Ribosomal protein S13

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[[Image:RPS13.png|left|200px|thumb|Crystal Structure of Ribosomal protein S13 from [[2zm6]], chain M]]
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<StructureSection load='' size='350' side='right' scene='Ribosomal_protein_S13/Cv/1' caption='Ribosomal protein S13 (PDB code [[2zm6]] chain M)'>
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{{STRUCTURE_2zm6| PDB=2zm6 | SIZE=300| SCENE=Ribosomal_protein_S13/Cv/1 |right|CAPTION=Ribosomal protein S13 from [[2zm6]], chain M }}
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== Function ==
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[[Ribosomal protein S13]] (RPS13) is one of the 21 proteins which belong to the 30S small subunit 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. It is involved in binding to fMet-tRNA and hence to the translation initiation step<ref>PMID:17881366</ref>.
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[[Ribosomal protein S13]] (RPS13) is one of the 22 proteins which belong to the small subunit of the [http://en.wikipedia.org/wiki/Bacteria bacterial] [[ribosome]]. It is involved in binding to fMet-tRNA and hence to the translation initiation step. The images at the left and at the right correspond to one representative RPS13, ''i.e.'' the crystal structure of Ribosomal protein S13 from ''Thermus thermophilus'' ([[2zm6]], chain M).
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{{TOC limit|limit=2}}
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== Relevance ==
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RPS13 promotes growth and cell cycle progression in gastric cancer cells through inhibiting p27 expression<ref>PMID:19912438</ref>. RPS13 promotes multi-drug resistance in gastric cancer cells by suppressing drug-induced apoptosis<ref>PMID:15149863</ref>.
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</StructureSection>
== 3D Structures of Ribosomal protein S13 ==
== 3D Structures of Ribosomal protein S13 ==
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Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
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=== S13 in small ribosomal subunit ===
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[[2zm6]], [[1n36]], [[1j5e]], [[3oto]] - TtRPS13 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]] - TtRPS13 in 30S ribosomal subunit+16S RRNA+RNA fragment<br />
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[[3kc4]] – EcRPS13 in 30S ribosomal subunit – ''Escherichia coli''<br />
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[[3i1m]], [[3i1o]], [[3df1]], [[3df3]], [[2vho]], [[2vhp]], [[2avy]], [[2aw7]], [[1pnx]], [[3or9]], [[3ora]] - EcRPS13 in 30S ribosomal subunit+16S RRNA<br />
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[[1i94]], [[1fka]] - TtRPS13 in 30S ribosomal subunit+16S RRNA<br />
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[[1p87]], [[1p6g]] - EcRPS13 in 30S ribosomal subunit+16S RRNA – Cryo-EM
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[[3bbn]] - RPS13 in 30S ribosomal subunit+16S RRNA – Cryo-EM – spinach<br />
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=== S13 in small + large ribosomal subunit ===
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[[1ml5]] - EcRPS13 in 30S ribosomal subunit+50S ribosomal subunit+THX+chain release factor 2+P-site tRNA+tRNA Phe+mRNA fragment+23S RRNA+5S RRNA+16S RRNA - EM<br />
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=== S13 in small ribosomal subunit+ chain release factor ===
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[[3mr8]], [[3ms0]] – TtRPS13 in 30S ribosomal subunit+THX+chain release factor 1+P-site tRNA+mRNA+16S RRNA<br />
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[[3d5a]], [[3d5c]] - TtRPS13 in 30S ribosomal subunit+THX+chain release factor 1+P-site tRNA+E-site tRNA+mRNA +16S RRNA<br />
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[[2b64]] - TtRPS13 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]] - TtRPS13 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]] - TtRPS13 in 30S ribosomal subunit+THX+chain release factor 2+P-site tRNA+mRNA +16S RRNA<br />
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[[3f1e]], [[3f1g]] - TtRPS13 in 30S ribosomal subunit+THX+chain release factor 2+P-site tRNA+E-site tRNA +16S RRNA<br />
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=== S13 in small ribosomal subunit+tRNA+mRNA ===
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[[2hgi]] - TtRPS13 in 30S ribosomal subunit+16S RRNA+tRNA Phe+tRNA fMet<br />
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[[2hgp]] - TtRPS13 in 30S ribosomal subunit+16S RRNA+tRNA Phe+mRNA<br />
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[[2i2p]], [[2i2u]] - EcRPS13 in 30S ribosomal subunit+16S RRNA+tRNA Phe+mRNA<br />
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[[2hgr]] - TtRPS13 in 30S ribosomal subunit+16S RRNA+tRNA Phe+tRNA fMet+mRNA<br />
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[[1yl4]] – TtRPS13 in 30S ribosomal subunit+ tRNA Phe+16S RRNA+THRS mRNA operator<br />
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[[1pns]] - EcRPS13 in 30S ribosomal subunit+ tRNA Phe+16S RRNA+mRNA<br />
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[[1xnq]], [[1xnr]] - TtRPS13 in 30S ribosomal subunit+THX+mRNA+tRNA anticodon+16S RRNA<br />
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=== S13 in small ribosomal subunit+A-site tRNA ===
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[[2uxd]], [[2uxc]] - TtRPS13 in 30S ribosomal subunit+THX+A-site mRNA CGGG+tRNA anticodon+16S RRNA<br />
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[[1n32]], [[1n33]] - TtRPS13 in 30S ribosomal subunit+THX+A-site mRNA fragment+tRNA anticodon+16S RRNA<br />
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[[1n34]] - TtRPS13 in 30S ribosomal subunit+THX+A-site mRNA fragment +16S RRNA<br />
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[[1xmo]], [[1xmq]] - TtRPS13 in 30S ribosomal subunit+THX+A-site mRNA+tRNA anticodon+16S RRNA<br />
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[[2uxb]] - TtRPS13 in 30S ribosomal subunit+THX+A-site mRNA GGGU+tRNA anticodon+16S RRNA<br />
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=== S13 in small ribosomal subunit+P-site tRNA ===
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[[3i8g]] - TtRPS13 in 30S ribosomal subunit+P-site tRNA+mRNA +16S RRNA<br />
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[[3i8h]], [[3i9b]], [[3i9d]] - TtRPS13 in 30S ribosomal subunit+THX+P-site tRNA+mRNA +16S RRNA<br />
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[[1ibk]] - TtRPS13 in 30S ribosomal subunit+THX+P-site mRNA fragment +16S RRNA<br />
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[[2wwl]] - EcRPS13 in 30S ribosomal subunit+Poly-Ala chain+P-site tRNA+mRNA +16S RRNA - ''Escherichia coli''<br />
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[[3i1q]] - EcRPS13 in 30S ribosomal subunit+P-site tRNA hairpin+mRNA<br />
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[[3i1s]], [[3i1z]], [[3i21]] - EcRPS12 in 30S ribosomal subunit+P-site tRNA hairpin+mRNA +16S RNA<br />
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=== S13 in small ribosomal subunit+A-site tRNA+P-site tRNA ===
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[[1ibl]], [[1ibm]] - TtRPS13 in 30S ribosomal subunit+THX+A-site mRNA fragment+P-site mRNA fragment+tRNA anticodon+16S RRNA<br />
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=== S13 in small ribosomal subunit+P-site tRNA+E-site tRNA ===
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[[2ow8]] - TtRPS13 in 30S ribosomal subunit+THX+P-site tRNA Phe+E-site tRNA+mRNA +16S RRNA<br />
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[[2b9o]] - TtRPS13 in 30S ribosomal subunit+THX+P-site tRNA Phe+E-site tRNA Phe+mRNA +16S RRNA<br />
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[[2qnh]] - TtRPS13 in 30S ribosomal subunit+THX+P-site tRNA+E-site tRNA+mRNA +16S RRNA<br />
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=== S13 in small ribosomal subunit+A-site tRNA+P-site tRNA+E-site tRNA ===
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[[2gy9]], [[2gyb]] - EcRPS13 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]] - TtRPS13 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+tRNA Phe+mRNA +16S RRNA<br />
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[[3e1a]], [[3e1c]] - EcRPS13 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+mRNA +16S RRNA<br />
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=== S13 in small ribosomal subunit + antibiotics ===
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[[1i95]], [[1i97]], [[2hhh]], [[2f4v]] - TtRPS13 in 30S ribosomal subunit+16S RRNA+antibiotic<br />
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[[1hnw]], [[1hnx]], [[1hnz]], [[1fjg]] - TtRPS13 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]]- EcRPS13 in 30S ribosomal subunit+16S RRNA+antibiotic<br />
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[[2j00]], [[2j02]] - TtRPS13 in 30S ribosomal subunit+16S RRNA+paromomycin+P-site tRNA fMet+E-site tRNA Phe+mRNA<br />
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[[2wdg]], [[2wdh]], [[2wdk]], [[2wdm]] - TtRPS13 in 30S ribosomal subunit+THX+P-site tRNA+E-site tRNA+mRNA +16S RRNA+tRNA Phe+paromomycin<br />
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[[3knj]], [[3knh]] - TtRPS13 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+mRNA +16S RRNA+viomycin<br />
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[[3knl]], [[3knn]] - TtRPS13 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+mRNA +16S RRNA+capreomycin<br />
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=== S13 in small ribosomal subunit + ribosome recycling factor ===
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[[2qbd]], [[2qbf]] – EcRPS13 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor<br />
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[[2qbh]], [[2qbj]] - EcRPS13 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor+gentamicin<br />
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[[2v46]], [[2v48]] - TtRPS13 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor+P-site tRNA Phe+mRNA+tRNA fMet<br />
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=== S13 in small ribosomal subunit + elongation factor ===
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[[2wri]], [[2wrk]] - TtRPS13 in 30S ribosomal subunit+THX+P-site tRNA+mRNA +16S RRNA+elongation factor G<br />
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[[2wrn]], [[2wrq]] - TtRPS13 in 30S ribosomal subunit+THX+A-site tRNA+mRNA +16S RRNA+elongation factor TU-4<br />
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[[3fic]] - TtRPS13 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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[[2y0u]], [[2y0w]], [[2y0y]], [[2y10]], [[2y12]], [[2y14]], [[2y16]], [[2y18]] - TtRPS13 in 30S subunit+THX+A-site tRNA+E-site tRNA+mRNA codon+16S RRNA+elongation factor TU<br />
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[[3fih]] - EcRPS13 in 30S ribosomal subunit+A-site tRNA Phe+P-site tRNA+mRNA +16S RRNA+elongation factor TU<br />
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[[3huw]], [[3huy]] - TtRPS13 in 30S ribosomal subunit+THX+tRNA-Met+mRNA +16S RRNA+elongation factor P<br />
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[[1mj1]] – EcRPS13+EcRPS12+EcRPL11+16S RRNA fragment+23S RRNA fragment+tRNA Phe+elongation factor TU – Cryo-EM<br />
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[[1s1h]] - yRPS13 in 40S ribosomal subunit+18S RRNA+elongation factor 2 – Cryo-EM – yeast<br />
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=== S13 in small ribosomal subunit + translation initiation factor ===
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[[1i96]] - TtRPS13 in 30S ribosomal subunit+THX+IF3+16S RRNA<br />
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[[1hr0]] - TtRPS13 in 30S ribosomal subunit+THX+IF+16S RRNA<br />
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=== S13 in small ribosomal subunit + various proteins ===
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[[3kiq]], [[3kis]], [[3kiu]], [[3kix]] - TtRPS13 in 30S ribosomal subunit+toxin RelE+16S RRNA<br />
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[[1voq]], [[1vos]], [[1vov]], [[1vox]], [[1voz]] - EcRPS13 in 30S ribosomal subunit+protein Y+16S RRNA<br />
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[[2xfz]], [[2xg1]] - TtRPS13 in 30S ribosomal subunit+tRNA Phe+mRNA+colicin E3+16S RRNA<br />
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[[3jyv]] - RPS13+RPS0+RPS2+RPS3+RPS5+RPS9+RPS11+RPS14+RPS15+RPS16+RPS18+RPS20+RPS22+RPS23+RPS29+18S RRNA+RACK1+S19E+tRNA – Cryo-EM - ''Thermomyces lanuginosus''<br />
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[[2zkq]] – RPS13 in 40S ribosomal subunit+RRNA fragments+RACK1+18S RRNA – dog – Cryo-EM<br />
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=== S13 in part of small ribosomal subunit ===
=== S13 in part of small ribosomal subunit ===
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[[2r1g]] – TtRPS13+ TtRPS9+ TtRPS12+ 16S RRNA fragment - ''Thermus thermophilus'' - Cryo-EM<br />
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[[2r1g]] – TtRPS13+ TtRPS9+ TtRPS12+ 16S RRNA fragment<br />
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[[3iyx]], [[3iyy]] - EcRPS13+ EcRPL5+ EcRPL31 – ''Escherichia coli'' - Cryo-EM<br />
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[[3iyx]], [[3iyy]] - EcRPS13+ EcRPL5+ EcRPL31 – Cryo-EM<br />
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[[1mj1]] - EcRPS13 +EcRPS12 +EcRPL11 + Phe-tRNA + elongation factor Tu + 23S RRNA fragments – Cryo EM<br />
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[[1ysh]] - RPS13+ RPL30+ RPL37+RNA fragments – Cryo-EM – ''Triticum aestivum''<br />
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[[1ysh]] - RPS13+ RPL30+ RPL37+RNA fragments – Cryo-EM – rice<br />
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== References ==
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<references/>
[[Category:Topic Page]]
[[Category:Topic Page]]

Current revision

Ribosomal protein S13 (PDB code 2zm6 chain M)

Drag the structure with the mouse to rotate

3D Structures of Ribosomal protein S13

Updated on 01-October-2017

S13 in part of small ribosomal subunit

2r1g – TtRPS13+ TtRPS9+ TtRPS12+ 16S RRNA fragment - Thermus thermophilus - Cryo-EM
3iyx, 3iyy - EcRPS13+ EcRPL5+ EcRPL31 – Escherichia coli - Cryo-EM
1mj1 - EcRPS13 +EcRPS12 +EcRPL11 + Phe-tRNA + elongation factor Tu + 23S RRNA fragments – Cryo EM
1ysh - RPS13+ RPL30+ RPL37+RNA fragments – Cryo-EM – rice

References

  1. ↑ Malygin AA, Parakhnevitch NM, Ivanov AV, Eperon IC, Karpova GG. Human ribosomal protein S13 regulates expression of its own gene at the splicing step by a feedback mechanism. Nucleic Acids Res. 2007;35(19):6414-23. Epub 2007 Sep 18. PMID:17881366 doi:http://dx.doi.org/10.1093/nar/gkm701
  2. ↑ Guo X, Shi Y, Gou Y, Li J, Han S, Zhang Y, Huo J, Ning X, Sun L, Chen Y, Sun S, Fan D. Human ribosomal protein S13 promotes gastric cancer growth through down-regulating p27(Kip1). J Cell Mol Med. 2011 Feb;15(2):296-306. doi: 10.1111/j.1582-4934.2009.00969.x. PMID:19912438 doi:http://dx.doi.org/10.1111/j.1582-4934.2009.00969.x
  3. ↑ Shi Y, Zhai H, Wang X, Han Z, Liu C, Lan M, Du J, Guo C, Zhang Y, Wu K, Fan D. Ribosomal proteins S13 and L23 promote multidrug resistance in gastric cancer cells by suppressing drug-induced apoptosis. Exp Cell Res. 2004 Jun 10;296(2):337-46. PMID:15149863 doi:http://dx.doi.org/10.1016/j.yexcr.2004.02.009

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Michal Harel, Alexander Berchansky, Joel L. Sussman

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