Cryo-em structure of the vibrio natrigens 50s ribosomal subunit in complex with the proline-rich antimicrobial peptide bac5(1-17).
PDB DOI: 10.2210/pdb9h91/pdb
Classification: RIBOSOME Organism(s): Vibrio Natriegens , Synthetic Construct
Deposited: 2024-10-29 Deposition Author(s): Bange, G. , Beckert, B. , Koller, T.O. , Lepak, A. , Morici, M. , Raulf, K.F. , Wilson, D.N.
Cryo-em structure of the vibrio natrigens 50s ribosomal subunit in complex with the proline-rich antimicrobial peptide bac5(1-17).
Bange, G. , Beckert, B. , Koller, T.O. , Lepak, A. , Morici, M. , Raulf, K.F. , Wilson, D.N.
Primary Citation of Related Structures: 9H91
Proteins | ||||
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Molecule | Chains | Sequence Length | Organism | Sequence |
50S ribosomal protein L32 | 0 | 56 | Vibrio Natriegens , Synthetic Construct | MAVQKNRKTRSKRGMRRSHDALTTAALSVDATSGETHLRHNVTAEGYYRGKKVINK |
50S ribosomal protein L4 | E | 200 | Vibrio Natriegens , Synthetic Construct | MELMVKGADALTVSETTFGREFNEALVHQVVVAYAAGARQGTRAQKTRSEVSGGGAKPWRQKGTGRARAGTIRSPIWRSGGVTFAAKPQDHSQKVNKKMYRGAMKSILSELVRQERLIVVDNFSVEAPKTKELVAKLKELELTDALIVTSEVDENLFLAARNLYKVDARDVAGIDPVSLIAFDKVVMTAEAVKQVEEMLA |
50S ribosomal protein L6 | G | 177 | Vibrio Natriegens , Synthetic Construct | MSRVAKAPVAIPAGVEVKLNGQEITVKGAKGELTRVLNDAVVIAQEENNLTFGPKEGVVNAWAQAGTARALVNNMVVGVTEGFTKKLTLKGVGYRAAIKGNAVGLTLGFSHPVEHELPAGIKAECPSQTEIVITGADKQLVGQVAADIRSYRQPEPYKGKGVRYADENVRTKEAKKK |
Large ribosomal subunit protein bL9 | H | 150 | Vibrio Natriegens , Synthetic Construct | MQVILLDKIGNLGGLGDTVNVKSGYARNFLIPQGKAVMATKGNVEMFEARRAELEAKVAEQLTAAEARAEKVNALEAVVIASKAGDEGKLFGSIGTRDIADAITAAGVEVAKSEVRLPEGALRTTGEFEISVQLHSEVFATVNLQVVAAE |
50S ribosomal protein L13 | J | 142 | Vibrio Natriegens , Synthetic Construct | MKTFVAKPETVKRDWYVVDAEGKTLGRLASEIASRLRGKHKAEYTPHVDAGDYIIVINAEKVAVTGNKAKDKVYYRHSEFPGGLKSITFEKLIDRKPEMVLELAVKGMLPRGPLGRAMYRKLKVYAGAEHNHVAQQPQVLDI |
50S ribosomal protein L14 | K | 123 | Vibrio Natriegens , Synthetic Construct | MIQMQSMLDAADNSGARSVMCIKVLGGSHRRYAHIGDVIKVTVKEAIPRGKVKKGDVLKAVVVRTRKGVRRPDGSVIRFDRNACVLLNDNTEQPIGTRIFGPVTRELRGDKFMKIVSLAPEVL |
50S ribosomal protein L15 | L | 144 | Vibrio Natriegens , Synthetic Construct | MRLNTLAPAAGAKTSAKRVGRGIGSGLGKTGGRGHKGQKSRSGGSVRPGFEGGQMPLKQRLPKFGFTSRKSLVSAEVRLAELAKVSGDVVDLNSLKAANIITKNIEFVKVVLSGEINKAVTVKGLRVTKGAKAAIEAAGGKIEE |
50S ribosomal protein L16 | M | 136 | Vibrio Natriegens , Synthetic Construct | MLQPKRTKFRKVQTGRNRGLAKGTDVSFGEFGLKAVGRGRLTARQIEAARRAMTRHVKRQGKIWIRVFPDKPITEKPLEVRQGKGKGNVEYWVAQIQPGKVMYEMGGVPEELAREAFRLAARKLPFKTTFVTKQVM |
50S ribosomal protein L17 | N | 126 | Vibrio Natriegens , Synthetic Construct | MRHRKSGRQLNRNSSHRKAMFSNMASSLVRHEVIKTTLPKAKELRRVVEPLITLAKTDSVANRRLAFARTRDNEVVAKLFNELGPRFAARQGGYTRILKAGFRAGDKAPMAYIELVDRPAAEEAAE |
50S ribosomal protein L18 | O | 117 | Vibrio Natriegens , Synthetic Construct | MDKKASRIRRATRARRKIAELGATRLVVHRTPRHVYAQVIAANGSEVIAAASTVEKAIREQVKYTGNVDAAKAVGKAVAERALEKGVTAVAFDRSGFQYHGRVAALAESAREAGLKF |
50S ribosomal protein L19 | P | 117 | Vibrio Natriegens , Synthetic Construct | MSNIIKALEEEQMKSDLPKFAPGDTVVVQVKVKEGDRERLQAFEGVVIAIRNRGLHSAFTVRKISNGEGVERTFQTHSPIVDSIEVKRRGAVRRAKLYYLRERSGKSARIKEKLAKK |
50S ribosomal protein L33 | 1 | 56 | Vibrio Natriegens , Synthetic Construct | MAKKGVREKIRLVSSAGTGHFYTTDKNKRNMPGKFEIKKFDPVVRQHVMYKEAKIK |
50S ribosomal protein L20 | Q | 117 | Vibrio Natriegens , Synthetic Construct | MPRVKRGVQARARHKKVLKQAKGYYGARSRVYRVAFQAVTKAGQYAYRDRRAKKRQFRQLWIARINAASRQNGLSYSRFINGLKKASIEIDRKILADIAVFDKAAFAVLVEKAKAAL |
50S ribosomal protein L21 | R | 103 | Vibrio Natriegens , Synthetic Construct | MYAVFQSGGKQHRVSEGQTLRLEKLDVETGATVEFDKVLLVANGEDIKVGAPLVEGGKIVAEVVQHGRGDKVKIVKFRRRKHSRKQQGHRQWFTEVKITGINA |
50S ribosomal protein L22 | S | 110 | Vibrio Natriegens , Synthetic Construct | MEAIAKHNFARISPQKARLVADQIRGKSVDQALEILTFSNKKAAELVKKVLESAIANAEHNEGADIDDLNVAKIFVDEGPTMKRIMPRAKGRADRILKRSSHITVVVADR |
50S ribosomal protein L23 | T | 100 | Vibrio Natriegens , Synthetic Construct | MITEERILKVLRAPHISEKATMAAEKANTIVFKVAKDATKKEIKAAVEKLFEVEVKSVNTLITKGKTKRQGLRQGRRSDVKKAYVTLKEGQDLDFVGGAE |
50S ribosomal protein L24 | U | 105 | Vibrio Natriegens , Synthetic Construct | MAAKIRRNDEVIVLAGKDKGKKGKVTKVLATGKVIVEGINLVKKHQKPVPALGQQGGIVEQEAAIDASNVAIFNAATGKADRIGFRFEDGKKVRFFKSNGETVSN |
50S ribosomal protein L25 | V | 92 | Vibrio Natriegens , Synthetic Construct | MKFEAVVRTELGKGASRRLRHAGKFPAVVYGGEEAAVAIVLNHDDIVNQMDKPEFYEGIVLVIDGKEVSVKPQDVQRHAFKPKVEHMDFIRI |
50S ribosomal protein L27 | W | 85 | Vibrio Natriegens , Synthetic Construct | MAHKKAGGSTRNGRDSESKRLGVKRFGGESVLAGNIIVRQRGTKFHAGNNVGIGKDHTLFALTEGKVKFEVKGPKNRKFVSIEAE |
50S ribosomal protein L28 | X | 78 | Vibrio Natriegens , Synthetic Construct | MSRVCQVTGKRPVTGNNRSHARNATKRRFLPNLQTHRFWVESEKRFVKLRLSAKGMRIIDKKGIDTVLADMRARGENV |
50S ribosomal protein L29 | Y | 63 | Vibrio Natriegens , Synthetic Construct | MKAQDLREKSVEELNAELMNLLREQFNLRMQAATGQLQQTHTLKAVRRDIARVKTVLTEKAGA |
50S ribosomal protein L30 | Z | 58 | Vibrio Natriegens , Synthetic Construct | MATIKVTQTKSSIGRLPKHKATLRGLGLRKINHTVELEDTPCVRGMINKVYYMVKVEE |
50S ribosomal protein L34 | 2 | 44 | Vibrio Natriegens , Synthetic Construct | MKRTFQPTVLKRKRTHGFRARMATKNGRKVINARRAKGRARLSK |
50S ribosomal protein L35 | 3 | 64 | Vibrio Natriegens , Synthetic Construct | MPKMKTNKGAAKRFKKTAGGIKYKHATKRHILTKRTTKNKRQLRPNAILPKCEVAAVIRMLPYA |
50S ribosomal protein L36 | 4 | 37 | Vibrio Natriegens , Synthetic Construct | MKVRASVKKICRNCKVIKRNGVVRVICSEPKHKQRQG |
Cathelicidin-2 | 9 | 17 | Vibrio Natriegens , Synthetic Construct | RFRPPIRRPPIRPPFYP |
50S ribosomal protein L2 | C | 274 | Vibrio Natriegens , Synthetic Construct | MAIVKCKPTSPGRRHVVKVVNADLHKGKPYAPLLEKNSKNGGRNNNGRITVRHIGGGHKHHYRVIDFKRTKDGIPATVERLEYDPNRSANIALVLYKDGERRYILAPKGVVAGDVVQSGVDAPIKAGNTLPMRNIPVGSTVHNVELKPGKGGQLARSAGAYAQIVARDGTYVTIRLRSGEMRKVLSEGRATIGEVGNSEHMLRELGKAGATRWRGVRPTVRGVVMNPVDHPHGGGEGRTSGGRHPVSPWGMPTKGYKTRKNKRTDKYIVRRRNK |
50S ribosomal protein L3 | D | 209 | Vibrio Natriegens , Synthetic Construct | MIGLIGRKVGMTRVFTEDGVSIPVTVVEVEANRVSQVKTLETDGYAAIQVTAGAKKANRVNKAEAGHFAKAGVEAGRGLWEFRLENGEEFEVGSELTVELFNETKKVDVTGTSKGKGFQGAVKRWNFRTQDMTHGNSLSHRAPGSIGQCQTPGRVFKGKKMAGHMGAERVTTQNLEIVRVDAERNLLLIKGAVPGATGGNVIVKPAVKA |
Nucleic Acids / Hybrid | ||||
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Molecule | Chains | Sequence Length | Organism | Sequence |
23S ribosomal RNA | a | 2721 | NA | GGUUAAGUGACUAAGCGUACACGGUGGAUGCCUUGGCAGUCAGAGGCGAUGAAGGACGUAUUAACUUGCGAUAAGCCCAGAUUAGGCAGUAAAAGCCACUUGAGUCUGGGAUUUCCGAAUGGGGAAACCCACUUACAUAAGUAAGUAUCCUGUUGUGAAUACAUAGCAACAGGAGGCGAACCGGGGGAACUGAAACAUCUAAGUACCCCGAGGAAAAGAAAUCAACCGAGAUUCCGAAAGUAGCGGCGAGCGAAAUUGGACUAGCCCUUAAGCUUUACACACGUUAGACGAACGGUCUGGAAAGGCCGACGAUACAGGGUGAUAGUCCCGUAGUUGACGAUGUGUGUUCAGUGAAAUCGAGUAGGGCGGGACACGUGAUAUCCUGUCUGAAUAUGGGGGGACCAUCCUCCAAGGCUAAAUACUACUGACUGACCGAUAGUGAACCAGUACCGUGAGGGAAAGGCGAAAAGAACCCCUGUGAGGGGAGUGAAAUAGAACCUGAAACCGUGUACGUACAAGCAGUAGGAGCAGGCUUGUCCUGUGACUGCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUAUUCAGUGGCAAGGUUAACCAUCUAGGGGAGCCGUAGGGAAACCGAGUCUUAACUGGGCGUUCAGUCUCUGGAUAUAGACCCGAAACCAGGUGAUCUAGCCAUGGGCAGGUUGAAGGUUGAGUAACAUCAACUGGAGGACCGAACCGACUAAUGUUGAAAAAUUAGCGGAUGACUUGUGGCUAGGGGUGAAAGGCCAAUCAAACCUGGAGAUAGCUGGUUCUCCCCGAAAGCUAUUUAGGUAGCGCCUCGGACGAAUACUACUGGGGGUAGAGCACUGUUAAGGCUAGGCAACCCUUUGCAAACUCCGAAUACCAGUAAGUACUAUCCGGGAGACACACGGCGGGUGCUAACGUCCGUCGUGGAGAGGGAAACAACCCAGACCGCCAGCUAAGGUCCCAAAUUACUACUAAGUGGGAAACGAUGUGGGAAGGCUCAGACAGAGUCGGCCUGCGCGGAAGAUGUAACGGGGCUAAGUAGUAAACCGAAGCUGCGGCAAUACUAGUAUUGGGUAGGGGAGCGUUCUGUAAGCGGUUGAAGGUGUGUGGUAACGCAUGCUGGACGUAUCAGAAGUGCGAAUGCUGACAUGAGUAACGAUAAAGGGGGUGAAAAACCUCCUCGCCGGAAGACCAAGGGUUCCUGUCCAACGUUAAUCGGGGCAGGGUAAGUCGACCCCUAAGGCGAGGCCGAAAGGCGUAGUCGAUGGGAAACGGGUUAAUAUUCCCGUACUUCUUACAAUUGCGAUGGGGGGACGGAGAAGGCUAGGUGGGCCUGGCGACGGUUGUCCAGGUUCAAGUGCGUAGGCUUGAGAGUUAGGUAAAUCCGGCUCUCUCUAAGGCUGAGACACGACGUCGAGCACCUACGGGUGUGAAGUCAUUGAUGCCAUGCUUCCAGGAAAAGCCUCUAAGCUUCAGAUUGUAAGGAAUCGUACCCCAAACCGACACAGGUGGUCGGGUAGAGAAUACCAAGGCGCUUGAGAGAACUCGGGUGAAGGAACUAGGCAAAAUGGUACCGUAACUUCGGGAGAAGGUACGCUCUCGACGGUGAAGUCCCUCGCGGAUGGAGCUAUUGAGAGUCGCAGAUACCAGGUGGCUGCAACUGUUUAUUAAAAACACAGCACUGUGCAAAAUCGUAAGAUGACGUAUACGGUGUGACGCCUGCCCGGUGCCGGAAGGUUAAUUGAUGGGGUUAGACUUCGGUCGAAGCUCUUGAUCGAAGCCCCGGUAAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAAAUUCCUUGUCGGGUAAGUUCCGACCUGCACGAAUGGCGUAAUGAUGGCCACGCUGUCUCCACCCGAGACUCAGUGAAAUUGAAAUCGCUGUGAAGAUGCAGUGUACCCGCGGCUAGACGGAAAGACCCCGUGAACCUUUACUACAGCUUGGCACUGAACAUUGACCCUGUGUUGAUGUUCUAACGUUGACCCCUUAUCGGGGUUGCGGACAGUGCCUGGUGGGUAGUUUGACUGGGGCGGUCUCCUCCCAAAGCGUAACGGAGGAGCACGAAGGUGGGCUAAUCACGGUUCGUGAGGUUAGUGCAAUGGCAUAAGCCCGCUUGACUGCGAGAAUGACAAUUCGAGCAGGUGCGAAAGCAGGUCAUAGUGAUCCGGUGGUUCUGAAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUUCAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGUCGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUCGUGAGACAGUUCGGUCCCUAUCUGCCGUGGGCGUUGGAGAAUUGAAAGGGGCUGCUCCUAGUACGAGAGGACCGGAGUGGACGAACCUCUGGUGUUCGGGUUGUGUCGCCAGACGCAUUGCCCGGUAGCUAAGUUCGGGAUCGAUAACCGCUGAAAGCAUCUAAGCGGGAAGCGAGCCUUGAGAUGAGUUCUCCCUGAUACUUUAAGUAUCCUAAAGGGUUGUCGUAGACUACGACGUUGAUAGGCAGGGUGUGUAAGCGUUGUGAGGCGUUGAGCUAACCUGUACUAAUUGCCCGUGAGGCUUAACC |
5S ribosomal RNA | b | 121 | NA | UGCUUGGCGACCAUAGCGUUUUGGACCCACCUGACUUCCAUUCCGAACUCAGAAGUGAAACGAAAUAGCGCCGAUGGUAGUGUGGGGUUUCCCCAUGUGAGAGUAGGACAUCGCCAGGCAA |
Method: ELECTRON MICROSCOPY
Deposited Date: 2024-10-29 Deposition Author(s): Bange, G. , Beckert, B. , Koller, T.O. , Lepak, A. , Morici, M. , Raulf, K.F. , Wilson, D.N.