3J81
Cryoem structure of a partial yeast 48s preinitiation complex
PDB DOI: 10.2210/pdb3j81/pdb
Classification: RIBOSOME Organism(s): Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct
Deposited: 2014-08-29 Deposition Author(s): Fernandez, I.S. , Hussain, T. , Llacer, J.L. , Ramakrishnan, V. , Savva, C.G.
Experimental Data Snapshot
Method: ELECTRON MICROSCOPY Resolution: 4.0 Å
Cryoem structure of a partial yeast 48s preinitiation complex
Fernandez, I.S. , Hussain, T. , Llacer, J.L. , Ramakrishnan, V. , Savva, C.G.
Primary Citation of Related Structures: 3J81
| Nucleic Acids / Hybrid | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 18S rRNA | 2 | 1799 | NA | UAUCUGGUUGAUCCUGCCAGUAGUCAUAUGCUUGUCUCAAAGAUUAAGCCAUGCAUGUCUAAGUAUAAGCAAUUUAUACAGUGAAACUGCGAAUGGCUCAUUAAAUCAGUUAUCGUUUAUUUGAUAGUUCCUUUACUACAUGGAUAUCUGUGGUAAUUCUAGAGCUAAUACAUGCUUAAAAUCUCGACCCUUUGGAAGAGAUGUAUUUAUUAGAUAAAAAAUCAAUGUCUUCGGACUCCUUGAUGAUUCAUAAUAACUUUUCGAAUCGCAUGGCCUUGUGCUGGCGAUGGUUCAUUCAAAUUUCUGCCCUAUCAACUUUCGAUGGUAGGAUAGUGGCCUACCAUGGUUUCAACGGGUAACGGGGAAUAAGGGUUCGAUUCCGGAGAGGGAGCCUGAGAAACGGCUACCACAUCCAAGGAAGGCAGCAGGCGCGCAAAUUACCCAAUCCUAAUUCAGGGAGGUAGUGACAAUAAAUAACGAUACAGGGCCCAUUCGGGUCUUGUAAUUGGAAUGAGUACAAUGUAAAUACCUUAACGAGGAACAACUGGAGGGCAAGUCUGGUGCCAGCAGCCGCGGUAAUUCCAGCUCCAGUAGCGUAUAUUAAAGUUGUUGCAGUUAAAAAGCUCGUAGUUGAACUUUGGGUCUGGUUGUCCGGUCCGACUUUAUGUCGCGCACUGGUUUUUCAACCGGAUCUUUCCUUCUGGCUAACCUGUACUCCUUGUGGGUGCAGGCGAACCAGGACUUUUACUUUGAAAAAAUUAGAGUGUUCAAAGCAGGCGAAAGCUCGAAUAUAUUAGCAUGGAAUAAUGGAAUAGGACGUUUGGUUCUAUUUUGUUGGUUUCUAGGACCAUCGUAAUGAUUAAUAGGGACGGUCGGGGGCAUCAGUAUUCAAUUGUCAGAGGUGAAAUUCUUGGAUUUAUUGAAGACUAACUACUGCGAAAGCAUUUGCCAAGGACGUUUUCAUUAAUCAAGAACGAAAGUUAGGGGAUCGAAGAUGAUCAGAUACCGUCGUAGUCUUAACCAUAAACUAUGCCGACUAGGGAUCGGGUGGUGUUUUUCUUAUGACCCACUCGGCACCUUACGAGAAAUCAAAGUCUUUGGGUUCUGGGGGGAGUAUGGUCGCAAGGCUGAAACUUAAAGGAAUUGACGGAAGGGCACCACCAGGAGUGGAGCCUGCGGCUUAAUUUGACUCAACACGGGGAAACUCACCAGGUCCAGACACAAUAAGGAUUGACAGAUUGAGAGCUCUUUCUUGAUUUUGUGGGUGGUGGUGCAUGGCCGUUCUUAGUUGGUGGAGUGAUUUGUCUGCUUAAUUGCGAUAACGAACGAGACCUUAACCUACUAAAUAGGGUUGCUGGCACUUGCCGGUUGACUCUUCUUAGAGGGACUAUCGGUUUCAAGCCGAUGGAAGUUUGAGGCAAUAACAGGUCUGUGAUGCCCUUAGACGUUCUGGGCCGCACGCGCGCUACACUGACGGAGCCAGCGAGUACAACCUUGGCCGAGAGGUCUGGGUAAUCUUGUGAAACUCCGUCGUGCUGGGGAUAGAGCAUUGUAAUUAUUGCUCUUCAACGAGGAAUUCCUAGUAAGCGCAAGUCAUCAGCUUGCGUUGAUUACGUCCCUGCCCUUUGUACACACCGCCCGUCGCUAGUACCGAUUGAAUGGCUUAGUGAGGCCUCAGGAUUUGCUUAGAGAAGGGGGCAACUCCAUCUCAGAGCGAAGAAUCUGGUCAAACUUGGUCAUUUAGAGGAACUAAAAGUCGUAACAAGGUUUCCGUAGGUGAACCUGCGGAAGGAUCAUUA |
| Met-tRNAi | 1 | 75 | NA | AGCGCCGUGGCGCAGUGGAAGCGCGCAGGUCUCAUAAACCUGAUGUCCUCGGAUCGAAACCGAGCGGCGCUACCA |
| mRNA | 3 | 25 | NA | GGAAUCUCUCUCUAUGCUCUCUCUC |
| Proteins | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| eIF1A | I | 153 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MGKKNTKGGKKGRRGKNDSDGPKRELIYKEEGQEYAQITKMLGNGRVEASCFDGNKRMAHIRGKLRKKVWMGQGDIILVSLRDFQDDQCDVVHKYNLDEARTLKNQGELPENAKINETDNFGFESDEDVNFEFGNADEDDEEGEDEELDIDDI |
| eIF2 alpha | J | 300 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MSTSHCRFYENKYPEIDDIVMVNVQQIAEMGAYVKLLEYDNIEGMILLSELSRRRIRSIQKLIRVGKNDVAVVLRVDKEKGYIDLSKRRVSSEDIIKCEEKYQKSKTVHSILRYCAEKFQIPLEELYKTIAWPLSRKFGHAYEAFKLSIIDETVWEGIEPPSKDVLDELKNYISKRLTPQAVKIRADVEVSCFSYEGIDAIKDALKSAEDMSTEQMQVKVKLVAAPLYVLTTQALDKQKGIEQLESAIEKITEVITKYGGVCNITMPPKAVTATEDAELQALLESKELDNRSDSEDDEDE |
| eIF2 gamma | K | 527 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MSDLQDQEPSIIINGNLEPVGEPDIVEETEVVAQETQETQDADKPKKKVAFTGLEEDGETEEEKRKREFEEGGGLPEQPLNPDFSKLNPLSAEIINRQATINIGTIGHVAHGKSTVVRAISGVQTVRFKDELERNITIKLGYANAKIYKCQEPTCPEPDCYRSFKSDKEISPKCQRPGCPGRYKLVRHVSFVDCPGHDILMSTMLSGAAVMDAALLLIAGNESCPQPQTSEHLAAIEIMKLKHVIILQNKVDLMREESALEHQKSILKFIRGTIADGAPIVPISAQLKYNIDAVNEFIVKTIPVPPRDFMISPRLIVIRSFDVNKPGAEIEDLKGGVAGGSILNGVFKLGDEIEIRPGIVTKDDKGKIQCKPIFSNIVSLFAEQNDLKFAVPGGLIGVGTKVDPTLCRADRLVGQVVGAKGHLPNIYTDIEINYFLLRRLLGVKTDGQKQAKVRKLEPNEVLMVNIGSTATGARVVAVKADMARLQLTSPACTEINEKIALSRRIEKHWRLIGWATIKKGTTLEPIA |
| eIF2 beta | L | 285 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MSSDLAAELGFDPALKKKKKTKKVIPDDFDAAVNGKENGSGDDLFAGLKKKKKKSKSVSADAEAEKEPTDDIAEALGELSLKKKKKKTKDSSVDAFEKELAKAGLDNVDAESKEGTPSANSSIQQEVGLPYSELLSRFFNILRTNNPELAGDRSGPKFRIPPPVCLRDGKKTIFSNIQDIAEKLHRSPEHLIQYLFAELGTSGSVDGQKRLVIKGKFQSKQMENVLRRYILEYVTCKTCKSINTELKREQSNRLFFMVCKSCGSTRSVSSIKTGFQATVGKRRRM |
| eIF1 | M | 108 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MSIENLKSFDPFADTGDDETATSNYIHIRIQQRNGRKTLTTVQGVPEEYDLKRILKVLKKDFACNGNIVKDPEMGEIIQLQGDQRAKVCEFMISQLGLQKKNIKIHGF |
| uS15 | N | 151 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MGRMHSKGKGMSSSAIPYSRNAPAWFKGSSDGVVEQIIKYARKGLTPSQIGVLLRDAHGVTQAKVITGNKILRILKSNGLAPEIPEDLYFLIKKAVSVRKHLERNRKDKDAKFRLILIESRIHRLARYYRTVSVLPPNWKYESATASALVN |
| uS11 | O | 137 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MANVVQAKDNSQVFGVARIFASFNDTFVHVTDLSGRETIARVTGGMKVKADRDESSPYAAMLAAQDVAAKCKEVGITAVHIKIRATGGTRSKTPGPGGQAALRALARSGLRIGRIEDVTPVPSDSTRKKGGRRGRRL |
| uS19 | P | 140 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | EAAAPRKRSFKTYSYKGVDLEKLLEMPTEDFVKLAPARVRRKFARGLSEKPAGLMKKLRAAKLSAPENEKPAVVRTHLRNMIIVPEMIGSVVGVYNGKVFNQVEIRPEMVGHYLGEFSITYTPVRHGRAGATTSRFIPLR |
| uS9 | Q | 143 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MSTVPSVQTFGKKKSATAVAHVKAGKGLIKVNGSPITLVQPEILRFKVYEPLLLVGLDKFANIDIRVKVTGGGHVSQVYAIRQAIAKGLVAYHQKFVDEQSKNELKKAFTSYDRTLLIADSRRPEPKKFGGRGARSRFQKSYR |
| eS17 | R | 136 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MGRVRTKTVKRASKALIEKYYPKLTMDFQTNKRLCDEIATIQSKRLRNKIAGYTTHLMKRIQKGPVRGISFKLQEEERERKDQYVPDVSALDLSHSNDVLNVDTQTAELVNSLGLKLPLSVSSVSAVRDRRFRKRN |
| eS26 | A | 119 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MPKKRASNGRNKKGRGHVKPVRCVNCSRSVPKDKAIKRMAIRNIVEAAAIRDLSEASVYAEYALPKTYNKLHYCISCAIHARIVRVRSRTDRRIRAPPQRPRFNRDNKVSPADAAKKAL |
| uS13 | S | 146 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MSLVVQEQGSFQHILRLLNTNVDGNINVVYALTTIRGVGRRYANLVCKKADVDLHKRAGELTQEELERIVQIMQNPTHYKIPAWFLNRQKDVNDGKDYHSLANNLESKLRDDLERLKKIRSHRGIRHFWGLRVRGQHTKTTGRRRA |
| eS19 | T | 144 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MPGVSVRDVPAQDFINNYASFLQRQGKLEVPGYVDIVKTSAGNELPPQDSEGWFYKRAASVARHIYLRKQVGVGKLNKLYGGAKNRGVRPHKHVDASGSINRKVLQSLEKLGVVEISPKGGRRISDNGLRDLDRIAAATLEDEE |
| uS10 | U | 117 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MSQVEKKSEQQQEVVIHKIRINLTSTKVKQLENVSANIIKNAETFKLVKKGPVRLPTKVLKISTRKTPNGEGSKTWDTYEMRIHKRYIDLEAPAHIVKRITQITIEPGVDVEVIIAA |
| eS21 | V | 87 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MENDKGQLVELYVPRKCSATNRIIKAKDHSSVQINIAQVDEEGRAIPGEYVTYALSGYIRARGEADDSLNRLAQQDGLLKNVWSYSR |
| uS8 | W | 130 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MTRTSVLADALNAINNAEKTGKRQVLIRPSSKVIIKFLQVMQKHGYIGEFEYIDDHRSGKIVVQLNGRLNKCGVISPRFNVKIADVEKWTANLLPARQFGYVILTTSAGIMDHEEAHRKHVSGKILGFVY |
| uS12 | X | 145 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MGKGKPRGLNSARKLRVHRRNNRWAETTYKKRLLGTAFKSSPFGGSSHAKGIVLEKIGIESKQPNSAIRKCVRVQLIKNGKKVTAFVPNDGCLNFVDENDEVLLAGFGRKGKAKGDIPGVRFKVVKVSGVSLLALWKEKKEKPRS |
| eS24 | Y | 135 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MSDAITIRTRKVISNPLLARKQFVVDVLHPNRANVSKDELREKLAEAYKAEKDAVSVFGFRTQYGGGKSTGFGLVYNSVADAKKFEPAYRLVRYGLAEKVEKASRQQRKQRKNRGKKIFGTGKSIAKKAARRNAD |
| eS25 | Z | 108 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MPPKQQLSKAAKAAAAMAGGKKSKKKWSKKSHKDKAKHAVVLDQDKFDRIMKEAPTYRYVSVSVLVDRFKLGGSLARVALRHLENEGIIKPVSKHSKQAIYTRATASE |
| eS1 | B | 255 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MAVGKNKRLSKGKKGLKKRVVDPFTRKEWYDIKAPSTFENRNVGKTLVNKSVGLKNASDSLKGRVVEVCLADLQGSEDHSFRKVKLRVDEVQGKNLLTNFHGMDFTTDKLRSMVRKWQTLIEANVTVKTSDDYVLRIFAIAFTRKQANQVKRTSYAQSSHIRQIRKVISEILTREVQNSTLAQLTSKLIPEVINKEIENATKDIFPLQNVHIRKVKLLKQPKFDLGSLLSLHGEASAEEKGKKVAGFKDEILETV |
| uS5 | C | 259 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MSAPQAQGQQAPRRGGFGGANRGGRGGRRGGRRDQEEKGWVPVTKLGRLVKAGKISSIEEIFLHSLPVKEFQIIDQLLPNLKDEVMNIKPVQKQTRAGQRTRFKAVVVVGDSNGHVGLGIKTAKEVAGAIRAGIIIAKLSVIPIRRGYWGTNLGQPHSLATKTSGKCGSVSVRLIPAPRGSGIVASPAVKKLMQLAGVEDVYTSSTGSTRTLENTLKAAFVAIGNTYGFLTPNLWEVQALTPSPMDVYADYATASKKKL |
| uS7 | F | 227 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MSEHEAQVEVEVQEDFEVVQEFVPVELATTIPVEIQQAQQEIKLFNKWSFEDVEVKDASLVDYIQISKPIYVAHTAGRYANKRFRKAQCPIVERLTNSLMMNGRNNGKKLKAVRIVKHTLEIINVLTDQNPLQVVVDAIINSGPREDTTRVGGGGAARRQAVDVSPLRRVNQSIALLTIGAREAAFRNIKTIAETLAEELINAAKGSSTSYAIKKKDELERVAKSNR |
| eS6 | G | 236 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MKLNISYPINGTQKCIEIDDEHRVRVFYDKRIGQEVDGESVGDEFKGYVFKIAGGNDKQGFPMKQGVLLPTRVKLLLAKGHSCYRPRRNGERKRKSVRGAIVGPDLAVLALIITKKGEQEIEGITNDTVPKRLGPKRANNIRKFFGLTKEDDVRDYVIRREVTKGDKSYTKAPKIQRLVTPQRLQRKRQQKSLKIKNAQAQREAAAEYAQLLAKRLSERKAEKAEVRKRRASSLKA |
| uS3 | D | 237 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MVAIISKKRKLVADGVFYAELNEFFTRELAEEGYSGVEVRVTPTKTEIIIRATKVQDVVGENGRRINELTLLIEKRFKYKRGTIALYAERVHDRGLSAVAQAESMKFKLLNGLAIRRAAYGVVRYVMESGAKGCEVVISGKLRAARAKSMKFADGFLIHSGQPVNDFIETATRHVLLRQGVLGIKVKIMKDPSRNTSGPKALPDAVTIIEPKEEEPVLEPSVKDYRPTEPVEAAESA |
| eS4 | E | 261 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MARGPKKHLKRLAAPHHWMLDKLSGCYAPRPSAGPHKLRESLPLIVFLRNRLKYALNGREVKAILMQRHVKVDGKVRTDTTFPAGFMDVITLEATNENFRLVYDVKGRFAVHRITDEEASYKLAKVKKVQLGKKGIPYVVTHDGRTIRYPDPNIKVNDTVKVDLATGTITDFIKFDTGKLVYVTGGRNLGRVGTIVHRERHEGGFDLVHIKDSLENTFVTRLNNVFVIGEPGRPWISLPKGKGIKLTISEERDRRRAQHGL |
| eS7 | H | 190 | Kluyveromyces Lactis , Saccharomyces Cerevisiae , Synthetic Construct | MSDPQAKILSQAPTELELQVAQAFIDLENNSPELKADLRALQFKSIREIEVAGGKKALAVFVPVPSLAAYHKVQIKLTRELEKKFQDRHVIFLAERRILPKPSRKSRQTQKRPRSRTLTAVHDKILEDLVFPTEIVGKRVRYLVGGNKIQKILLNSKDVQHIDNKLESFQAVYNKLTGKQIVFEIPSETH |
Experimental Data
Method: ELECTRON MICROSCOPY
Deposited Date: 2014-08-29 Deposition Author(s): Fernandez, I.S. , Hussain, T. , Llacer, J.L. , Ramakrishnan, V. , Savva, C.G.