3J7A
Cryo-em structure of the plasmodium falciparum 80s ribosome bound to the anti-protozoan drug emetine, small subunit
PDB DOI: 10.2210/pdb3j7a/pdb
Classification: RIBOSOME/INHIBITOR Organism(s): Plasmodium Falciparum
Deposited: 2014-06-03 Deposition Author(s): Bai, X.C. , Baum, J. , Brown, A. , Condron, M. , Fernandez, I.S. , Hanssen, E. , Scheres, S.H.W. , Tan, Y.H. , Wong, W.
Experimental Data Snapshot
Method: ELECTRON MICROSCOPY Resolution: 3.2 Å
Cryo-em structure of the plasmodium falciparum 80s ribosome bound to the anti-protozoan drug emetine, small subunit
Bai, X.C. , Baum, J. , Brown, A. , Condron, M. , Fernandez, I.S. , Hanssen, E. , Scheres, S.H.W. , Tan, Y.H. , Wong, W.
Primary Citation of Related Structures: 3J7A
| Nucleic Acids / Hybrid | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 18S ribosomal RNA | a | 2092 | NA | AACCUGGUUGAUCUUGCCAGUAGUCAUAUGCUUGUCUCAAAGAUUAAGCCAUGCAAGUGAAAGUAUAUAUAUAUUUUAUAUGUAGAAACUGCGAACGGCUCAUUAAAACAGUUAUAGUCUACUUGACAUUUUUAUUAUAAGGAUAACUACGGAAAAGCUGUAGCUAAUACUUGCUUUAUUAUCCUUUGAUUUUUAUCUUUGGAUAAGUAUUUGUUAGGCCUUAUAAGAAAAAAGUUAUUAACUUAAGGAAUUAUAACAAAGAAGUAACACGUAAUAAAUUUAUUUUAUUUAGUGUGUAUCAAUCGAGUUUCUGACCUAUCAGCUUUUGAUGUUAGGGUAUUGGCCUAACAUGGCUAUGACGGGUAACGGGGAAUUAGAGUUCGAUUCCGGAGAGGGAGCCUGAGAAAUAGCUACCACAUCUAAGGAAGGCAGCAGGCGCGUAAAUUACCCAAUUCUAAAGAAGAGAGGUAGUGACAAGAAAUAACAAUGCAAGGCCAAUUUUUGGUUUUGUAAUUGGAAUGGUGGGAAUUUAAAACCUUCCCAGAGUAACAAUUGGAGGGCAAGUCUGGUGCCAGCAGCCGCGGUAAUUCCAGCUCCAAUAGCGUAUAUUAAAAUUGUUGCAGUUAAAACGCUCGUAGUUGAAUUUCAAAGAAUCGAUAUUUUAUUGUAACUAUUCUAGGGGAACUAUUUUAGCUUUUCGCUUUAAUACGCUUCCUCUAUUAUUAUGUUCUUUAAAUAACAAAGAUUCUUUUUAAAAUCCCCACUUUUGCUUUUGCUUUUUUUGGGGAUUUUGUUACUUUGAGUAAAUUAGAGUGUUCAAAGCAAACAGUUAAAGCAUUUACUGUGUUUGAAUACUAUAGCAUGGAAUAACAAAAUUGAACAAGCUAAAAUUUUUUGUUCUUUUUUCUUAUUUUGGCUUAGUUACGAUUAAUAGGAGUAGCUUGGGGACAUUCGUAUUCAGAUGUCAGAGGUGAAAUUCUUAGAUUUUCUGGAGACGAACAACUGCGAAAGCAUUUGUCUAAAAUACUUCCAUUAAUCAAGAACGAAAGUUAAGGGAGUGAAGACGAUCAGAUACCGUCGUAAUCUUAACCAUAAACUAUGCCGACUAGGUGUUGGAUGAAAGUGUUAAAAAUAAAAGUCAUCUUUCGAGGUGACUUUUAGAUUGCUUCCUUCAGUACCUUAUGAGAAAUCAAAGUCUUUGGGUUCUGGGGCGAGUAUUCGCGCAAGCGAGAAAGUUAAAAGAAUUGACGGAAGGGCACCACCAGGCGUGGAGCUUGCGGCUUAAUUUGACUCAACACGGGGAAACUCACUAGUUUAAGACAAGAGUAGGAUUGACAGAUUAAUAGCUCUUUCUUGAUUUCUUGGAUGGUGAUGCAUGGCCGUUUUUAGUUCGUGAAUAUGAUUUGUCUGGUUAAUUCCGAUAACGAACGAGAUCUUAACCUGCUAAUUAGCGGCGAGUACACUAUAUUCUUAUUUGAAAUUGAACAUAGGUAACUAUACAUUUAUUCAGUAAUCAAAUUAGGAUAUUUUUAUUAAAAUAUCCUUUUCCCUGUUCUACUAAUAAUUUGUUUUUUACUCUAUUUCUCUCUUCUUUUAAGAAUGUACUUGCUUGAUUGAAAAGCUUCUUAGAGGAACAUUGUGUGUCUAACACAAGGAAGUUUAAGGCAACAACAGGUCUGUGAUGUCCUUAGAUGAACUAGGCUGCACGCGUGCUACACUGAUAUAUAUAACGAGUUUUUAAAAAUAUGCUUAUAUUUGUAUCUUUGAUGCUUAUAUUUUGCAUACUUUUCCUCCGCCGAAAGGCGUAGGUAAUCUUUAUCAAUAUAUAUCGUGAUGGGGAUAGAUUAUUGCAAUUAUUAAUCUUGAACGAGGAAUGCCUAGUAAGCAUGAUUCAUCAGAUUGUGCUGACUACGUCCCUGCCCUUUGUACACACCGCCCGUCGCUCCUACCGAUUGAAAGAUAUGAUGAAUUGUUUGGACAAGAAAAAUUGAAUUAUAUUCUUUUUUUUCUGGAAAAACCGUAAAUCCUAUCUUUUAAAGGAAGGAGAAGUCGUAACAAGGUUUCCGUAGGUGAACCUGCGGAAGGAUCAUUA |
| tRNA | 7 | 74 | NA | GGGUAAUUGGCGCAGUUGGUUAGCGCGCGGGUCUCAUAAUCCCGAGGUCGUGAGUUCGAUCCUCACAUUACCCA |
| Proteins | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 40S ribosomal protein eS7 | J | 194 | Plasmodium Falciparum | MDAVQKRVLKSNPSDLEKEIAQCLLDIELSSSSDIKTDAKEIKLLSCDLIEVEKLKKKTILIYIPYKIYTTYVRKIQRKLINELEKKTKKYVVLVAKRTILKGKQKNKSFKIIPRSRTLTSVYDSILEDIVSPSEIIGKRISMKADGKRVFKIMLDSKERQRDNIEEKLISFAAVYKKITRRDAVFSLPPTNEK |
| 40S ribosomal protein uS8 | K | 130 | Plasmodium Falciparum | MVRMSVLADCLKTINNAEKRGRRQVLIRPSSKVVIKFLQYMQKKGYIGSFEIVDDHRSGKIVVNLLGRINKCAVISPRYDVKLDEIEKIITSILPSRLFGHLILTTPYGIMDHEEARRKHTGGKVLGFFF |
| 40S ribosomal protein eS8 | L | 218 | Plasmodium Falciparum | MGISRDGRHKLRLTGGKKKIHKKKRKYELGRPPSNTKLGSRQVHVVRGRGRNYKYRAIKLDSGSFSWPTFGISKNTRIIDVVYNASNNELVRTKTLVKNCIVVIDSHPFTTWYENTFGTTLGKKKKEKKEEDNKEENKQEVENNEEAAKDETTKTYGVIKKIGKSKNIDPLLLEQFKQGRVLACISSRPGQCGKADGYIIEGDELLFYKRKMDKKKRN |
| 40S ribosomal protein uS9 | M | 144 | Plasmodium Falciparum | MTTKVKRVQTFGKKKTAVAVATVTNGKGLIKLNGKNLDLVEPYILKTKVYEPLWLIGSGKLKNLDIRIRVKGGGQTSQIYAIRQAIGKGIISYYQKYVDESTKKELKDVLLRYDRSLLVGDTRRCEPKKFGGKGARARYQKSYR |
| 40S ribosomal protein uS10 | N | 118 | Plasmodium Falciparum | MSKLMKGAIDNEKYRLRRIRIALTSKNLRAIEKVCSDIMKGAKEKNLNVSGPVRLPVKTLRITTRKSPCGEGTNTWDRFELRIYKRLIDLYSQCEVVTQMTSINIDPVVEVEVIITDS |
| 40S ribosomal protein eS10 | O | 137 | Plasmodium Falciparum | MDKQTLPHHKYSYIPKQNKKLIYEYLFKEGVIVVEKDAKIPRHPHLNVPNLHIMMTLKSLKSRNYVEEKYNWKHQYFILNNEGIEYLREFLHLPPSIFPATLSKKTVNRAPKMDEDISRDVRQPMGRGRAFDRRPFE |
| 40S ribosomal protein uS11 | P | 151 | Plasmodium Falciparum | MASKKVKTPQPETAIVSGPQPKEGELVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMMAAQDVAARLKELGVTAIHIKLRASGGTKSKTPGPGAQSALRALARSGLKIGRIEDVTPIPTDSTRKKSGRRGRRL |
| 40S ribosomal protein uS12 | Q | 145 | Plasmodium Falciparum | MGSGKPSGLRAARKLRIRRRTQRWADKSYKKSHLGTRWKSNPFRGSSHAKGIVVEKVAIEAKQPNSAYRKCVRVQLIKNGKKITAFVPGDGCLNFIDENDEVLVSGFGRSGHSVGDLPGVKFKVVKVARVSLLALFKEKKEKPRS |
| 40S ribosomal protein eS12 | R | 141 | Plasmodium Falciparum | MSDVESADNNVVVEEKAVFDNVTAIQKVIKNAHVHDGLKIGIREVIKSIESQEAKVCFLSDVCSEPAYKKLITTLCAEKNIPLFMVQNDSKDLGHWAGLFKLDNEGNARKIIGASSVAVVDFGEDSAEKDFLLSQNQTVTA |
| 40S ribosomal protein uS13 | S | 156 | Plasmodium Falciparum | MSLQVIDNNDFQHILRILNTNVDGKEKVIIALTAIKGIGKRMATVICKQANVDPTKRAGELTTEEIDNIVHIMSTPTQFKIPDWFLNRRKDLKEGKNIHVIANQLDSYLREDLERMKKIRLHRGLRHHWGLRVRGQHTKTTGRRGRTVGVAKKKGA |
| 40S ribosomal protein eS1 | B | 262 | Plasmodium Falciparum | MAVGKNKRTSKGKKGGKKKVTDVFTKKEWYDLKAPKMFLVRNFGKTLVTKTIGKKLATDSLKGRIYEVNLADLNNDEDQAHKKIKLSCDHIINRDCYTDFCGLSITRDKLCSLIRKGYTLIEGHTDVKTLDNYHLRMFCIAFTKKRQNQTKSTCYAQTSQIKKIRKKMVDIMTAEASKVLLKDLVKKFIPESIGKEIEKQCKKIYPLQNVLIRKVKILKRPKLDISKLMELHTDPKEESGKNVNALPESKEATNILTAELKH |
| 40S ribosomal protein uS14 | T | 54 | Plasmodium Falciparum | MGCILNVHPKKYGQGSRQCRVCSNKHAIIRKYNINICRQCFRERADIIGFKKYR |
| 40S ribosomal protein uS15 | U | 151 | Plasmodium Falciparum | MGRMYGKGKGISSSTLPYKRKQPSWLKQKPSEIEDAIIKLAKKGQTPSQIGATLRDNYGIPQVKSVTGNKILRILRAQGIATTIPEDLYFLIKKAVSMRKHLEKNKKDKDCKFRLILTESKIHRISRYYKRKKLLPSNWKYQSSTASALIA |
| 40S ribosomal protein uS17 | V | 161 | Plasmodium Falciparum | MATTLDVQHERAYQKQEGASFFNSKKIKKGSKSYIRYWKKVGLGFATPKEAKEGVYVDKKCPFTGNVSIRGRILKGMVISNKMKRTIIIRRNYLHYVKKYNRFEKRHKNIPCHCSPCFDVKEGDIVTVGQCRPLSKTVRFNVLHVEKHQIFGSARKQFVLF |
| 40S ribosomal protein eS17 | W | 137 | Plasmodium Falciparum | MGRVRTKTIKRAARQIVEKYYAKLTLDFQINKKITEEVAIIPSKRMKNKVAGFVTHLMKRIQKGPVRGISLKLQEEERERRLDFVPEKSQIDVSVIYVEPDTLRMIKSLGINISNMKVHNPMINTNQQKQNRMNNQF |
| 40S ribosomal protein uS19 | X | 145 | Plasmodium Falciparum | MEDANKPKKRTFRTFQYRGVDLDKLLDLSQDELIKLFKARQRRKFQRGISKKAKSLLKKIRKSKKNCEPGEKPNPVPTHLRNMTIIPEMVGSIVAVHNGKQYTNVEIKPEMIGYYLGEFSITYKHTRHGKPGIGATHSSRFIPLK |
| 40S ribosomal protein eS19 | Y | 170 | Plasmodium Falciparum | MAEQFTEDIGVVNKRLLEPVPFVKTNNCIKDVDADLFIRSYATHLKLHNKITYPKWCTFVKTGKGRKLAPLNEDWYFIRASSILRRLYLHPDIGVGFLRRQFSSKQRRGVAPNHTSLASGKILRSILQQLENLGYVEQNPKKKGRRLTTKGENAINNFARYINKKVYNKE |
| 40S ribosomal protein eS21 | Z | 82 | Plasmodium Falciparum | MFNDQKVLVDIYIPRKCSATSRLIPAKEHGAVQINVGMVDANGVYNGKTETFAISGHVRQNGESDACLNRLMYEKKLLSFQN |
| 40S ribosomal protein eS24 | 1 | 133 | Plasmodium Falciparum | MTDQFTIRVKKYMSNPLLRRKQFALEILHPNKGSVAKKEVKERLAKMYKLNNVNTIVLFGFKTLFGGGRTKGFGLIYKNVDAVKKFEKKYRLVREGLIDKETKAGRRASKELKNRRKKVRGTEKTKVSGAKKK |
| 40S ribosomal protein eS25 | 2 | 105 | Plasmodium Falciparum | MPPKERKTKEQIAAAAAASGRTKKKKWGKGKNKEKLNHAVFIDKSLHSKILECKNMKVITPSAIAEKYKVNLSVARAVINHLADKKLIAEVCVQSHSQKLYTKVA |
| 40S ribosomal protein eS26 | 3 | 107 | Plasmodium Falciparum | MPKKRRNGGRSKHNRGHVNPLRCSNCGRCVPKDKAIKRFNIRNIVDTSAQRDIKEASVYSTFQLPKLYIKQCYCVSCAIHSRFVRVRSREQRRVRKETAKHVNPSQL |
| 40S ribosomal protein uS2 | C | 263 | Plasmodium Falciparum | MSNKKGQSPKEESIAKMLICKVHIGTKNLENKMKRYVYTRAKDGVHIINLAKTYEKLQLAARIIVAISNPADVVVVSARPFGSRAVLKFAQYTGAQAIAGRWTPGMLTNQIIQKFTEPRLLIVTDPRTDAQSVKESAYANIPVIALCDSDSPLEHVDIAIPCNNKGKESIALMYWLLAQEVLYLKGVIPRSEPWNVMVDMFLWRDPEQFELKNLANEENTPTAPHLIENQYAAEAPYDEWTKKEEWNDNTNEDWKNPIAAEEW |
| 40S ribosomal protein eS27 | 4 | 82 | Plasmodium Falciparum | MNVDLLNPDPVEESKKHKLKRLIPTPNSYFMDVKCPGCLQITTLFSHAQNVVLCGSCNIMLCQPTGGKCKLTEGCSFRKKIE |
| 40S ribosomal protein eS28 | 5 | 67 | Plasmodium Falciparum | MEKSKLAKVEKVLGRTGSRGGVIQVRAQFMGDSELAGRFLIRNVKGPVREGDILALLETEREARRLR |
| 40S ribosomal protein eS30 | 6 | 58 | Plasmodium Falciparum | MGKVHGSLARAGKVKNQTPKVPKLDKKKRLTGRAKKRQLYNRRFSDNGGRKKGPNSKA |
| 40S ribosomal protein uS3 | D | 221 | Plasmodium Falciparum | MSAPISKKRKFINDGVFQAELNEFLARILAEDGYSGVEVRVTPIRTEVIIRATRTREVLGDKGRRIRELTSLVQKRFFNKSTNSVELFAERVEHRGLCAMAQAESLRYKLLKGLAVRRACYGVLRHIMESGAKGCEVIVSGKLRAQRAKSMKFRDGYLISTGEPSKRFVNTATRSAQLKQGVLGIKVKIMLPTAIDTRTGLTSILPDNISVLEPKTDTVDL |
| 40S ribosomal protein uS4 | E | 189 | Plasmodium Falciparum | MPKSYRNYSKTARNPKRPFEKERLDQELKLIGEYGLKNKREIWRVQYLLAKIRSAARYLLTLDEKSSKRIFQGEALLRRMVRQGLLGENEEKLDYVLGLTLPKLLERRLQTKVFKLGLAKSVHHARVLIRQRHIRVGKQMVDIPSFLVRVDSEKHIDFATTSPFGGARPGRVKRKSLKKQKEKTEAEAE |
| 40S ribosomal protein eS4 | F | 261 | Plasmodium Falciparum | MGKGIKKHLKRVNAPSHWMLNKMGGQYAPKTSSGPHKLLESIPLVILLRNRLKYALTFDEVKMILIQKIVKVDNKVRTDCTFPVGLMDVIHITKSNEYFRLLYDIKGRFVPHRITNEESKYKLCKVKKILLRKGRLSIAVTHDGRSIPYIHPDVKVNDTVRLDLETGKVLEHLKFQVGSLVMVTAGHSVGRVGVISSIDKNMGTYDIIHVKDSRNKVFATRLSNVFVIGDNTKPYISLPREKGIKLDIIEERRNRLKALNN |
| 40S ribosomal protein uS5 | G | 272 | Plasmodium Falciparum | MEDRGGFSRGFGRGVRGTRGRGGRGARGRGRGSAEDDLKNWVPVTKLGRLVKEGKIVSIEEIYLHSLPIKEYQIIDYFFQPNECSHPLKDDVVKIMPVQKQTRAGQRTRFKAFVAIGDGNGHCGLGVKCAKEVATAIRGAIISAKLSLIPVRRGYWGNKIGDPHTVPMKVSGKCGSVRIRLVPAPRGTQIVGAPTTKKMLNFAGIKDCFSSSCGKTKTKGNFLRAIFNALSKTYGYLTPDLWKVTNFDKSPYEEWSDFLETYQNLKGIKGTV |
| 40S ribosomal protein eS6 | H | 306 | Plasmodium Falciparum | MKLNISNPLNNVQKSIEIDDEKKLLPFMEKRIGNAVPGDSIGEEFTGYVFRITGGNDKQGFPMIQGVLTNNRVRLLFKKGMKCYRPRKKGERKRKSVRGCIVGQDLSALNLTLVKKGVNEIPGLTDKAVGKKLGPKRASKIRKLFNLDKSDDVRKYVIGRAITKNGKTKFIKPKIQRLVTEKRLLRKRNLLQAKEKRRLEKKQQLKEYKQLLNKYRSELNQQHDVETTKKKKVKKSLSKTNKTASKSKLNTKQEQKDKTEKKQNKTNNIKNDKSEKKEQAKKKTKTNENTQQTKQNKPDKKNKAKK |
| 40S ribosomal protein uS7 | I | 195 | Plasmodium Falciparum | METTTADIKLFKKWSYEEINIADLSLVDCIAVSQKACVYTPHTAGRYQKKRFRKALCPIVERLVNSMMMHGRNNGKKLKAIRIVAYAFEIIHLMTGENPLQVFVNAVQKGGPREDSTRIGSAGVVRRQAVDVSPLRRVNQAIYLICTGARNAAFRNIKSISECLAEEIINCANESSSSYAIKKKDEIERVAKANR |
Experimental Data
Method: ELECTRON MICROSCOPY
Deposited Date: 2014-06-03 Deposition Author(s): Bai, X.C. , Baum, J. , Brown, A. , Condron, M. , Fernandez, I.S. , Hanssen, E. , Scheres, S.H.W. , Tan, Y.H. , Wong, W.