Ribosomal protein S3

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[[Image:S3.png|left|200px|thumb|Crystal Structure of Ribosomal protein S3 (RPS3), [[3kc4]]]]
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<StructureSection load='1wh9' size='350' side='right' scene='' caption='Human ribosomal protein S3 KH domain (PDB code [[1wh9]])'>
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{{STRUCTURE_3kc4| PDB=3kc4 | SIZE=400| SCENE=Ribosomal_protein_S3/Cv/1 |right|CAPTION=Ribosomal protein S3 (RPS3), [[3kc4]] }}
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== Function ==
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'''Ribosomal protein S3''' (RPS3) is one of the 21 proteins which belong to the 30S <scene name='Ribosomal_protein_S3/Cv/6'>small subunit</scene> of the [http://en.wikipedia.org/wiki/Bacteria bacterial] [[ribosome]] or the 30 proteins which belong to the 40S small subunit of the eukaryotic ribosome. The eukaryote 40S small subunit contains 30 proteins. It is known to be involved in the binding of initiator tRNA fMet<ref>PMID:19656744</ref>.
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== Relevance ==
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RPS3 is secreted in cancer cells thus it is an indicator of malignant tumors<ref>PMID:24211576</ref>. RPS3 linked to a leader peptide could be potential therapeutic agent against Alzheimer disease<ref>PMID:23178948</ref>.
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</StructureSection>
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== 3D Structures of ribosomal protein S3 ==
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'''Ribosomal protein S3''' (RPS3) is one of the 22 proteins which belong to the <scene name='Ribosomal_protein_S3/Cv/6'>small subunit</scene> of the [http://en.wikipedia.org/wiki/Bacteria bacterial] [[ribosome]]. It is known to be involved in the binding of initiator tRNA fMet. The images at the left and at the right correspond to one representative RPS3, ''i.e.'' the crystal structure of Ribosomal protein S3 from ''Escherichia coli'' ([[3kc4]]).
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{{TOC limit|limit=2}}
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== 3D Structures of Ribosomal protein S3 ==
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Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
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=== S3 in small ribosomal subunit ===
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[[1wh9]] – RPS3 KH domain – human<br />
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[[4bsz]] – RPS3 + Yar1 – yeast<br />
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[[2zm6]], [[1n36]], [[1j5e]], [[3oto]] - TtRPS3 in 30S ribosomal subunit+THX+16S RRNA – ''Thermus thermophilus''<br />
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[[2vqe]], [[2vqf]], [[2uuc]], [[2e5l]], [[2uu9]], [[2uua]], [[2uub]], [[3pyn]], [[3pyq]], [[3pys]], [[3pyu]] - TtRPS3 in 30S ribosomal subunit+16S RRNA+RNA fragment<br />
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[[3kc4]] – EcRPS3 in 30S ribosomal subunit - ''Escherichia coli''<br />
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[[3i1m]], [[3i1o]], [[3df1]], [[3df3]], [[2vho]], [[2vhp]], [[2avy]], [[2aw7]], [[1pnx]] - EcRPS3 in 30S ribosomal subunit+16S RRNA<br />
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[[1i94]], [[1fka]], [[3uxs]], [[3uxt]], [[4dr1]] - TtRPS3 in 30S ribosomal subunit+16S RRNA<br />
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[[4duy]], [[4duz]], [[4dv0]], [[4dv1]], [[4dv2]], [[4dv3]], [[4dv4]], [[4dv5]], [[4dv6]], [[4dv7]] – TtRPS3 in 30S ribosomal subunit+16S RRNA (mutant)<br />[[4dr4]], [[4b3m]], [[4b3r]], [[4b3s]], [[4b3t]] – TtRPS3 in 30S ribosomal subunit+16S RRNA + mRNA<br />
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[[1p87]] - EcRPS3 in 30S ribosomal subunit+16S RRNA – Cryo-EM<br />
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[[3bbn]] - RPS3 in 30S ribosomal subunit+16S RRNA – Cryo-EM – spinach<br />
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=== S3 in small + large ribosomal subunit ===
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[[1ml5]] - EcRPS3 in 30S ribosomal subunit+50S ribosomal subunit+THX+chain release factor 2+P-site tRNA+tRNA<br /> Phe+mRNA fragment+23S RRNA+5S RRNA+16S RRNA - EM<br />
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=== S3 in small ribosomal subunit+ chain release factor (RF)===
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[[3mr8]], [[3ms0]] – TtRPS3 in 30S ribosomal subunit+THX+chain release factor 1+P-site tRNA+mRNA+16S RRNA<br />
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[[3d5a]], [[3d5c]] - TtRPS3 in 30S ribosomal subunit+THX+chain release factor 1+P-site tRNA+E-site tRNA+mRNA +16S RRNA<br />
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[[3zvo]] - TtRPS3 in 30S ribosomal subunit+THX+P-site tRNA Met +mRNA +16S RRNA+chain release factor 3<br />
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[[2b64]] - TtRPS3 in 30S ribosomal subunit+THX+P-site tRNA Phe+E-site tRNA Phe+mRNA +16S RRNA+chain release factor 1<br />
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[[2b9m]] - TtRPS3 in 30S ribosomal subunit+THX+P-site tRNA Phe+E-site tRNA Phe+mRNA +16S RRNA+chain release factor 2<br />
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[[2x9r]], [[2x9t]], [[2wh1]], [[2wh3]] - TtRPS2 in 30S ribosomal subunit+THX+chain release factor 2+P-site tRNA+mRNA +16S RRNA<br />
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[[3f1e]], [[3f1g]] - TtRPS3 in 30S ribosomal subunit+THX+chain release factor 2+P-site tRNA+E-site tRNA +16S RRNA<br />
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[[4kfh]], [[4kfk]] – TtRPS3 in 30S ribosomal subunit+16S RRNA+ RF-2 + mRNA+ P-site tRNA fMet<br />
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=== S3 in small ribosomal subunit+tRNA+mRNA ===
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[[2hgi]] - TtRPS3 in 30S ribosomal subunit+16S RRNA+tRNA Phe+tRNA fMet<br />
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[[4l6k]], [[4l6m]] – TtRPS3 in 30S ribosomal subunit+16S RRNA+tRNA Phe+tRNA<br />
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[[2hgp]], [[2i2p]], [[2i2u]] - TtRPS3 in 30S ribosomal subunit+16S RRNA+tRNA Phe+mRNA<br />
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[[3t1h]], [[3t1y]] - TtRPS3 in 30S ribosomal subunit+16S RRNA+tRNA Lys +mRNA<br />
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[[3tvf]], [[3tvg]], [[3uyd]], [[3uyf]] - TtRPS3 in 30S ribosomal subunit+16S RRNA+tRNA Leu + tRNA fMet + mRNA<br />
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[[3zn7]], [[3znd]] – TtRPS3 in 30S ribosomal subunit+16S RRNA+A-site tRNA Ile agmatidine + E-site tRNA Ile agmatidine + mRNA<br />
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[[3uz6]], [[3uz7]], [[3uzg]], [[3uzi]] - TtRPS3 in 30S ribosomal subunit+16S RRNA+tRNA Tyr + tRNA fMet + mRNA<br />
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[[2hgr]], [[3v6u]], [[3v6v]], [[4ej9]], [[4eja]] - TtRPS3 in 30S ribosomal subunit+16S RRNA+tRNA Phe+tRNA fMet+mRNA<br />
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[[1yl4]] – TtRPS3 in 30S ribosomal subunit+ tRNA Phe+16S RRNA+THRS mRNA operator<br />
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[[1pns]] - EcRPS3 in 30S ribosomal subunit+ tRNA Phe+16S RRNA+mRNA <br />
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[[3j0u]], [[3j0v]], [[3j0x]], [[3j0z]], [[3j10]], [[3j20]] – EcRPS3 in 30S ribosomal subunit+ A-site tRNA + P-site tRNA +16S RRNA+mRNA – Cryo-EM<br />
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[[3j13]] – EcRPS3 in 30S ribosomal subunit+ P-site tRNA +16S RRNA+mRNA – Cryo-EM<br />
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[[1xnq]], [[1xnr]]- TtRPS3 in 30S ribosomal subunit+THX+mRNA+tRNA anticodon+16S RRNA<br />
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[[4gkj]], [[4gkk]] – TtRPS3 in 30S ribosomal subunit +16S RRNA +THX + mRNA + tRNA Met<br />
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[[4jv5]], [[4jya]], [[4k0k]], [[4k0l]] – TtRPS3 in 30S ribosomal subunit +16S RRNA +THX + mRNA + ASL-tRNA <br />
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=== S3 in small ribosomal subunit+A-site tRNA ===
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[[2uxd]], [[2uxc]] - TtRPS3 in 30S ribosomal subunit+THX+A-site mRNA CGGG+tRNA anticodon+16S RRNA<br />
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[[1n32]], [[1n33]] - TtRPS3 in 30S ribosomal subunit+THX+A-site mRNA fragment+tRNA anticodon+16S RRNA<br />
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[[1n34]] - TtRPS3 in 30S ribosomal subunit+THX+A-site mRNA fragment +16S RRNA<br />
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[[1xmo]], [[1xmq]] - TtRPS3 in 30S ribosomal subunit+THX+A-site mRNA+tRNA anticodon+16S RRNA<br />
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[[2uxb]] - TtRPS3 in 30S ribosomal subunit+THX+A-site mRNA GGGU+tRNA anticodon+16S RRNA<br />
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=== S3 in small ribosomal subunit+P-site tRNA ===
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[[3i8g]] - TtRPS3 in 30S ribosomal subunit+P-site tRNA+mRNA +16S RRNA<br />
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[[3i8h]], [[3i9b]], [[3i9d]] - TtRPS3 in 30S ribosomal subunit+THX+P-site tRNA+mRNA +16S RRNA<br />
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[[1ibk]] - TtRPS3 in 30S ribosomal subunit+THX+P-site mRNA fragment +16S RRNA<br />
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[[2wwl]] - EcRPS3 in 30S ribosomal subunit+Poly-Ala chain+P-site tRNA+mRNA +16S RRNA - ''Escherichia coli''<br />
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[[3i1q]] - EcRPS3 in 30S ribosomal subunit+P-site tRNA hairpin+mRNA <br />
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[[3i1s]], [[3i1z]], [[3i21]] - EcRPS3 in 30S ribosomal subunit+P-site tRNA hairpin+mRNA +16S RNA<br />
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=== S3 in small ribosomal subunit+A-site tRNA+P-site tRNA ===
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[[1ibl]], [[1ibm]] - TtRPS3 in 30S ribosomal subunit+THX+A-site mRNA fragment+P-site mRNA fragment+tRNA anticodon+16S RRNA<br />
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=== S3 in small ribosomal subunit+P-site tRNA+E-site tRNA ===
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[[2ow8]] - TtRPS3 in 30S ribosomal subunit+THX+P-site tRNA Phe+E-site tRNA+mRNA +16S RRNA<br />
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[[2b9o]] - TtRPS3 in 30S ribosomal subunit+THX+P-site tRNA Phe+E-site tRNA Phe+mRNA +16S RRNA<br />
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[[2qnh]] - TtRPS3 in 30S ribosomal subunit+THX+P-site tRNA+E-site tRNA+mRNA +16S RRNA<br />
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[[2wdg]], [[2wdh]], [[2wdk]], [[2wdm]] - TtRPS3 in 30S ribosomal subunit+THX+P-site tRNA+E-site tRNA+mRNA +16S RRNA+tRNA Phe<br />
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=== S3 in small ribosomal subunit+A-site tRNA+P-site tRNA+E-site tRNA ===
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[[2gy9]], [[2gyb]] - EcRPS3 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+mRNA +16S RRNA – Cryo-EM<br />
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[[1jgo]], [[1jgp]], [[1jgq]], [[1gix]] - TtRPS3 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+tRNA Phe+mRNA +16S RRNA<br />
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[[4k0p]] – TtRPS3 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA +mRNA +16S RRNA
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[[3e1a]], [[3e1c]] - EcRPS3 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+mRNA +16S RRNA<br />
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=== S3 in small ribosomal subunit + antibiotics ===
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[[1i95]], [[1i97]], [[2hhh]], [[2f4v]], [[3oge]], [[3ogy]], [[3ohc]], [[3ohd]], [[3ohy]], [[3oi0]], [[3oi2]], [[3oi4]], [[4dr3]] - TtRPS3 in 30S ribosomal subunit+16S RRNA+antibiotic<br />
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[[1hnw]], [[1hnx]], [[1hnz]], [[1fjg]], [[4aqy]], [[4dr5]], [[4dr7]], [[4khp]] - TtRPS3 in 30S ribosomal subunit+16S RRNA+mRNA fragment+antibiotic<br />
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[[2qbb]], [[2qb9]], [[1vs5]], [[1vs7]], [[2qan]], [[2qal]], [[2qou]], [[2qow]], [[2qoy]], [[2qp0]], [[2z4k]], [[2z4m]],[[3oaq]], [[3oar]], [[3ofa]], [[3ofb]], [[3ofo]], [[3ofp]], [[3ofx]], [[3ofy]], [[3or9]], [[3ora]]- EcRPS3 in 30S ribosomal subunit+16S RRNA+antibiotic<br />
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[[3sfs]] – EcRPS3 in 30S ribosomal subunit+16S RRNA+ mRNA + RF-3 + antibiotic<br />
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[[4gaq]], [[4gas]] – EcRPS3 in 30S ribosomal subunit+16S RRNA+ mRNA + antibiotic<br />
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[[2j00]], [[2j02]] - TtRPS3 in 30S ribosomal subunit+16S RRNA+paromomycin+P-site tRNA fMet+E-site tRNA Phe+mRNA<br />
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[[3knl]], [[3knm]], [[3knn]], [[3kno]], [[4knj]], [[4knh]] - TtRPS3 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+mRNA +16S RRNA+ antibiotics<br />
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[[3uz3]], [[3uz4]] - TtRPS3 in 30S ribosomal subunit+16S RRNA+tRNA Leu + tRNA fMet + mRNA + paromomycin<br />
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[[4g5k]], [[4g5m]], [[4g5t]], [[4g5v]] – TtRPS3 in 30S ribosomal subunit+16S RRNA + tRNA fMet + mRNA + antibiotics<br />
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[[3uzl]], [[3uzm]] - TtRPS3 in 30S ribosomal subunit+16S RRNA+tRNA Tyr + tRNA fMet + mRNA + paromomycin
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=== S3 in small ribosomal subunit + ribosome recycling factor ===
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[[2qbd]], [[2qbf]] - EcRPS3 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor<br />
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[[3r8n]], [[3r8o]], [[4gd1]], [[4gd2]] – EcRPS3 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor + mRNA + tRNA<br />
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[[2qbh]], [[2qbj]] - EcRPS3 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor+gentamicin<br />
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[[2v46]], [[2v48]] - TtRPS3 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor+P-site tRNA Phe+mRNA+tRNA fMet<br />
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=== S3 in small ribosomal subunit + elongation factor ===
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[[2wri]], [[2wrk]] - TtRPS3 in 30S ribosomal subunit+THX+P-site tRNA+mRNA +16S RRNA+elongation factor G<br />
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[[2wrn]], [[2wrq]] - TtRPS3 in 30S ribosomal subunit+THX+A-site tRNA+mRNA +16S RRNA+elongation factor TU-4<br />
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[[3fic]] - TtRPS3 in 30S ribosomal subunit+THX+A-site tRNA+P-site tRNA+E-site tRNA+mRNA codon+16S RRNA+elongation factor TU-A<br />
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[[4abr]] - TtRPS3 in 30S ribosomal subunit+THX + E/P-site tRNA fMet +mRNA codon+16S RRNA+elongation factor TU<br />
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[[2y0u]], [[2y0w]], [[2y0y]], [[2y10]], [[2y12]], [[2y14]], [[2y16]], [[2y18]] - TtRPS2 in 30S subunit+THX+A-site tRNA+E-site tRNA+mRNA codon+16S RRNA+elongation factor TU<br />
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[[3fih]] - EcRPS3 in 30S ribosomal subunit+A-site tRNA Phe+P-site tRNA+mRNA +16S RRNA+elongation factor TU<br />
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[[3izv]] – EcRPS3 in 30S ribosomal subunit+A/T-site tRNA Phe +16S RRNA+elongation factor TU<br />
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[[3j18]] - EcRPS3 in 30S ribosomal subunit+A/T-site tRNA Phe +16S RRNA+ mRNA + SSRA-binding protein + formyl-Met specific initiator tRNA + elongation factor G – Cryo-EM<br />
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[[3izw]] – EcRPS3 in 30S ribosomal subunit+A-site tRNA Phe +mRNA +16S RRNA+elongation factor TU<br />
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[[3huw]], [[3huy]] - TtRPS3 in 30S ribosomal subunit+THX+tRNA-Met+mRNA +16S RRNA+elongation factor P<br />
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[[1s1h]] - RPS3 in 40S ribosomal subunit+18S RRNA+elongation factor 2 – Cryo-EM – yeast<br />
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[[4b8f]], [[4b8h]] – TtRPS3 in 30S ribosomal subunit+THX+RNA+mRNA +16S RRNA+elongation factor G<br />
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[[4btc]], [[4kdg]], [[4kdj]] – TtRPS3 in 30S ribosomal subunit+THX+RNA +16S RRNA+elongation factor G<br />
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[[4juw]] – TtRPS3 in 30S ribosomal subunit+THX+ tRNA Phe +16S RRNA + mRNA +elongation factor G<br />
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[[4kbt]], [[4kbv]], [[4kcy]], [[4kd0]], [[4kd8]], [[4kda]] – TtRPS3 in 30S ribosomal subunit+THX+ tRNA Met +16S RRNA + mRNA + viomycin + elongation factor G<br />
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[[4kiy]], [[4kj0]], [[4kj2]], [[4kj4]], [[4kj6]], [[4kj8]], [[4kja]], [[4kjc]] – EcRPS3 in 30S ribosomal subunit +16S RRNA + viomycin + elongation factor G<br />
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=== S3 in small ribosomal subunit + translation initiation factor ===
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[[1i96]] - TtRPS3 in 30S ribosomal subunit+THX+IF3+16S RRNA<br />
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[[1hr0]] - TtRPS3 in 30S ribosomal subunit+THX+IF+16S RRNA<br />
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=== S3 in small ribosomal subunit + various proteins ===
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[[3kiq]], [[3kis]], [[3kiu]], [[3kix]] - TtRPS3 in 30S ribosomal subunit+toxin RelE+16S RRNA<br />
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[[1voq]], [[1vos]], [[1vov]], [[1vox]], [[1voz]] - EcRPS3 in 30S ribosomal subunit+protein Y+16S RRNA<br />
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[[3j36]] – EcRPS3 in 30S ribosomal subunit+ tetracycline resistance protein +16S RRNA + mRNA + P-tRNA – Cryo-EM<br />
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[[4dh9]], [[4dhb]] - TtRPS3 in 30S ribosomal subunit +16S RRNA+mRNA+P-site tRNA fMet +THX + YAEJ<br />
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[[3j00]] – EcRPS3 + 16S RRNA + FTSQ + apolipoprotein A-I<br />
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[[2ykr]] – EcRPS3 + 16S RRNA + GMPPNP + GTPase RSGA<br />
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[[4a2i]] – EcRPS3 + 16S RRNA + GTPase RSGA – Cryo EM<br />
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[[3uoq]] - EcRPS3 + 16S RRNA + mRNA + peptide chain release factor<br />
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[[4adv]] - EcRPS3 + 16S RRNA + methyltransferase – Cryo EM<br />
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[[3v22]], [[3v24]], [[3v26]], [[3v28]] – TtRPS3 in 30S ribosomal subunit +16S RRNA +THX + modulation factor<br />
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[[3v2c]], [[3v2e]] – TtRPS3 in 30S ribosomal subunit +16S RRNA +THX + ribosome-associated inhibitor
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=== S3 in small 40S ribosomal subunit + various proteins ===
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[[3jyv]] - TlRPS3 in 40S ribosomal subunit+RACK1+S19E+P-site tRNA – ''Thermomyces lanuginosus''<br />
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[[2xzm]], [[2xzn]] - RPS2 in 40S subunit+RACK1 - ''Tetrahymena thermophila''<br />
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[[3izb]] - yRPS3 in 40S ribosomal subunit+ RACK1 – Cryo-EM<br />
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[[3u5c]], [[3u5g]] - yRPS3 in 40S ribosomal subunit+ RACK1 + suppressor protein SMT1<br />
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[[3o2z]], [[3o30]] – yRPS3 in 40S ribosomal subunit+ RACK1<br />
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[[3iz6]] – RPS3 in 40S ribosomal subunit+RACK1 - wheat<br />
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[[3j38]] – RPS3 in 40S ribosomal subunit + EF-2 + guanine nucleotide-binding protein – ''Drosophila melanogaster'' – Cryo-EM<br />
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[[3j3a]] – RPS3 in 40S ribosomal subunit + EF-2 + guanine nucleotide-binding protein – human – Cryo-EM<br />
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[[4kzx]] - rRPS2 in 40S ribosomal subunit+ RACK1 + EIF1 – rabbit – Cryo-EM<br />
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[[4kzy]] – rRPS3 in 40S ribosomal subunit+ RACK1 + EIF1 + EIF1A – Cryo-EM<br />
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[[4kzz]] – rRPS3 in 40S ribosomal subunit+ RACK1 + EIF1A + initiator tRNA – Cryo-EM<br />
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== References ==
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<references/>
[[Category:Topic Page]]
[[Category:Topic Page]]

Current revision

Human ribosomal protein S3 KH domain (PDB code 1wh9)

Drag the structure with the mouse to rotate

3D Structures of ribosomal protein S3

Updated on 29-September-2017

1wh9 – RPS3 KH domain – human
4bsz – RPS3 + Yar1 – yeast

References

  1. ↑ Yadavilli S, Mayo LD, Higgins M, Lain S, Hegde V, Deutsch WA. Ribosomal protein S3: A multi-functional protein that interacts with both p53 and MDM2 through its KH domain. DNA Repair (Amst). 2009 Oct 2;8(10):1215-24. doi: 10.1016/j.dnarep.2009.07.003., Epub 2009 Aug 4. PMID:19656744 doi:http://dx.doi.org/10.1016/j.dnarep.2009.07.003
  2. ↑ Kim Y, Kim HD, Youn B, Park YG, Kim J. Ribosomal protein S3 is secreted as a homodimer in cancer cells. Biochem Biophys Res Commun. 2013 Nov 29;441(4):805-8. doi:, 10.1016/j.bbrc.2013.10.132. Epub 2013 Nov 5. PMID:24211576 doi:http://dx.doi.org/10.1016/j.bbrc.2013.10.132
  3. ↑ Ahn EH, Kim DW, Shin MJ, Kim YN, Kim HR, Woo SJ, Kim SM, Kim DS, Kim J, Park J, Eum WS, Hwang HS, Choi SY. PEP-1-ribosomal protein S3 protects dopaminergic neurons in an MPTP-induced Parkinson's disease mouse model. Free Radic Biol Med. 2013 Feb;55:36-45. doi: 10.1016/j.freeradbiomed.2012.11.008., Epub 2012 Nov 23. PMID:23178948 doi:http://dx.doi.org/10.1016/j.freeradbiomed.2012.11.008

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Michal Harel, Alexander Berchansky, Wayne Decatur

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