5UQ8
70s ribosome complex with dnax mrna stem-loop and e-site trna (""out"" conformation)
PDB DOI: 10.2210/pdb5uq8/pdb
Classification: RIBOSOME Organism(s): Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct
Deposited: 2017-02-07 Deposition Author(s): Dunham, C.M. , Hong, S. , Skiniotis, G. , Zhang, Y.
Experimental Data Snapshot
Method: ELECTRON MICROSCOPY Resolution: 3.2 Å
70s ribosome complex with dnax mrna stem-loop and e-site trna (""out"" conformation)
Dunham, C.M. , Hong, S. , Skiniotis, G. , Zhang, Y.
Primary Citation of Related Structures: 5UQ8
| Nucleic Acids / Hybrid | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 16S rRNA | a | 1521 | NA | UUGUUGGAGAGUUUGAUCCUGGCUCAGGGUGAACGCUGGCGGCGUGCCUAAGACAUGCAAGUCGUGCGGGCCGCGGGGUUUUACUCCGUGGUCAGCGGCGGACGGGUGAGUAACGCGUGGGUGACCUACCCGGAAGAGGGGGACAACCCGGGGAAACUCGGGCUAAUCCCCCAUGUGGACCCGCCCCUUGGGGUGUGUCCAAAGGGCUUUGCCCGCUUCCGGAUGGGCCCGCGUCCCAUCAGCUAGUUGGUGGGGUAAUGGCCCACCAAGGCGACGACGGGUAGCCGGUCUGAGAGGAUGGCCGGCCACAGGGGCACUGAGACACGGGCCCCACUCCUACGGGAGGCAGCAGUUAGGAAUCUUCCGCAAUGGGCGCAAGCCUGACGGAGCGACGCCGCUUGGAGGAAGAAGCCCUUCGGGGUGUAAACUCCUGAACCCGGGACGAAACCCCCGACGAGGGGACUGACGGUACCGGGGUAAUAGCGCCGGCCAACUCCGUGCCAGCAGCCGCGGUAAUACGGAGGGCGCGAGCGUUACCCGGAUUCACUGGGCGUAAAGGGCGUGUAGGCGGCCUGGGGCGUCCCAUGUGAAAGACCACGGCUCAACCGUGGGGGAGCGUGGGAUACGCUCAGGCUAGACGGUGGGAGAGGGUGGUGGAAUUCCCGGAGUAGCGGUGAAAUGCGCAGAUACCGGGAGGAACGCCGAUGGCGAAGGCAGCCACCUGGUCCACCCGUGACGCUGAGGCGCGAAAGCGUGGGGAGCAAACCGGAUUAGAUACCCGGGUAGUCCACGCCCUAAACGAUGCGCGCUAGGUCUCUGGGUCUCCUGGGGGCCGAAGCUAACGCGUUAAGCGCGCCGCCUGGGGAGUACGGCCGCAAGGCUGAAACUCAAAGGAAUUGACGGGGGCCCGCACAAGCGGUGGAGCAUGUGGUUUAAUUCGAAGCAACGCGAAGAACCUUACCAGGCCUUGACAUGCUAGGGAACCCGGGUGAAAGCCUGGGGUGCCCCGCGAGGGGAGCCCUAGCACAGGUGCUGCAUGGCCGUCGUCAGCUCGUGCCGUGAGGUGUUGGGUUAAGUCCCGCAACGAGCGCAACCCCCGCCGUUAGUUGCCAGCGGUUCGGCCGGGCACUCUAACGGGACUGCCCGCGAAAGCGGGAGGAAGGAGGGGACGACGUCUGGUCAGCAUGGCCCUUACGGCCUGGGCGACACACGUGCUACAAUGCCCACUACAAAGCGAUGCCACCCGGCAACGGGGAGCUAAUCGCAAAAAGGUGGGCCCAGUUCGGAUUGGGGUCUGCAACCCGACCCCAUGAAGCCGGAAUCGCUAGUAAUCGCGGAUCAGCCAUGCCGCGGUGAAUACGUUCCCGGGCCUUGUACACACCGCCCGUCACGCCAUGGGAGCGGGCUCUACCCGAAGUCGCCGGGAGCCUACGGGCAGGCGCCGAGGGUAGGGCCCGUGACUGGGGCGAAGUCGUAACAAGGUAGCUGUACCGGAAGGUGCGGCUGGAUCACCUCCUUGCU |
| messenger RNA | x | 55 | NA | UAAGGAAAUAAAAAUGUUUAGUGAACCGGCAGCCGCUACCCGCGCGCGGCCGGUA |
| P-site tRNA fMet | y | 77 | NA | CGCGGGGUGGAGCAGCCCGGUAGCUCGUCGGGCUCAUAACCCGAAGGUCGUCGGUUCAAAUCCGGCCCCCGCAACCA |
| E-site tRNA Phe | z | 76 | NA | GCCCGGAUAGCUCAGUCGGUAGAGCAGGGGAUUGAAAAUCCCCGUGUCCUUGGUUCGAUUCCGAGUCCGGGCACCA |
| Proteins | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 30S ribosomal protein S15 | O | 88 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | PITKEEKQKVIQEFARFPGDTGSTEVQVALLTLRINRLSEHLKVHKKDHHSHRGLLMMVGQRRRLLRYLQREDPERYRALIEKLGIRG |
| 30S ribosomal protein S16 | P | 82 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | MVKIRLARFGSKHNPHYRIVVTDARRKRDGKYIEKIGYYDPRKTTPDWLKVDVERARYWLSVGAQPTDTARRLLRQAGVFRQ |
| 30S ribosomal protein S17 | Q | 99 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | PKKVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESRPISKRKRFRVLRLVESGRMDLVEKYLIRRQNYESLSK |
| 30S ribosomal protein S18 | R | 68 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | AKVKATLGEFDLRDYRNVEVLKRFLSETGKILPRRRTGLSAKEQRILAKTIKRARILGLLPFTEKLVR |
| 30S ribosomal protein S19 | S | 83 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | PRSLKKGVFVDDHLLEKVLELNAKGEKRLIKTWSRRSTIVPEMVGHTIAVYNGKQHVPVYITENMVGHKLGEFAPTRTYRGHG |
| 30S ribosomal protein S20 | T | 98 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | PKRNLSALKRHRQSLKRRLRNKAKKSAIKTLSKKAIQLAQEGKAEEALKIMRKAESLIDKAAKGSTLHKNAAARRKSRLMRKVRQLLEAAGAPLIGGG |
| 30S ribosomal protein Thx | U | 23 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | GKGDRRTRRGKIWRGTYGKYRPR |
| 50S ribosomal protein L21 | V | 101 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | MFAIVKTGGKQYRVEPGLKLRVEKLDAEPGATVELPVLLLGGEKTVVGTPVVEGASVVAEVLGHGRGKKILVSKFKAKVQYRRKKGHRQPYTELLIKEIRG |
| 50S ribosomal protein L22 | W | 112 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | MEAKAIARYVRISPRKVRLVVDLIRGKSLEEARNILRYTNKRGAYFVAKVLESAAANAVNNHDMLEDRLYVKAAYVDEGPALKRVLPRARGRADIIKKRTSHITVILGEKHG |
| 30S ribosomal protein S2 | B | 231 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | VKELLEAGVHFGHERKRWNPKFARYIYAERNGIHIIDLQKTMEELERTFRFIEDLAMRGGTILFVGTKKQAQDIVRMEAERAGMPYVNQRWLGGMLTNFKTISQRVHRLEELEALFASPEIEERPKKEQVRLKHELERLQKYLSGFRLLKRLPDAIFVVDPTKEAIAVREARKLFIPVIALADTDSDPDLVDYIIPGNDDAIRSIQLILSRAVDLIIQARGGVVEPSPSYA |
| 50S ribosomal protein L27 | 0 | 77 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | GSTRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEFQDRGRLGRYVHVRPL |
| 50S ribosomal protein L28 | 1 | 97 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | SKVCEISGKRPIVANSIQRRGKAKREGGVGKKTTGISKRRQYPNLQKVRVRVAGQEITFRVAASHIPKVYELVERAKGLKLEGLSPKEIKKELLKLL |
| 50S ribosomal protein L29 | 2 | 70 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | MKLSEVRKQLEEARKLSPVELEKLVREKKRELMELRFQASIGQLSQNHKIRDLKRQIARLLTVLNEKRRQ |
| 50S ribosomal protein L30 | 3 | 59 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | PRLKVKLVKSPIGYPKDQKAALKALGLRRLQQERVLEDTPAIRGNVEKVAHLVRVEVVE |
| 50S ribosomal protein L31 | 4 | 69 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | MKEGIHPKLVPARIICGCGNVIETYSTKPEIYVEVCSKCHPFYTGQQRFVDTEGRVERFQRRYGDSYRK |
| 50S ribosomal protein L32 | 5 | 59 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | AKHPVPKKKTSKARRDARRSHHALTPPTLVPCPECKAMKPPHTVCPECGYYAGRKVLEV |
| 50S ribosomal protein L33 | 6 | 53 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | ASEVRIKLLLECTECKRRNYATEKNKRNTPNKLELRKYCPWCRKHTVHREVKI |
| 50S ribosomal protein L34 | 7 | 48 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | MKRTWQPNRRKRAKTHGFRARMRTPGGRKVLKRRRQKGRWRLTPAVRK |
| 30S ribosomal protein S4 | D | 208 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | GRYIGPVCRLCRREGVKLYLKGERCYSPKCAMERRPYPPGQHGQKRARRPSDYAVRLREKQKLRRIYGISERQFRNLFEEASKKKGVTGSVFLGLLESRLDNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSYRVRPGDEIAVAEKSRNLELIRQNLEAMKGRKVGPWLSLDVEGMKGKFLRLPDREDLALPVNEQLVIEFYSR |
| 50S ribosomal protein L35 | 8 | 64 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | PKMKTHKGAKKRVKITASGKVVAMKTGKRHLNWQKSGKEIRQKGRKFVLAKPEAERIKLLLPYE |
| 50S ribosomal protein L36 | 9 | 37 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | MKVRASVKRICDKCKVIRRHGRVYVICENPKHKQRQG |
| 50S ribosomal protein L1 | C | 226 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | KHGKRYRALLEKVDPNKVYTIDEAARLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVGAVGSKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRINPHS |
| 50S ribosomal protein L3 | E | 204 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | MKGILGVKVGMTRIFRDDRAVPVTVILAGPCPVVQRRTPEKDGYTAVQLGFLPQNPKRVNRPLKGHFAKAGVEPVRILREIRDFNPEGDTVTVEIFKPGERVDVTGTSKGRGFAGVMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKGKKMAGHYGAERVTVMNLEVVDVIPEENLLLVKGAVPGPNGGLVIVRETKKA |
| 50S ribosomal protein L4 | F | 203 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | VYQIPVLSPSGRRELAADLPAEINPHLLWEVVRWQLAKRRRGTASTKTRGEVAYSGRKIWPQKHTGRARHGDIGAPIFVGGGVVFGPKPRDYSYTLPKKVRKKGLAMAVADRAREGKLLLVEAFAGVNGKTKEFLAWAKEAGLDGSESVLLVTGNELVRRAARNLPWVVTLAPEGLNVYDIVRTERLVMDLDAWEVFQNRIGG |
| 50S ribosomal protein L5 | G | 181 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | PLDVALKRKYYEEVRPELIRRFGYQNVWEVPRLEKVVINQGLGEAKEDARILEKAAQELALITGQKPAVTRAKKSISNFKLRKGMPIGLRVTLRRDRMWIFLEKLLNVALPRIRDFRGLNPNSFDGRGNYNLGLREQLIFPEITYDMVDALRGMDIAVVTTAETDEEARALLELLGFPFRK |
| 50S ribosomal protein L6 | H | 173 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | RIGRLPIPVPKGVSVEVAPGRVKVKGPKGELEVPVSPEMRVVVEEGVVRVERPSDERRHKSLHGLTRTLIANAVKGVSEGYSKELLIKGIGYRARLVGRALELTVGFSHPVVVEPPEGITFEVPEPTRVRVSGIDKQKVGQVAANIRAIRKPSAYHEKGIYYAGEPVRLKPGK |
| 50S ribosomal protein L9 | I | 146 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAERKAEAERLKEILENLTLTIPVRAGETKIYGSVTAKDIAEALSRQHGVTIDPKRLALEKPIKELGEYVLTYKPHPEVPIQLKVSVVA |
| 30S ribosomal protein S10 | J | 96 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | RIKLRGFDHKTLDASAQKIVEAARRSGAQVSGPIPLPTRVRRFTVIRGPFKHKDSREHFELRTHNRLVDIINPNRKTIEQLMTLDLPTGVEIEIKT |
| 30S ribosomal protein S11 | K | 114 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | QVASGRAYIHASYNNTIVTITDPDGNPITWSSGGVIGYKGSRKGTPYAAQLAALDAAKKAMAYGMQSVDVIVRGTGAGREQAIRALQASGLQVKSIVDDTPVPHNGCRPKKKFR |
| 30S ribosomal protein S12 | L | 122 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | PTINQLVRKGREKVRKKSKVPALKGAPFRRGVCTVVRTVTPKKPNSALRKVAKVRLTSGYEVTAYIPGEGHNLQEHSVVLIRGGRVKXLPGVRYHIVRGVYDAAGVKDRKKSRSKYGTKKPK |
| 30S ribosomal protein S13 | M | 114 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | RIAGVEIPRNKRVDVALTYIYGIGKARAKEALEKTGINPATRVKDLTEAEVVRLREYVENTWKLEGELRAEVAANIKRLMDIGCYRGLRHRRGLPVRGQRTRTNARTRKGPRKT |
| 50S ribosomal protein L13 | N | 140 | Escherichia Coli K-12 , Thermus Thermophilus (Strain Hb8 / Atcc 27634 / Dsm 579) , Synthetic Construct | MKTYVPKQVEPRWVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVNADKIRVTGKKLEQKIYTRYSGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKGPLGRRLFKRLKVYAGPDHPHQAQRPEKLEV |
Experimental Data
Method: ELECTRON MICROSCOPY
Deposited Date: 2017-02-07 Deposition Author(s): Dunham, C.M. , Hong, S. , Skiniotis, G. , Zhang, Y.