Ribosomal protein S5

From Proteopedia

Revision as of 12:04, 28 June 2012

Template:STRUCTURE 2zm6

Ribosomal protein S5 (RPS5) is one of the 22 proteins which belong to the of the bacterial ribosome. The images at the left and at the right correspond to one representative RPS5, i.e. the crystal structure of Ribosomal protein S5 from Thermus thermophilus (2zm6, chain E).

3D Structures of Ribosomal protein S5

Update June 2012

S5 in small ribosomal subunit

2zm6, 1n36, 1j5e, 3oge, 3ogy, 3ohc, 3ohd, 3ohy, 3oi0, 3oi2, 3oi4, 3oto - TtRPS5 in 30S ribosomal subunit+THX+16S RRNA – Thermus thermophilus
2vqe, 2vqf, 2uuc, 2e5l, 2uu9, 2uua, 2uub, 3pyn, 3pyq, 3pys, 3pyu - TtRPS5 in 30S ribosomal subunit+16S RRNA+RNA fragment
3kc4 – EcRPS5 in 30S ribosomal subunit - Escherichia coli
3i1m, 3i1o, 3df1, 3df3, 2vho, 2vhp, 2avy, 2aw7, 1pnx, 3oaq, 3oar, 3ofa, 3ofb, 3ofo, 3ofp, 3ofx, 3ofy, 3or9, 3ora - EcRPS5 in 30S ribosomal subunit+16S RRNA
1i94, 1fka, 3uxs, 3uxt - TtRPS5 in 30S ribosomal subunit+16S RRNA
1p87, 1p6g - EcRPS5 in 30S ribosomal subunit+16S RRNA – Cryo-EM
3bbn - RPS5 in 30S ribosomal subunit+16S RRNA – Cryo-EM – spinach

S5 in small + large ribosomal subunit

1ml5 - EcRPS5 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
3j0l, 3j0o - RPS5 in 40S ribosomal subunit+60S ribosomal subunit +tRNA +mRNA fragment+ RRNA fragments – rabbit - Cryo-EM

S5 in small ribosomal subunit+ chain release factor

3mr8, 3ms0 – TtRPS5 in 30S ribosomal subunit+THX+chain release factor 1+P-site tRNA+mRNA+16S RRNA
3d5a, 3d5c - TtRPS5 in 30S ribosomal subunit+THX+chain release factor 1+P-site tRNA+E-site tRNA+mRNA +16S RRNA
3zvo – TtRPS4 in 30S ribosomal subunit+THX+P-site tRNA Met +mRNA +16S RRNA+chain release factor 3
2b64 - TtRPS5 in 30S ribosomal subunit+THX+P-site tRNA Phe+E-site tRNA Phe+mRNA +16S RRNA+chain release factor 1
2b9m - TtRPS5 in 30S ribosomal subunit+THX+P-site tRNA Phe+E-site tRNA Phe+mRNA +16S RRNA+chain release factor 2
2x9r, 2x9t, 2wh1, 2wh3 - TtRPS5 in 30S ribosomal subunit+THX+chain release factor 2+P-site tRNA+mRNA +16S RRNA
3f1e, 3f1g - TtRPS5 in 30S ribosomal subunit+THX+chain release factor 2+P-site tRNA+E-site tRNA +16S RRNA
3uoq - EcRPS5 + 16S RRNA + mRNA + peptide chain release factor

S5 in small ribosomal subunit+tRNA+mRNA

2hgi - TtRPS5 in 30S ribosomal subunit+16S RRNA+tRNA Phe+tRNA fMet
2hgp - TtRPS5 in 30S ribosomal subunit+16S RRNA+tRNA Phe+mRNA
3t1h, 3t1y - TtRPS5 in 30S ribosomal subunit+16S RRNA+tRNA Lys +mRNA
3tvf, 3tvg, 3uyd, 3uyf - TtRPS5 in 30S ribosomal subunit+16S RRNA+tRNA Leu + tRNA fMet + mRNA
3uz6, 3uz7, 3uzg, 3uzi - TtRPS5 in 30S ribosomal subunit+16S RRNA+tRNA Tyr + tRNA fMet + mRNA
2i2p, 2i2u - EcRPS5 in 30S ribosomal subunit+16S RRNA+tRNA Phe+mRNA
2hgr - TtRPS5 in 30S ribosomal subunit+16S RRNA+tRNA Phe+tRNA fMet+mRNA
1yl4 – TtRPS5 in 30S ribosomal subunit+ tRNA Phe+16S RRNA+THRS mRNA operator
1pns - EcRPS5 in 30S ribosomal subunit+ tRNA Phe+16S RRNA+mRNA
3j0u, 3j0v, 3j0x, 3j0z, 3j10 – EcRPS5 in 30S ribosomal subunit+ A-site tRNA + P-site tRNA +16S RRNA+mRNA – Cryo-EM
3j13 – EcRPS5 in 30S ribosomal subunit+ P-site tRNA +16S RRNA+mRNA – Cryo-EM
1xnq, 1xnr - TtRPS5 in 30S ribosomal subunit+THX+mRNA+tRNA anticodon+16S RRNA

S5 in small ribosomal subunit+A-site tRNA

2uxd, 2uxc - TtRPS5 in 30S ribosomal subunit+THX+A-site mRNA CGGG+tRNA anticodon+16S RRNA
1n32, 1n33 - TtRPS5 in 30S ribosomal subunit+THX+A-site mRNA fragment+tRNA anticodon+16S RRNA
1n34 - TtRPS5 in 30S ribosomal subunit+THX+A-site mRNA fragment +16S RRNA
1xmo, 1xmq - TtRPS5 in 30S ribosomal subunit+THX+A-site mRNA+tRNA anticodon+16S RRNA
2uxb - TtRPS5 in 30S ribosomal subunit+THX+A-site mRNA GGGU+tRNA anticodon+16S RRNA

S5 in small ribosomal subunit+P-site tRNA

3i8g - TtRPS5 in 30S ribosomal subunit+P-site tRNA+mRNA +16S RRNA
3i8h, 3i9b, 3i9d - TtRPS5 in 30S ribosomal subunit+THX+P-site tRNA+mRNA +16S RRNA
1ibk - TtRPS5 in 30S ribosomal subunit+THX+P-site mRNA fragment +16S RRNA
2wwl - EcRPS5 in 30S ribosomal subunit+Poly-Ala chain+P-site tRNA+mRNA +16S RRNA - Escherichia coli
3i1q - EcRPS5 in 30S ribosomal subunit+P-site tRNA hairpin+mRNA
3i1s, 3i1z, 3i21 - EcRPS5 in 30S ribosomal subunit+P-site tRNA hairpin+mRNA +16S RNA

S5 in small ribosomal subunit+A-site tRNA+P-site tRNA

1ibl, 1ibm - TtRPS5 in 30S ribosomal subunit+THX+A-site mRNA fragment+P-site mRNA fragment+tRNA anticodon+16S RRNA

S5 in small ribosomal subunit+P-site tRNA+E-site tRNA

2ow8 - TtRPS5 in 30S ribosomal subunit+THX+P-site tRNA Phe+E-site tRNA+mRNA +16S RRNA
2b9o - TtRPS5 in 30S ribosomal subunit+THX+P-site tRNA Phe+E-site tRNA Phe+mRNA +16S RRNA
2qnh - TtRPS5 in 30S ribosomal subunit+THX+P-site tRNA+E-site tRNA+mRNA +16S RRNA
2wdg, 2wdh, 2wdk, 2wdm - TtRPS5 in 30S ribosomal subunit+THX+P-site tRNA+E-site tRNA+mRNA +16S RRNA+tRNA Phe

S5 in small ribosomal subunit+A-site tRNA+P-site tRNA+E-site tRNA

2gy9, 2gyb - EcRPS5 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+mRNA +16S RRNA – Cryo-EM
1jgo, 1jgp, 1jgq, 1gix - TtRPS5 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+tRNA Phe+mRNA +16S RRNA
3e1a, 3e1c - EcRPS5 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+mRNA +16S RRNA

S5 in small ribosomal subunit + antibiotics

1i95, 1i97, 2hhh, 2f4v , 3knn- TtRPS5 in 30S ribosomal subunit+16S RRNA+antibiotic
1hnw, 1hnx, 1hnz, 1fjg - TtRPS5 in 30S ribosomal subunit+16S RRNA+mRNA fragment+antibiotic
2qbb, 2qb9, 1vs5, 1vs7, 2qan, 2qal, 2qou, 2qow, 2qoy, 2qp0, 2z4k, 2z4m - EcRPS5 in 30S ribosomal subunit+16S RRNA+antibiotic
2j00, 2j02 - TtRPS5 in 30S ribosomal subunit+16S RRNA+paromomycin+P-site tRNA fMet+E-site tRNA Phe+mRNA
3knj, 3knh - TtRPS5 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+mRNA +16S RRNA+viomycin
3knl, 3knm - TtRPS5 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+mRNA +16S RRNA+capreomycin
3uz3, 3uz4 - TtRPS5 in 30S ribosomal subunit+16S RRNA+tRNA Leu + tRNA fMet + mRNA + paromomycin
3uzl, 3uzm - TtRPS5 in 30S ribosomal subunit+16S RRNA+tRNA Tyr + tRNA fMet + mRNA + paromomycin

S5 in small ribosomal subunit + ribosome recycling factor

2qbd, 2qbf - EcRPS5 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor
3r8n, 3r8o – EcRPS5 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor + mRNA + tRNA
2qbh, 2qbj - EcRPS5 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor+gentamicin
2v46, 2v48 - TtRPS5 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor+P-site tRNA Phe+mRNA+tRNA fMet

S5 in small ribosomal subunit + elongation factor

2wri, 2wrk, 2xsy, 2xuy - TtRPS5 in 30S ribosomal subunit+THX+P-site tRNA+mRNA +16S RRNA+elongation factor G
2wrn, 2wrq - TtRPS5 in 30S ribosomal subunit+THX+A-site tRNA+mRNA +16S RRNA+elongation factor TU-4
2xqd - TtRPS5 in 30S ribosomal subunit+THX+E-site tRNA+mRNA +16S RRNA+elongation factor TU-B
3fic - TtRPS5 in 30S ribosomal subunit+THX+A-site tRNA+P-site tRNA+E-site tRNA+mRNA codon+16S RRNA+elongation factor TU-A
4abr - TtRPS5 in 30S ribosomal subunit+THX + E/P-site tRNA fMet +mRNA codon+16S RRNA+elongation factor TU
3izv – EcRPS5 in 30S ribosomal subunit+A/T-site tRNA Phe +16S RRNA+elongation factor TU
3j18 - EcRPS5 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
3izw – EcRPS5 in 30S ribosomal subunit+A-site tRNA Phe +mRNA +16S RRNA+elongation factor TU
2y0u, 2y0w, 2y0y, 2y10, 2y12, 2y14, 2y16, 2y18 - TtRPS5 in 30S subunit+THX+A-site tRNA+E-site tRNA+mRNA codon+16S RRNA+elongation factor TU
3fih - EcRPS5 in 30S ribosomal subunit+A-site tRNA Phe+P-site tRNA+mRNA +16S RRNA+elongation factor TU
3huw, 3huy - TtRPS5 in 30S ribosomal subunit+THX+tRNA-Met+mRNA +16S RRNA+elongation factor P
1s1h - yRPS5 in 40S ribosomal subunit+18S RRNA+elongation factor 2 – Cryo-EM – yeast

S5 in small ribosomal subunit + translation initiation factor

1i96 - TtRPS5 in 30S ribosomal subunit+THX+IF3+16S RRNA
1hr0 - TtRPS5 in 30S ribosomal subunit+THX+IF+16S RRNA

S5 in small ribosomal subunit + various proteins

3jyv – RPS5 in 40S ribosomal subunit+RACK1+S19E+P-site tRNA – Thermomyces lanuginosus
2xzm, 2xzn - RPS5 in 40S subunit+RACK1 - Tetrahymena thermophila
2zkq - RPS5 in 40S ribosomal subunit+RACK1+RNA – dog – Cryo EM
3iz6 - RPS5 in 40S ribosomal subunit+RACK1 – wheat – Cryo EM
3kiq, 3kis, 3kiu, 3kix - TtRPS5 in 30S ribosomal subunit+toxin RelE+16S RRNA
2xfz, 2xg1 - TtRPS5 in 30S ribosomal subunit+colicin E3+E-site tRNA+mRNA+16S RRNA
4dh9, 4dhb - TtRPS5 in 30S ribosomal subunit +16S RRNA+mRNA+P-site tRNA fMet +THX + YAEJ
1voq, 1vos, 1vov, 1vox, 1voz - EcRPS5 in 30S ribosomal subunit+protein Y+16S RRNA
2noq – yRPS5+yRPL1+18S RRNA+25S RRNA+CRPV IRES
3o2z, 3o30 - yRPS5 in 40S ribosomal subunit+18S RRNA+RACK1
3izb - yRPS5 in 40S ribosomal subunit+ RACK1 – Cryo-EM
3u5c, 3u5g - yRPS5 in 40S ribosomal subunit+ RACK1 + suppressor protein SMT1
3iy8 – EcRPS5+S6+S8+S9+S11+S12+S15+S16+S17+S18+Leishmania taretolae small subunit
3j00 – EcRPS5 + 16S RRNA + FTSQ + apolipoprotein A-I
2ykr – EcRPS5 + 16S RRNA + GMPPNP + GTPase RSGA
4a2i – EcRPS5 + 16S RRNA + GTPase RSGA – Cryo EM
4adv - EcRPS5 + 16S RRNA + methyltransferase – Cryo EM

S5 in part of small ribosomal subunit

1qd7 – TtRPS5+TtRPS4+TtRPS6+TtRPS7+TtRPS8+TtRPS15+TtRPS17+TtRPS20+16S RRNA fragment
1pkp – GsRPS5 – Geobacillus stearothermophilus
1dv4 – GsRPS5+TtRPS7+16S RRNA