Ribosome 3D structures: Difference between revisions

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*30S subunit + RNA

**[[5x8r]] – s30S ribosomal subunit – spinach - Cryo-EM<br />

**[[2zm6]], [[1n36]], [[1j5e]], [[3oto]], [[5wnq]], [[5wnr]], [[5wns]], [[5wnt]], [[5wnu]], [[5wnv]] - Tt30S ribosomal subunit+THX+16S rRNA – Thermus thermophiles<br />

**[[6v3e]], [[6ys5]], [[6yt9]] – Ab30S – Acinetobacter baumannii - Cryo EM<br />

**[[7bgd]], [[7bge]], [[7kwg]] – Sa30S – Staphylococcus aureus - Cryo-EM<br />

*30S subunit +tRNA+mRNA

**[[6vu3]] – Ec30S + mRNA - Cryo EM<br />

**[[3t1h]] - Tt30S ribosomal subunit+16S rRNA+tRNA Lys +mRNA<br />  

**[[6dti]], [[6mkn]] - Tt30S ribosomal subunit+16S rRNA+tRNA Arg +mRNA<br />

**[[4v8j]] - Tt30S ribosomal subunit+16S rRNA+tRNA Phe+tRNA fMet+mRNA<br />

**[[1xnq]], [[1xnr]] - Tt30S ribosomal subunit+THX+mRNA+tRNA anticodon+16S rRNA<br />

**[[4gkj]], [[4gkk]] - Tt30S ribosomal subunit +16S rRNA +THX + mRNA + tRNA Met<br />

**[[4jv5]], [[4jya]], [[4k0k]] - Tt30S ribosomal subunit +16S rRNA +THX + mRNA + ASL-tRNA <br />

*30S subunit +A-site tRNA

**[[2uxd]], [[2uxc]] -  Tt30S ribosomal subunit+THX+A-site mRNA CGGG+tRNA anticodon+16S rRNA<br />

**[[1n32]], [[1n33]] - Tt30S ribosomal subunit+THX+A-site mRNA fragment+tRNA anticodon+16S rRNA<br />

**[[1xmo]], 1xmq]] - Tt30S ribosomal subunit+THX+A-site mRNA+tRNA anticodon+16S rRNA<br />

**[[2uxb]] - Tt30S ribosomal subunit+THX+A-site mRNA GGGU+tRNA anticodon+16S rRNA<br />

*30S subunit+P-site tRNA

**[[1ibk]] - Tt30S ribosomal subunit+THX+P-site mRNA fragment +16S rRNA<br />

**[[2om7]] – TtRPS2+TtRPS12+TtRPL1+ P-site tRNA+16S rRNA fragment+23S RRNA fragment<br />

**[[5u4j]] – EcRPS3+EcRPS4+EcRPS5 + EcRPS12 + P-site tRNA+16S rRNA +23S rRNA + mRNA + RF-2 – Cryo EM<br />

**[[5zeu]] - Ms30S ribosomal subunit + P-site tRNA f`Met +16S rRNA - Cryo EM<br />

*30S subunit+A-site tRNA+P-site tRNA

**[[1ibl]], [[1ibm]] - Tt30S ribosomal subunit+THX+A-site mRNA fragment+P-site mRNA fragment+tRNA anticodon+16S rRNA<br />

*30S subunit+A-site tRNA+P-site tRNA+E-site tRNA

**[[1jgo]], [[1jgp]], [[1jgq]] -  Tt30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+tRNA Phe+mRNA +16S rRNA<br />

*30S subunit + antibiotics

**[[1i95]], [[1i97]], [[2hhh]], [[2f4v]], [[4dr3]], [[6cap]], [[6car]] -  Tt30S ribosomal subunit+16S rRNA+antibiotic<br />

**[[1hnx]], [[1hnw]], [[1hnz]], [[1fjg]], [[3t1y]], [[4aqy]], [[4dr5]], [[4dr6]], [[4dr7]], [[4khp]], [[7dug]], [[7duh]] [[7dui]], [[7duj]], [[7duk]], [[7dul]] - Tt30S ribosomal subunit+16S rRNA+mRNA fragment+antibiotic <br />

**[[6mpf]], [[6mpi]] - Tt30S ribosomal subunit +A-site tRNA-Arg +mRNA +16S rRNA+ antibiotic<br />

**[[6ypu]], [[6ytf]], [[7m4u]] – Ab30S + antibiotic - Cryo EM<br />

*30S subunit + ribosome recycling factor

**[[4v9d]] - Ec30S ribosomal subunit+16S rRNA+ribosome recycling factor + mRNA + tRNA  <br />

*30S subunit + elongation factor

**[[4v90]] - Tt30S ribosomal subunit+THX+RNA +16S rRNA+elongation factor G<br />

**[[6enu]] - Ec30S ribosomal subunit+THX+RNA +16S rRNA+elongation factor P – Cryo EM<br />

*30S subunit + translation initiation factor

**[[1hr0]] - Tt30S ribosomal subunit+THX+IF+16S rRNA<br />

**[[1i96]] -  Tt30S ribosomal subunit+THX+IF3+16S rRNA<br />

**[[6o7k]] -  Ec30S ribosomal subunit+THX+IF1 + IF2 +16S rRNA  - tRNA + mRNA – Cryo EM<br />

*30S subunit + various proteins

**[[1x18]] – TtRPS2+TtRPS7+TtRPS11+TtRPS18+GTP-binding protein ERA+RNA fragments<br />  

**[[6ny6]] - Tt30S ribosomal subunit + toxin YoeB<br />

**[[6tmf]] - 30S ribosomal subunit + RNA-binding protein + L7AE + L41E + ATPase +16S rRNA – Thermococcus celer - Cryo EM<br />

**[[8bh7]] - Sa30S + RimP<br />

*40S ribosomal subunit  

**[[6g4s]], [[6g53]], [[6g18]], [[6g51]], [[6g5i]], [[6zuo]], [[6zv6]], [[6zxd]], [[6zxe]], [[6zxf]], [[6zxg]], [[6zxh]] - h40S ribosomal subunit - Cryo-EM<br />

**[[4uje]] – r40S subunit - Cryo EM<br />

**[[5tzs]], [[5wic]], [[6nd4]], [[6rbd]], [[8c00]]- y40S ribosomal subunit – yeast - Cryo-EM<br />

**[[7pwf]], [[7pwo]], [[8bsi]], [[8bsj]], [[8btr]] – Gl40S – Giardia lambia - Cryo EM<br />

*pre-40S ribosomal subunit

**[[7wts]], [[7wtt]], [[7wtu]], [[7wtv]], [[7wtw]] - hpre-40S ribosomal subunit - Cryo-EM<br />

**[[7wtl]], [[7wtp]], [[7wtq]], [[7wtr]]- ypre-40S ribosomal subunit – yeast - Cryo-EM<br />

*40S ribosomal subunit complex

**[[6nf8]], [[6neq]] - h40S ribosomal subunit + translation initiation factor 3 - Cryo-EM<br />

**[[5oa3]] - h40S ribosomal subunit + translation initiation factor 2D - Cryo-EM<br />

**[[5opt]] – Tc40S ribosomal subunit + KSRP – Trypanosoma cruzi - Cryo-EM<br />

**[[6okk]] – Pf40S ribosomal subunit + antibiotics – Plasmodium falciparum - Cryo-EM<br />

*43S preinitiation

**[[6zvj]], [[7a09]] – h43S + ABCE-1 - Cryo_EM<br />

**[[6zon]], [[6zp4]] – h43S + SARS Nsp1 - Cryo_EM<br />

**[[8cah]] – y43S pre-initiation complex + Otu2 – Cryo EM <br />

**[[7ase]] – Tc43S + helicase - Cryo_EM<br />

*48S preinitiation

**[[6fec]], [[6ybs]], [[6ybw]], [[6zmw]], [[7qp6]], [[7qp7]] – h48S - Cryo_EM<br />

**[[6ybd]] – h48S + eIF3 - Cryo_EM<br />

**[[6zu9]] – y48S + ABCE-1 - Cryo_EM<br />

**[[8cas]] – y48S pre-initiation complex + Otu2 – Cryo EM <br />

*50S subunit

**[[2ftc]] – b50S subunit – bovine - Cryo_EM<br />

**[[5mmi]], [[5x8t]] – s50S ribosomal subunit - Cryo-EM<br />

**[[6v3d]] – Ab50S - Cryo EM<br />

**[[7pwg]], [[8br8]] – Gl50S – Giardia lambia - Cryo EM<br />

*50S subunit + antibiotics

**[[1z58]], [[4io9]], [[4ioa]], [[4ioc]], [[7a0r]], [[7a0s]], [[7a18]] - Dr50S + antibiotic<br />

**[[3dll]], [[2zjp]], [[3cf5]], [[1xbp]], [[1sm1]], [[1nwx]], [[1nwy]], [[3pio]], [[3pip]] - Dr50S subunit +general stress protein Ctc+ antibiotic<br />  

**[[5v7q]], [[7f0d]] – Mt50S subunit + antibiotic – Mycobacterium tuberculosis – Cryo EM<br />

**[[6yhs]], [[6ysi]], [[7m4v]] – Ab50S + antibiotic - Cryo EM<br />

*50S subunit + ribosome releasing factor (RRF)

**[[1zn0]], [[2rdo]] - Ec50S subunit +EF-G+RRF – Cryo-EM<br />

**[[3j0d]] - Tt50S subunit+RRF – Cryo-EM<br />

**[[1y69]] - Dr50S subunit+RRF <br />

**[[7pau]] – Mp50S + RRF – Mycoplasmoides pneumoniae – Cryo EM<br />

*50S subunit + various proteins

**[[2j28]] - Ec50S subunit +signal recognition particle – Cryo-EM<br />

**[[6i0y]] - Ec50S subunit + tRNA – Cryo-EM<br />

**[[7kgb]], [[7sfr]] - Mt50S + SEQ-9 – Cryo EM<br />

**[[2d3o]] – Dr50S subunt + trigger factor<br />

*60S subunit

**[[7qiw]] – t60S subunit - Cryo EM<br />

**[[6n8j]], [[6n8k]], [[6n8l]], [[6n8m]], [[6n8n]], [[6n8o]], [[6qik]], [[6qt0]], [[6qtz]], [[6r86]], [[6ri5]], [[6rzz]], [[6s05]], [[7nac]], [[7nad]], [[7r6k]], [[7r6q]], [[7r72]], [[7r7a]], [7r7c]], [[7u0h]] – y60S subunit - Cryo EM<br />

**[[6yxy]] – Tb60S - Cryo-EM<br />

**[[7pwg]] – Gl60S - Cryo EM<br />

*pre-60S subunit

**[[6lu8]], [[8fkp]], [[8fkq]], [[8fkr]], [[8fks]], [[8fkt]], [[8fku]], [[8fkv]], [[8fkw]], [[8fkx]], [[8fky]], [[8fkz]], [[8fl0]], [[8fl2]], [[8fl3]], [[8fl4]], [[8fl6]], [[8fl7]], [[8fl9]], [[8fla]], [[8flb]], [[8flc]], [[8fld]], [[8fle]], [[8flf]], [[8idt]], [[8idy]], [[8ie3]], [[8ine]], [[8inf]], [[8ink]], [[8ipd]], [[8ipx]], [[8ipy]], [[8ir1]], [[8ir3]] – hpre-60S subunit - Cryo EM<br />

**[[3jct]], [[6m62]], [[7ug6]] – ypre-60S subunit - Cryo EM<br />

**[[8i9p]], [[8i9r]], [[8i9t]], [[8i9v]], [[8i9w]], [[8i9z]], [[8ia0]] – Ctpre-60S – Chaetomium thermophilum - Cryo-EM<br />

**[[8i9x]], [[8i9y]] – Ctpre-60S + Ytm1-1 - Cryo-EM<br />

*60S subunit + various proteins

**[[4v6x]] – h60S subunit + P0 + P1 + P2 - Cryo EM<br />

**[[7ow7]] – h60S subunit + eIF6 - Cryo EM<br />

**[[4v6w]] – Dm60S subunit + P0 – Drosophila melanogaster - Cryo EM<br />

**[[4v8p]] - Tet60S subunit+ 26S rRNA+ translation initiation factor 6 <br />

*70S ribosome

**[[4v61]], [[5h1s]], [[5mlc]], [[5mmm]], [[5x8p]] – sRibosome - Cryo-EM<br />

**[[4v4q]], [[4v9d]], [[4ybb]], [[5it8]], [[5j88]], [[5jc9]], [[6c4i]], [[6c4h]], [[6by1]] - EcRibosome <br />

**[[7p6z]] – MpRibosome – Cryo EM<br />

**[[6skf]], [[6skg]] – TkRibosome – Thermococcus kodakarensis - Cryo EM<br />

*70S ribosome complex with mRNA and tRNA

**[[4v50]] – EcRibosome + mRNA<br />

**[[4v6n]], [[4v6o]], [[4v6p]], [[4v6q]], [[4v6r]], [[4v6s]], [[6vyu]], [[6vz3]], [[6vzj]], [[7jss]], [[7jsw]], [[7jsz]], [[8bil]], [[8bim]] – EcRibosome + mRNA – Cryo-EM<br />

**[[6v39]], [[6v3a]], [[7uvw]] – AbRibosome + tRNA – Cryo EM<br />

**[[7p7u]] - EfRibosome + P-tRNA - Cryo-EM<br />

*70S ribosome complex with antibiotic

**[[4u1v]], [[4u20]], [[4u24]], [[4u25]], [[4u26]], [[4u27]], [[4u4z]], [[4v52]], [[4v53]], [[4v56]], [[4v57]], [[4v64]], [[4v4h]], [[4v7s]], [[4v7t]], [[4v7u]], [[4v7v]], [[4wf1]], [[4woi]], [[4www]], [[5j5b]], [[5j7l]], [[5j8a]], [[5j91]], [[7s1i]], [[7s1j]] – EcRibosome + antibiotic<br />

**[[6y69]], [[6y6x]], [[7n2v]], [[7q4k]], [[7s1g]], [[7s1h]], [[7s1k]], [[7zta]], [[8b7y]] – EcRibosome + antibiotic – Cryo EM<br />

**[[7pit]] – MpRibosome + EF-G + A/P-site tRNA + P/E-site tRNA +  antibiotic– Cryo EM<br />

**[[8crx]] – Ribosome + mRNA + P-site tRNA + antibiotic – Cutibacterium acnes - Cryo EM<br />

*70S ribosome complex with release factor

**[[6eri]] – sRibosome + RRF + hibernation promoting factor - Cryo-EM<br />

**[[4v5a]] – TtRibosome + RRF<br />

**[[4v85]] – EcRibosome + RF-3 + mRNA + antibiotic<br />

**[[6gwt]], [[6gxm]], [[6gxn]], [[6gxo]], [[7m5d]] – EcRibosome + RF-1+ RF-3 + P-site tRNA – Cryo-EM<br />

*70S ribosome complex with various proteins

**[[4v5b]] – EcRibosome + PDF-binding helix<br />

**[[4v5h]] – EcRibosome + Tnac leader peptide<br />

**[[7unr]], [[7unu]], [[7unv]], [[7unw]] – PaRibosome + IF2-GDP – Cryo EM<br />

**[[4v4n]] – Ribosome + SecYE – Methanococcus jannaschii - Cryo-EM<br />

*70S ribosome complex with tRNA mRNA

**[[6gsj]], [[6gsk]], [[6gsl]] – TtRibosome + A-site tRNA-Thr + mRNA + tRNA-fMet <br />

**[[6n1d]] – TtRibosome + mRNA + tRNA <br />

**[[7pal]], [[7pan]] – MpRibosome + A/P-site tRNA + P/E-site tRNA – Cryo EM<br />

**[[7pak]], [[7pao]] – MpRibosome + A/P-site tRNA + P/E-site tRNA + EF-G – Cryo EM<br />

*70S ribosome complex with elongation factor

**[[4v9o]] – EcRibosome + EF-G<br />

**[[4v47]], [[4v7c]], [[4v7d]], [[7k50]], [[7k51]], [[7k52]], [[7k53]], [7k54]], [[7k55]], [[7n2c]], [[7st2]] – EcRibosome + EF-G – Cryo-EM<br />

**[[7par]] – MpRibosome + EF-G + A/P-site tRNA + P/E-site tRNA – Cryo EM<br />

**[[7pis]] – MpRibosome + EF-G + A-site tRNA + P-site tRNA+ inhibitor – Cryo EM<br />

*80S ribosome  

**[[4ug0]], [[5t2c]], [[6ip5]], [[6qzp]], [[6w6l]], [[6y0g]], [[6y2l]], [[6y57]], [[7bhp]], [[7xnx]], [[7xny]], [[7zfw]], [[8g5y]], [[8g5z]], [[[8g60]], [8g6j]] – hRibosome - Cryo-EM<br />

**[[4v5z]] -  dRibosome – dog - Cryo-EM <br />

**[[7pzy]] – Ca80S – Candida albicans - Cryo EM<br />

**[[8a98]] – Lm80S - Cryo EM<br />

*80S ribosome complexes

**[[6r6p]] – hRibosome + XBP1u - Cryo-EM<br />

**[[6zvh]] – hRibosome + EDF1 - Cryo-EM<br />

**[[8bpo]] – rRibosome +b-tubulin + TTC5 + SCAPER - Cryo-EM<br />

**[[6z6j]], [[6z6k]] – rRibosome + Lso2 - Cryo-EM<br />

**[[7toq]], [[7tor]] - rRibosome + GR20 – Cryo-EM<br />

**[[7tm3]], [[7tut]] - rRibosome + rhodopsin – Cryo-EM<br />

**[[3j7a]] – PfRibosome + antimicrobial drug – Cryo EM<br />

**[[7z3n]], [[7z3o]] – Ribosome + RAC – Thermochaetoides thermophile - Cryo EM<br />

*80S ribosome complex with virus IRES

**[[5a2q]] - hRibosome + IRES – Cryo-EM<br />

**[[6p5i]], [[6p5j]], [[6p5k]], [[6p5n]], [[6ip6]], [[6ip8]], [[6zvk]], [[7a01]] - rRibosome + IRES – Cryo-EM<br />

**[[4v91]], [[4v92]] – KlRibosome + IRES - Cryo-EM<br />

**[[5it7]] – KlRibosome + eEF2 + IRES - Cryo-EM<br />

*80S ribosome complex with antibiotics

**[[5lks]] – hRibosome + antibiotic – Cryo EM<br />

**[[7nwh]], [[7nwi]] – rRibosome + antibiotic – Cryo EM<br />

**[[7q08]], [[7q0f]], [[7q0p]], [[7q0r]], [[8q5i]] – CaRibosome + antibiotic – Cryo EM<br />

**[[3j79]] – PfRibosome + antibiotic – Cryo EM<br />

*90S pre-ribosome  

**[[6ke6]], [[6lqp]], [[6lqq]], [[6lqr]], [[6lqs]], [[6lqt]], [[6lqu]], [[6lqv]], [[6lss]], [[6zqa]], [[6zqb]], [[6zqc]], [[6zqd]], [[6zqe]], [[6zqf]], [[6zqg]], [[7ajt]], [[7aju]], [[7d5s]], [[7d5t]], [[7d63]] -  yRibosome - Cryo-EM <br />

**[[7d4i]] -  yRibosome + Dhr1 - Cryo-EM <br />

**[[5jpq]], [[5oql]], [[5wyj]], [[5wyk]], [[6rxt]], [[6rxu]], [[6rxx]], [[6rxy]], [[6rxz]], [[6rxv]] – pre-CtRibosome - Cryo-EM<br />

*100S ribosome  

**[[6h4n]], [[6h58]] -  EcRibosome - Cryo-EM <br />

**[[6gzx]], [[6gzz]] -  TtRibosome - Cryo-EM <br />

**[[5ngm]], [[6fxc]] -  SaRibosome - Cryo-EM <br />

**[[5njt]] -  BsRibosome - Cryo-EM <br />

*Mitoribosome or mitochondrial ribosome

*Mitoribosome 28S small subunit  

**[[7po3]], [[8csr]], [[8css]], [[8csu]] – h28S ribosomal subunit - Cryo-EM<br />

**[[7pnx]], [[7pny]], [[7pnz]] – h28S ribosomal subunit + RbfA + METTL15 - Cryo-EM<br />

**[[6yw5]] – Nc28S - Cryo-EM<br />

**[[3iy8]] – 28S ribosomal subunit – Leishmania arentolae - Cryo-EM<br />

*Mitoribosome 39S large subunit  

**[[5oom]], [[7od4]], [[7ods]], [[7odt]], [[7of4]], [[7of6]], [[7oi6]], [[7oi7]], [[7oi8]], [[7oi9]], [[7oia]], [[7oib]], [[7oic]], [[7oid]], [[7oie]] – h39S ribosomal subunit - Cryo-EM<br />

**[[5ool]] – h39S ribosomal subunit + rRNA - Cryo-EM<br />

**[[7aih]] – Lm39S - Cryo-EM<br />

**[[6yws]] – Nc39S - Cryo-EM<br />

*Mitoribosome 55S small+large subunits

**[[3j9m]] – h55S - Cryo EM<br />

**[[6nu2]], [[6nu3]], [[6zs9]], [[7l08]] – h55S + RRF - Cryo EM<br />

**[[8apn]] – Pm55S + P-tRNA - Cryo EM<br />

**[[8apo]] – Pm55S + A-tRNA + P-tRNA - Cryo EM<br />

*Disome

**[[7qvp]]  – hDisome - Cryo-EM<br />

**[[6i7o]], [[6t83]], [[7zuw]], [[7zux]]  – yDisome - Cryo-EM<br />

**[[7qgu]], [[7qh4]], [[7qv1]], [[7qv2]], [[7qv3]] – BsDisome - Cryo-EM<br />

**[[8p60]]  – SlDisome - Cryo-EM<br />

*Polyribosome

**[[4v3p]]  – wRibosome - Cryo-EM<br />