8S8J
Structure of a yeast 48s-auc preinitiation complex in closed conformation (model py48s-auc-eif5)
PDB DOI: 10.2210/pdb8s8j/pdb
Classification: RIBOSOME Organism(s): Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct
Deposited: 2024-03-06 Deposition Author(s): Hussain, T. , Llacer, J.L. , Sharma, P. , Villamayor-Belinchon, L.
Experimental Data Snapshot
Method: ELECTRON MICROSCOPY Resolution: 4.7 Å
Structure of a yeast 48s-auc preinitiation complex in closed conformation (model py48s-auc-eif5)
Hussain, T. , Llacer, J.L. , Sharma, P. , Villamayor-Belinchon, L.
Primary Citation of Related Structures: 8S8J
| Nucleic Acids / Hybrid | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 18S ribosomal RNA | 2 | 1798 | NA | UAUCUGGUUGAUCCUGCCAGUAGUCAUAUGCUUGUCUCAAAGAUUAAGCCAUGCAUGUCUAAGUAUAAGCAAUUUAUACAGUGAAACUGCGAAUGGCUCAUUAAAUCAGUUAUCGUUUAUUUGAUAGUUCCUUUACUACAUGGAUAUCUGUGGUAAUUCUAGAGCUAAUACAUGCUUAAAAUCUCGACCCUUUGGAAGAGAUGUAUUUAUUAGAUAAAAAAUCAAUGUCUUCGGACUCCUUGAUGAUUCAUAAUAACUUUUCGAAUCGCAUGGCCUUGUGCUGGCGAUGGUUCAUUCAAAUUUCUGCCCUAUCAACUUUCGAUGGUAGGAUAGUGGCCUACCAUGGUUUCAACGGGUAACGGGGAAUAAGGGUUCGAUUCCGGAGAGGGAGCCUGAGAAACGGCUACCACAUCCAAGGAAGGCAGCAGGCGCGCAAAUUACCCAAUCCUAAUUCAGGGAGGUAGUGACAAUAAAUAACGAUACAGGGCCCAUUCGGGUCUUGUAAUUGGAAUGAGUACAAUGUAAAUACCUUAACGAGGAACAACUGGAGGGCAAGUCUGGUGCCAGCAGCCGCGGUAAUUCCAGCUCCAGUAGCGUAUAUUAAAGUUGUUGCAGUUAAAAAGCUCGUAGUUGAACUUUGGGUCUGGUUGUCCGGUCCGACUUUAUGUCGCGCACUGGUUUUCAACCGGAUCUUUCCUUCUGGCUAACCUGUACUCCUUGUGGGUGCAGGCGAACCAGGACUUUUACUUUGAAAAAAUUAGAGUGUUCAAAGCAGGCGAAAGCUCGAAUAUAUUAGCAUGGAAUAAUGGAAUAGGACGUUUGGUUCUAUUUUGUUGGUUUCUAGGACCAUCGUAAUGAUUAAUAGGGACGGUCGGGGGCAUCAGUAUUCAAUUGUCAGAGGUGAAAUUCUUGGAUUUAUUGAAGACUAACUACUGCGAAAGCAUUUGCCAAGGACGUUUUCAUUAAUCAAGAACGAAAGUUAGGGGAUCGAAGAUGAUCAGAUACCGUCGUAGUCUUAACCAUAAACUAUGCCGACUAGGGAUCGGGUGGUGUUUUUCUUAUGACCCACUCGGCACCUUACGAGAAAUCAAAGUCUUUGGGUUCUGGGGGGAGUAUGGUCGCAAGGCUGAAACUUAAAGGAAUUGACGGAAGGGCACCACCAGGAGUGGAGCCUGCGGCUUAAUUUGACXCAACACGGGGAAACUCACCAGGUCCAGACACAAUAAGGAUUGACAGAUUGAGAGCUCUUUCUUGAUUUUGUGGGUGGUGGUGCAUGGCCGUUCUUAGUUGGUGGAGUGAUUUGUCUGCUUAAUUGCGAUAACGAACGAGACCUUAACCUACUAAAUAGGGUUGCUGGCACUUGCCGGUUGACUCUUCUUAGAGGGACUAUCGGUUUCAAGCCGAUGGAAGUUUGAGGCAAUAACAGGUCUGUGAUGCCCUUAGACGUUCUGGGCCGCACGCGCGCUACACUGACGGAGCCAGCGAGUACAACCUUGGCCGAGAGGUCUGGGUAAUCUUGUGAAACUCCGUCGUGCUGGGGAUAGAGCAUUGUAAUUAUUGCUCUUCAACGAGGAAUUCCUAGUAAGCGCAAGUCAUCAGCUUGCGUUGAUUACGUCCCUGCCCUUUGUACACACCGCCCGUCGCUAGUACCGAUUGAAUGGCUUAGUGAGGCCUCAGGAUUUGCUUAGAGAAGGGGGCAACUCCAUCUCAGAGCGAAGAAUCUGGUCAAACUUGGUCAUUUAGAGGAACUAAAAGUCGUAACAAGGUUUCCGUAGGUGAACCUGCGGAAGGAUCAUUA |
| mRNA (5'-R(P*AP*AP*U)-3') | 3 | 49 | NA | GGGCUCUCUUCUCUCUCUAACUAUAAAAAUCUCUCUUCUCUCUCUCGAU |
| Met-tRNAi | 1 | 75 | NA | AGCGCCGUGGCGCAGUGGAAGCGCGCAGGGCUCAUAACCCUGAUGUCCUCGGAUCGAAACCGAGCGGCGCUACCA |
| Proteins | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| Eukaryotic translation initiation factor 2 subunit beta | L | 285 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MSSDLAAELGFDPALKKKKKTKKVIPDDFDAAVNGKENGSGDDLFAGLKKKKKKSKSVSADAEAEKEPTDDIAEALGELSLKKKKKKTKDSSVDAFEKELAKAGLDNVDAESKEGTPSANSSIQQEVGLPYSELLSRFFNILRTNNPELAGDRSGPKFRIPPPVCLRDGKKTIFSNIQDIAEKLHRSPEHLIQYLFAELGTSGSVDGQKRLVIKGKFQSKQMENVLRRYILEYVTCKTCKSINTELKREQSNRLFFMVCKSCGSTRSVSSIKTGFQATVGKRRRM |
| KLLA0F18040p | N | 151 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MGRMHSKGKGMSSSAIPYSRNAPAWFKGSSDGVVEQIIKYARKGLTPSQIGVLLRDAHGVTQAKVITGNKILRILKSNGLAPEIPEDLYFLIKKAVSVRKHLERNRKDKDAKFRLILIESRIHRLARYYRTVSVLPPNWKYESATASALVN |
| Small ribosomal subunit protein uS11 | O | 137 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MANVVQAKDNSQVFGVARIFASFNDTFVHVTDLSGRETIARVTGGMKVKADRDESSPYAAMLAAQDVAAKCKEVGITAVHIKIRATGGTRSKTPGPGGQAALRALARSGLRIGRIEDVTPVPSDSTRKKGGRRGRRL |
| 40S ribosomal protein S21 | V | 87 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MENDKGQLVELYVPRKCSATNRIIKAKDHSSVQINIAQVDEEGRAIPGEYVTYALSGYIRARGEADDSLNRLAQQDGLLKNVWSYSR |
| Small ribosomal subunit protein uS8 | W | 130 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MTRTSVLADALNAINNAEKTGKRQVLIRPSSKVIIKFLQVMQKHGYIGEFEYIDDHRSGKIVVQLNGRLNKCGVISPRFNVKIADVEKWTANLLPARQFGYVILTTSAGIMDHEEAHRKHVSGKILGFVY |
| KLLA0B11231p | X | 145 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MGKGKPRGLNSARKLRVHRRNNRWAETTYKKRLLGTAFKSSPFGGSSHAKGIVLEKIGIESKQPNSAIRKCVRVQLIKNGKKVTAFVPNDGCLNFVDENDEVLLAGFGRKGKAKGDIPGVRFKVVKVSGVSLLALWKEKKEKPRS |
| 40S ribosomal protein S24 | Y | 135 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MSDAITIRTRKVISNPLLARKQFVVDVLHPNRANVSKDELREKLAEAYKAEKDAVSVFGFRTQYGGGKSTGFGLVYNSVADAKKFEPAYRLVRYGLAEKVEKASRQQRKQRKNRGKKIFGTGKSIAKKAARRNAD |
| Small ribosomal subunit protein uS2 | A | 254 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MSLPSTFDLTSEDAQLLLAARVHLGAKNVQVHQEPYVYKARPDGVNVINVGKTWEKIVLAARIIAAIPNPEDVVAISSRTYGQRAVLKYAAHTGATPIAGRFTPGSFTNYITRSFKEPRLVIVTDPRSDAQAIKESSYVNIPVIALTDLDSPSEYVDVAIPCNNRGKHSIGLIWYLLAREVLRLRGALPDRTQPWAIMPDLYFYRNPEEIEQQTAEEEAVASGEQTEEAVDATEEQTEAAEWAEEGQAQEEEWN |
| Small ribosomal subunit protein eS1 | B | 255 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MAVGKNKRLSKGKKGLKKRVVDPFTRKEWYDIKAPSTFENRNVGKTLVNKSVGLKNASDSLKGRVVEVCLADLQGSEDHSFRKVKLRVDEVQGKNLLTNFHGMDFTTDKLRSMVRKWQTLIEANVTVKTSDDYVLRIFAIAFTRKQANQVKRTSYAQSSHIRQIRKVISEILTREVQNSTLAQLTSKLIPEVINKEIENATKDIFPLQNVHIRKVKLLKQPKFDLGSLLSLHGEASAEEKGKKVAGFKDEILETV |
| 40S ribosomal protein S4 | E | 261 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MARGPKKHLKRLAAPHHWMLDKLSGCYAPRPSAGPHKLRESLPLIVFLRNRLKYALNGREVKAILMQRHVKVDGKVRTDTTFPAGFMDVITLEATNENFRLVYDVKGRFAVHRITDEEASYKLAKVKKVQLGKKGIPYVVTHDGRTIRYPDPNIKVNDTVKVDLATGTITDFIKFDTGKLVYVTGGRNLGRVGTIVHRERHEGGFDLVHIKDSLENTFVTRLNNVFVIGEPGRPWISLPKGKGIKLTISEERDRRRAQHGL |
| 40S ribosomal protein S7 | H | 190 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MSDPQAKILSQAPTELELQVAQAFIDLENNSPELKADLRALQFKSIREIEVAGGKKALAVFVPVPSLAAYHKVQIKLTRELEKKFQDRHVIFLAERRILPKPSRKSRQTQKRPRSRTLTAVHDKILEDLVFPTEIVGKRVRYLVGGNKIQKILLNSKDVQHIDNKLESFQAVYNKLTGKQIVFEIPSETH |
| Small ribosomal subunit protein uS14 | D | 56 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MAHENVWYSHPRKFGKGSRQCRISGSHSGLIRKYGLNIDRQSFREKANDIGFYKYR |
| Small ribosomal subunit protein eS31 | F | 150 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGGKKRKKKVYTTPKKIRHKHKKVKLAVLNYYKVDDEGKVAKLRKECPNCGPGIFLANHGDRFYCGKCHSTFATQK |
| Eukaryotic translation initiation factor 2 subunit gamma | K | 527 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MSDLQDQEPSIIINGNLEPVGEPDIVEETEVVAQETQETQDADKPKKKVAFTGLEEDGETEEEKRKREFEEGGGLPEQPLNPDFSKLNPLSAEIINRQATINIGTIGHVAHGKSTVVRAISGVQTVRFKDELERNITIKLGYANAKIYKCQEPTCPEPDCYRSFKSDKEISPKCQRPGCPGRYKLVRHVSFVDCPGHDILMSTMLSGAAVMDAALLLIAGNESCPQPQTSEHLAAIEIMKLKHVIILQNKVDLMREESALEHQKSILKFIRGTIADGAPIVPISAQLKYNIDAVNEFIVKTIPVPPRDFMISPRLIVIRSFDVNKPGAEIEDLKGGVAGGSILNGVFKLGDEIEIRPGIVTKDDKGKIQCKPIFSNIVSLFAEQNDLKFAVPGGLIGVGTKVDPTLCRADRLVGQVVGAKGHLPNIYTDIEINYFLLRRLLGVKTDGQKQAKVRKLEPNEVLMVNIGSTATGARVVAVKADMARLQLTSPACTEINEKIALSRRIEKHWRLIGWATIKKGTTLEPIA |
| Eukaryotic translation initiation factor 5 | M | 405 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MSINICRDNHDPFYRYKMPPIQAKVEGRGNGIKTAVLNVADISHALNRPAPYIVKYFGFELGAQTSISVDKDRYLVNGVHEPAKLQDVLDGFINKFVLCGSCKNPETEIIITKDNDLVRDCKACGKRTPMDLRHKLSSFILKNPPDSVSGSKKKKKAATASANVRGGGLSISDIAQGKSQNAPSDGTGSSTPQHHDEDEDELSRQIKAAASTLEDIEVKDDEWAVDMSEEAIRARAKELEVNSELTQLDEYGEWILEQAGEDKENLPSDVELYKKAAELDVLNDPKIGCVLAQCLFDEDIVNEIAEHNAFFTKILVTPEYEKNFMGGIERFLGLEHKDLIPLLPKILVQLYNNDIISEEEIMRFGTKSSKKFVPKEVSKKVRRAAKPFITWLETAESDDDEEDDE |
| KLLA0F07843p | P | 142 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MSEAAAPRKRSFKTYSYKGVDLEKLLEMPTEDFVKLAPARVRRKFARGLSEKPAGLMKKLRAAKLSAPENEKPAVVRTHLRNMIIVPEMIGSVVGVYNGKVFNQVEIRPEMVGHYLGEFSITYTPVRHGRAGATTSRFIPLR |
| Small ribosomal subunit protein uS9 | Q | 143 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MSTVPSVQTFGKKKSATAVAHVKAGKGLIKVNGSPITLVQPEILRFKVYEPLLLVGLDKFANIDIRVKVTGGGHVSQVYAIRQAIAKGLVAYHQKFVDEQSKNELKKAFTSYDRTLLIADSRRPEPKKFGGRGARSRFQKSYR |
| KLLA0B01474p | R | 136 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MGRVRTKTVKRASKALIEKYYPKLTMDFQTNKRLCDEIATIQSKRLRNKIAGYTTHLMKRIQKGPVRGISFKLQEEERERKDQYVPDVSALDLSHSNDVLNVDTQTAELVNSLGLKLPLSVSSVSAVRDRRFRKRN |
| KLLA0B01562p | S | 146 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MSLVVQEQGSFQHILRLLNTNVDGNINVVYALTTIRGVGRRYANLVCKKADVDLHKRAGELTQEELERIVQIMQNPTHYKIPAWFLNRQKDVNDGKDYHSLANNLESKLRDDLERLKKIRSHRGIRHFWGLRVRGQHTKTTGRRRA |
| KLLA0A07194p | T | 144 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MPGVSVRDVPAQDFINNYASFLQRQGKLEVPGYVDIVKTSAGNELPPQDSEGWFYKRAASVARHIYLRKQVGVGKLNKLYGGAKNRGVRPHKHVDASGSINRKVLQSLEKLGVVEISPKGGRRISDNGLRDLDRIAAATLEDEE |
| Small ribosomal subunit protein uS10 | U | 117 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MSQVEKKSEQQQEVVIHKIRINLTSTKVKQLENVSANIIKNAETFKLVKKGPVRLPTKVLKISTRKTPNGEGSKTWDTYEMRIHKRYIDLEAPAHIVKRITQITIEPGVDVEVIIAA |
| 40S ribosomal protein S25 | Z | 108 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MPPKQQLSKAAKAAAAMAGGKKSKKKWSKKSHKDKAKHAVVLDQDKFDRIMKEAPTYRYVSVSVLVDRFKLGGSLARVALRHLENEGIIKPVSKHSKQAIYTRATASE |
| Small ribosomal subunit protein uS5 | C | 259 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MSAPQAQGQQAPRRGGFGGANRGGRGGRRGGRRDQEEKGWVPVTKLGRLVKAGKISSIEEIFLHSLPVKEFQIIDQLLPNLKDEVMNIKPVQKQTRAGQRTRFKAVVVVGDSNGHVGLGIKTAKEVAGAIRAGIIIAKLSVIPIRRGYWGTNLGQPHSLATKTSGKCGSVSVRLIPAPRGSGIVASPAVKKLMQLAGVEDVYTSSTGSTRTLENTLKAAFVAIGNTYGFLTPNLWEVQALTPSPMDVYADYATASKKKL |
| Small ribosomal subunit protein eS6 | G | 236 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MKLNISYPINGTQKCIEIDDEHRVRVFYDKRIGQEVDGESVGDEFKGYVFKIAGGNDKQGFPMKQGVLLPTRVKLLLAKGHSCYRPRRNGERKRKSVRGAIVGPDLAVLALIITKKGEQEIEGITNDTVPKRLGPKRANNIRKFFGLTKEDDVRDYVIRREVTKGDKSYTKAPKIQRLVTPQRLQRKRQQKSLKIKNAQAQREAAAEYAQLLAKRLSERKAEKAEVRKRRASSLKA |
| 40S ribosomal protein S8 | I | 201 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MGISRDSRHKRAATGAKRAQFRKKRKFELGRQAANTKIGTKRIHPVRTRGGNQKFRALRIETGNFSWASEGVARKTRITGVVYHPSNNELVRTNTLTKAAIVQIDATPFRQWYESHYGQSLGKKKNTKAEEETATTSKNTERKWAARAAEAKIEHAVDSQFGAGRLYAAISSRPGQSGRCDGYILEGEELAFYLRRLTAKK |
| KLLA0E23673p | J | 188 | Kluyveromyces Lactis Nrrl Y-1140 , Saccharomyces Cerevisiae S288C , Synthetic Construct | MPRAPRTYSKTYSTPKRPYESARLDAELKLAGEYGLKNKREIYRISFQLSKIRRAARDLLTRDEKDPKRLFEGNALIRRLVRIGVLSEDKKKLDYVLALKVEDFLERRLQTQVYKLGLAKSVHHARVLISQRHIAVGKQIVNIPSFMVRLESEKHIDFARTSPFGGARPGRVARKRAAAAGGEEADEE |
Experimental Data
Method: ELECTRON MICROSCOPY
Deposited Date: 2024-03-06 Deposition Author(s): Hussain, T. , Llacer, J.L. , Sharma, P. , Villamayor-Belinchon, L.