSFIVKTPPASILIKKAIGIESGSKKSNTDKVGTISKEKLMEIARIKMSDLNAKSESAAFKIIAGSARSMGVEVEK |
| 50S ribosomal protein L13 | AL | 145 | Gentiana Crassicaulis | NKITNNDTIWIKPKTVEKKWYVIDAADRILGKVAVDVVKILRGKHKAYYTPHQDLGDNVIIINASKVKLTGKKYQQKLYYRHSRYPGGLYSDTFRTLSERKPCAPLEIAIKGMLPKGPLGRNLFRNLKVFSGSEHTLKAQNPIKL |
| 50S ribosomal protein L14 | AM | 122 | Gentiana Crassicaulis | MIQMQTYLTIADNTGGKVAQCIKVLGGSKRRYAKIGDIITIVVKQAIPNSSVKKGDVYKAVIVRTSKEVRRKNGTYVRFDDNACVILDANLSPRGKRVFGPVARELRDANFMKVVSLASEVI |
| 50S ribosomal protein L15 | AN | 145 | Gentiana Crassicaulis | MFNLLKPKGASKRRKIVGRGPGSGLGKTSGRGQKGQKARNTSPRLGFEGGQTPLYRRLPRKGFSNSDYKLEYAIVNLGDIDKKFKDGQVVNYDTLLENKLIKKKNKKIKILSNGKLTKKVSFEVSKISKSAESLVIKIGCTIQLV |
| 50S ribosomal protein L16 | AO | 138 | Gentiana Crassicaulis | MLSPKKVKYRKKQRGRLSGEAQKGNKISFGEYGLVSLETNFITARQIEAARIAMTRKIKRGGRVWIRIFPDIPYTKKPAETRMGKGKGGVDHWNAPVKLGTVMFEMSGVVEELAQEAMSLASSKLPVKTMFVVRRDLR |
| 50S ribosomal protein L17 | AP | 121 | Gentiana Crassicaulis | MKTKLGFNRLSRKSSHRRALLKNMVISFFKHEKISSTKTKLFEVKRFAERLITRAKVDTVHNRRELSKFIHDKHILNKLFTKISPVFRQRSGGYTRMIKLGKRYGDAAEMAILELVEKPLK |
| 30S ribosomal protein S5 | E | 158 | Gentiana Crassicaulis | RKQIEKLISLNRVTKVVKGGRRFSFAAFMVVGDGEGHVGWGFGKANDASDAIKKSLTSARKNLRFVPIRKGTLPHEVIGCFKKAKVLIKPATHGTGVIAGGPVRAVMEALGVHDILSKSLGSNNSMNVVKATFKAFDLVLNAEKVAEMRGKTLKTLWG |
| 50S ribosomal protein L18 | AQ | 119 | Gentiana Crassicaulis | MKKIKEAEQRKLRRKKRIKDKIGRGVASRPRITVFKSNRYFYAQVIDDSKGHTIASISTIEKSLNLGKNIDDVKKLGEVLAKRLKEKNINNLIFDRNGYKYHGLIASFATSLREFGINI |
| 50S ribosomal protein L19 | AR | 117 | Gentiana Crassicaulis | MDLIRKIEAQNKKNEAFVFNVGDTVRVVYKIIEGSNERLQSFEGIVISFQNKGIGKTFLIRKISSGIGVEKIFPVYSPIIEKVEVLRRGKVRRAKLYYMRNRIGKAAMKIKERLTIK |
| 50S ribosomal protein L20 | AS | 114 | Gentiana Crassicaulis | ARAKNGTVHVARRKRILKKTKGFWGTKKSNYKKAKDTLRKGMMYATRDRKVRKRDFRRLWISRISAALSDTGVTYSRFIEGLLKSNIKINRKILSNLAIEDVEAFKKIVLEIRR |
| 50S ribosomal protein L21 | AT | 103 | Gentiana Crassicaulis | MYALVEINGKQYKAIEGEFLKIDKISPVEKDKLEFNSVLLINKDGEVKIGKPYVVNSLIRCTYKEDKKDKKVVSYRYRRRKSSERKVGHRQTYSYILVDEIVF |
| 50S ribosomal protein L22 | AU | 115 | Gentiana Crassicaulis | LVNRRYTAKGKNLPSSPKKVRPIADNIRGESYIKAIAVLCSMPNKGAKLLEKVVKSAASNAMYHNKNLSEDMIFVKTVMVDDGRRRKKIWPRARGRADRLVNRNCHIFVEVDEKK |
| 50S ribosomal protein L23 | AV | 98 | Gentiana Crassicaulis | MKAYDIIVSPMLTEKTNTQRESINVYVFKVNKRANKKEVGAAIKELFNVTPVSCNLLNIKSKAKVVVSRKGYPIGKGKTSSWKKAYVYLKKEDKIDIF |
| 50S ribosomal protein L24 | AW | 101 | Gentiana Crassicaulis | MKTKLKIGDSVKILSGKDRGRIGKIASINRKKNKVIVESCNMVKKVIKARTPQEKGRIIDKEAAIDISNVMIFVKGTSSRLGIRFENNEKIRYLKKNGQRI |
| 50S ribosomal protein L25 | AX | 181 | Gentiana Crassicaulis | ENSRVLSCQYRSSFGSSNARRIRAKSEIPAVVYGQGKDVSHLRIKSSEFNKKFAKFTDNTVLILDDGKLERCVFVKDAAENIASKLIYHIDFYEVDRNVELEKYVPIKLIGASIGVKEGGILTVLKEQVKVRSLPLDLPEFIELDLTPVNKGDSVLLKDLVLPSNVRLAENDENLEVVIIK |
| 50S ribosomal protein L27 | AY | 74 | Gentiana Crassicaulis | GSSKNGRDSISKRLGVKRSGGQFVKAGEIIVRQRGTKFHKGKNVGLGRDYTIFALSSGKVEFKTLKGRKYVSIV |
| 50S ribosomal protein L28 | AZ | 91 | Gentiana Crassicaulis | ARKCEITGKKTMFGNNVPRKGLAKKKGGAGQHIGVKTKRTFKVNLINKKFFIPNLGRSVSIKVSANALRSISKIGLDAFLKKNCKKIENFL |
| 30S ribosomal protein S6 | F | 97 | Gentiana Crassicaulis | MIKRYEACFLFKSEEIEYKGSLEEVKKSLEFFGATDVVSNFIGERALEYPIKKQARGRYEIIEFSMEGNNLKEFESRLKLIRNLLRYMILVKIVRKI |
| 30S ribosomal protein S7 | G | 157 | Gentiana Crassicaulis | MSRKNKKIKKKVFVDTRYNSRIVAKFANRMMYDGKKSISESILYSSIDLLADKLEESDKMAVFYKALDNIKPLVEVRSRRVGGATYQVPVEVREERREALAMKWIIFAARKSSGRSMKEKLSNELLNAYNSTGAAFKKKEDTHRMAEANKAFTHYRW |
| 30S ribosomal protein S8 | H | 132 | Gentiana Crassicaulis | MAITYSIGDMLTKLRNASRVGHGSVDLKMSNMNKSILNILKEEGYIKDFNFLEKKGIAFIRVLLKYDNKRNPVINKIDAISTPGRKIYSSYRNMPRIKNGYGILIISSSQGVITGKEAKDKKIGGELICSVW |
| 30S ribosomal protein S9 | I | 131 | Gentiana Crassicaulis | FSNVNLSMGTGRRKSSVARVYIREGSGNIKVNNRDFDSYIQLENLRTMALSPLVLTNTLGKYDLYINVYGGGISGQSGAIRHGISRALFKLDESNKMILRSNGFLTRDSRKVERKKFGQKKARKSFQFSKR |
| 30S ribosomal protein S10 | J | 102 | Gentiana Crassicaulis | IAKDKIRVRLFSFDVKILDQSAESIVKAVQKAKAQIKGPIPLPTKIKKYTVLRSPHVNKKSREQFEMRTHKRLIDILEPTSALMDSLMKLELPAGVEVDIKQ |
Experimental Data
Method: ELECTRON MICROSCOPY
Deposited Date: 2022-12-25 Deposition Author(s): Agrawal, E.K. , Agrawal, R.K. , Banavali, N.K. , Keshavan, P. , Koripella, R.K. , Lin, Y.P. , Majumdar, S. , Manjari, S.R. , Marcinkiewicz, A.L. , Sharma, M.R.