GTP-binding protein

From Proteopedia

Revision as of 08:33, 5 June 2017

spinqualitylabelsall models E. coli small GTP-binding protein ERA complex with GDP and sulfate (PDB code 3ieu) Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image Contents 1 Function 2 Disease 3 Structural highlights Function GTP-binding proteins or G proteins are transmitting signals outside the cell which cause changes within the cell. They act as molecular switches which are on when binding GTP and off when binding GDP. GTP-binding proteins belong to two families: heterotrimeric G proteins[1] see Transducin and small GTPases[2]. The structure of small GTPase is homologous to that of the α subunit of heterotrimeric G protein. See details on small GTP-binding protein LepA in LepA. Heterotrimeric G protein or guanine nucleotide-binding protein or G protein (GNBP) are heterodimeric membrane proteins composed of α, β and γ subunits. GNBP is involved in mammalian cellular signaling pathways. GNBP α subunit binds GDP or GTP. When bound to GTP it dissociates from the β and γ subunits, binds to adenylate cyclase which converts ATP to cAMP. See also G protein-coupled receptor Beta2 adrenergic receptor-Gs protein complex. Disease Mutations in heterotrimeric G protein α subunit were identified in endocrine tumors and in McCune-Albright syndrome[3]. Structural highlights E. coli small GTPase ERA binds GDP in a cavity formed by [4]. . Water molecules shown as red spheres.

3D Structures of GTP-binding protein

Updated on 05-June-2017 {{#tree:id=OrganizedByTopic|openlevels=0|

• Small GTP-binding protein

• • 3r7w, 4arz – yGtr1 + Gtr2 – yeast
    
  • 2eki – hGBP TGS domain – NMR - human
    
  • 3kxk, 3kxl – SsHflx (mutant) - Sulfolobus solfataricus
    
  • 2qtf – SsHflx
    
  • 2dyk – TtEngA N terminal – Thermus thermophilus - Cryo EM
    
  • 3cb4 - EcLepA – Escherichia coli
    
  • 5a9v, 4zci – EcBipA
    
  • 4zck – EcBipA C-terminal
    
  • 2ywe – AaLepA – Aquifex aeolicus
    
  • 1sul – BsYsxC - Bacillus subtilis
    
  • 2dwq – TtYchF
    
  • 1udx – TtObg
    
  • 1wxq – GBP – Pyrococcus horikoshii
    
  • 1yr6 - PaGBP – Pyrococcus abyssi
    
  • 1ni3 – YchF – Schizosaccharomyces pombe
    

• GTP-binding protein complex with nucleotide

• • 2nzj – hRem1 + GDP
    
  • 3cbq – hRem2 + GDP
    
  • 3q85 – hRem2 G domain + GTP analog
    
  • 4aii - rRem2 G domain + GDP - rat
    
  • 2ohf – hOla1 + AMP-PCP
    
  • 1e0a – hGBP (mutant) + GIP
    
  • 2b8w, 2d4h – hGBP N terminal + GMP
    
  • 2b92 - hGBP N terminal + GDP
    
  • 2bc9 - hGBP N terminal + GPPNHP
    
  • 1yr7, 1yr8 – PaGBP + GTP
    
  • 1yr9, 1yra, 1yrb, 2oxr – PaGBP + GDP
    
  • 3kxi, 2qth – SsHflx + GDP
    
  • 2ywf – AaLepA + GMP-PNP
    
  • 2ywg - AaLepA + GTP
    
  • 2ywh - AaLepA + GDP
    
  • 1yzn – yPt1 + GPPNHP
    
  • 1ky2 – yPt7 + GPPNHP
    
  • 1ky3 – yPt7 + GDP
    
  • 4phg – yPt7 (mutant) + GTP
    
  • 4phh – yPt7 (mutant) + GNP
    
  • 4phf – yPt7 (mutant) + GDP
    
  • 3rwm, 3rwo – yPt32 + GPPNHP
    
  • 1ek0 – yPt51 + GPPNHP
    
  • 2hjg, 4dcs, 4dct, 4dcu, 4dcv, 4kyu – BsEngA + GDP
    
  • 5x4b – BsEngA N-terminal + GDP
    
  • 1svi – BsYsxC + GDP
    
  • 1svw – BsYsxC + GMPPNP
    
  • 1lnz – BsObg + GTP
    
  • 2dby – TtYchF + GDP
    
  • 1wf3 – Tt1341 + GNP
    
  • 2gao - hSar1A + GDP
    
  • 2fa9 – ChSar1B (mutant) + GDP – Chinese hamster
    
  • 2fmx - ChSar1B + GDP
    
  • 5a9y, 4zcm – EcBipA + G-4-phosphate
    
  • 5a9x, 5a9w, 4zcl – EcBipA + GDP
    
  • 5dn8 – EngA + GDP – Coxiella burnetti
    

• GTP-binding protein complex with protein

• • 3deg – EcLepA + A-tRNA + P-tRNA + RPS12 + RPL11 – Cryo EM
    
  • 3cue – yPt1 + transport protein subunits
    
  • 2bcg, 1ukv - yPt1 + secretory pathway GDP-dissociation inhibitor
    
  • 3cpj – yPt31 + Rab GDP-dissociation inhibitor
    
  • 1m2o – ySar1 + protein transport protein sec23
    
  • 3syn – BsFlhf + ATP-binding protein
    

• GTP-binding protein 3 (Atlastin-1)

• • 4idn – hGDP3 cytoplasmic domain + GNP
    
  • 4ido, 4idq, 3q5d, 3q5e, 3qnu, 3qof – hGDP3 cytoplasmic domain + GDP
    

• G protein bound to a G protein-coupled receptor

• • 3sn6 - human β-2 adrenergic receptor + cameloid antibody fragment bound by guanine nucleotide-binding protein G. This is the first structure of an activated G protein-coupled receptor in a complex with its G protein.

• Ras-related small GTP-binding protein

• • 3llu – hC nucleotide-binding domain
    

• Ras-related small GTP-binding protein complex with nucleotide

• • 2l0x – rRheb + GDP
    
  • 2gjs – hRad1 + GDP
    
  • 3q72, 3q7p, 3q7q – hRad G-domain + GTP analog
    
  • 2dpx – hRad GTPase domain
    
  • 2gf0 – hDiRas1 + GDP
    
  • 2erx – hDiRas2 + Pi + GDP
    
  • 1x3s – hRab-18 + GPPNHP
    
  • 1yu9 - hRab-4A + GPPNHP
    
  • 2atx – hTc10 + GPPNHP
    
  • 1g16 – ySec4 + GDP
    
  • 1g17 - ySec4 + GIP
    

• Ras-related small GTP-binding protein complex with protein

• • 3kuc – hRap-1A + proto oncogene Ser/Thr protein kinase
    
  • 3cf6 - hRap-1A + Rap guanine nucleotide exchange factor 4
    
  • 3brw - hRap-1B + Rap GTPase-activating protein
    
  • 1z0k – hRab-4 + rabenosyn-5
    
  • 3tw8 – hRab-1C + DENND
    
  • 4ojk – hRab-11B + cGMP-dependent protein kinase 2
    

• Interferon-induced GTP-binding protein

• • 3ljb – hMx1 stalk region
    
  • 4p4u – hMx1 stalk region (mutant)
    
  • 4p4t – hMx1 stalk region (mutant) + GDP
    
  • 4p4s – hMx1 stalk region (mutant) + GMPPCP
    
  • 3szr – hMx1 residues 33-662
    
  • 5gtm – hMx1 residues 33-662 (mutant)
    
  • 3zys – hMx1 + dynamin-1
    
  • 4x0r – hMx2 stalk region (mutant)
    
  • 4whj – hMx2 residues 84-715 (mutant)
    

• Rho-related small GTP-binding protein

• • 2j1l – hRhoD

• Rho-related small GTP-binding protein complex with nucleotide

• • 2cls – hRho6 + GTP
    
  • 2fv8 - hRhoB + GDP
    
  • 2gcn – hRhoC + GDP
    
  • 2gco – hRhoC + GPPNHP
    
  • 1z2c - hRhoC (mutant) + GMPPNP
    
  • 2gcp – hRhoC + GSP
    
  • 1m7b - hRhoE + GTP
    
  • 1gwn - mRhoE + GTP
    
  • 1a4r - hCdc42 (mutant) + GDP
    
  • 1an0 - hCdc42 + GDP
    
  • 2qrz - hCdc42 + GCP
    

• Rho-related small GTP-binding protein complex with protein

• • 2v55 – hRhoE + Rho-associated protein kinase
    
  • 3q3j – hRho6 + plexin-A2 nucleotide-binding domain
    
  • 2rex – hRho6 + plexin-B1
    
  • 1cc0 – hRhoA + GDP-dissociation inhibitor + GDP
    
  • 3a58 – yRho1 (mutant) + exocyst complex component Sec3
    
  • 1gzs – Cdc42 + guanine nucleotide exchange factor – Salmonella typhimurium
    
  • 2kb0 - hCdc42 (mutant)
    
  • 1kz7 - hCdc42 + guanine nucleotide exchange factor
    
  • 1kzg - hCdc42 (mutant) + guanine nucleotide exchange factor (mutant)
    
  • 2dfk – hCdc42 + collybistin II
    
  • 2wm9, 2wmn, 2wmo - hCdc42 + DOCK9
    
  • 3eg5 - hCdc42 + protein diaphanous homolog 1 + GMPPNP
    
  • 3gcg - hCdc42 + MAP
    
  • 4ltr - hCdc42 + AMP-protein transferase
    
  • 1nf3 - hCdc42 + Par6
    
  • 2ase - hCdc42 (mutant) - NMR
    
  • 1ki1 – hCdc42 + intersectin long form
    
  • 1ees – hCdc42 + MapK3 peptide - NMR
    
  • 1doa - hCdc42 + GDP-dissociation inhibitor
    
  • 2ngr – hCdc42 + GTPase-activating protein C terminal + GDP
    
  • 1am4 – hCdc42 + GTPase-activating protein rhoGAP + GNP
    
  • 1grn – hCdc42 + GTPase-activating protein rhoGAP + GDP
    
  • 1cf4 – hCdc42 (mutant) + ACK GTPase-binding domain + GNP - NMR
    
  • 1cee – hCdc42 + WASP GTPase-binding domain + GCP - NMR
    
  • 2odb – hCdc42 + PAK6 CRIB domain + GCP
    
  • 3qbv – hCdc42 (mutant) + intersectin + GDP
    
  • 4did – hCdc42 + inositol phosphate phosphatase + GDP
    
  • 1cf4 – hCdc42 (mutant) + dedicator of cytokinesis protein 8
    
  • 4itr – hCdc42 + AMP-protein transferase + GDP + AMP
    

• Rac-like GTP-binding protein

• • 4u5x – Arac1 (mutant) + GNPPNP – rice
    
  • 2wbl – AtArac2 + Rho of plant guanine nucleotide exchange factor 8 – Arabidopsis thaliana
    
  • 3bwd – AtArac6
    
  • 2nty – AtArac5 + prone8
    
  • 2j0v – AtArac7 (mutant)
    

• Rab-related small GTP-binding protein

• • 2ys8 – hRabJ DNAJ domain – NMR
    

• Flagella-associated GTP-binding protein

• • 2px0 – BsFlhF + GMP-PNP
    
  • 2px3 – BsFlhF + GTP
    

• Small GTP-binding protein

• • 2rhd – Rab-1a – Cryptosporidium parvum
    
  • 1yzq - hRab-6 + GNP
    
  • 3qq5 – GBP – Thermotoga neapolitana
    

• Small GTP-binding protein ERA

• • 1ega – EcERA
    
  • 3ieu – EcERA + GDP
    
  • 3iev – AaERA + RNA + Mg-GNP
    
  • 1x1l – TtERA + RNA – Cryo EM
    
  • 1x18 – TtERA + RNA + RPS2 + RPS7 + RPS11 + RPS18 – Cryo EM
    

• Small GTP-binding protein Rheb

• • 1xtq – hRheb + GDP
    
  • 1xts - hRheb + GTP
    
  • 1xtr - hRheb + GPPNHP
    
  • 3sea - hRheb + GDP + GNP
    
  • 4o25 – mRheb + GTP - mouse
    
  • 4o2l - mRheb (mutant) + GTP
    
  • 4o2r - mRheb (mutant) + GDP
    
  • 3t5g – hRheB + GMP-PDE δ
    

• Small GTP-binding protein Gem

• • 2cjw, 2ht6, 2g3y – hGem G domain + GDP
    

• Small GTP-binding protein Ran

• • 2mmc, 2mmg – hRan
    

• Ran binary complex

• • 3gj0, 5ciw, 5cit, 5ciq – hRan + GDP
    
  • 5cj2 – hRan (mutant) + GDP
    
  • 1i2m – hRan + regulator of chromosome condensation 1
    
  • 1byu – Ran + GDP - dog
    
  • 1qg2, 1qg4, 3ran – dRan (mutant) + GDP
    
  • 2bku – dRan + importin
    

• Ran ternary complex

• • 1rrp – hRan + Nup358 + GTP analog
    
  • 1qbk – hRan + karyopherin β2 + GTP analog
    
  • 1ibr – hRan + importin β1 subunit + GTP analog
    
  • 4ol0 – hRan + importin 12 + GTP
    
  • 3ea5 – hRan (mutant) + importin β1 subunit + GDP
    
  • 4c0q - hRan (mutant) + importin 12 + GTP
    
  • 3nc1 – hRan (mutant) + exportin 1 + GTP
    
  • 5clq – hRan (mutant) + RanBD1 + GNP
    
  • 5cll – hRan + RanBD1 + GDP
    
  • 3ch5, 3gj3, 3gj4, 3gj5, 3gj6, 3gj7, 3gj8 – hRan + Nup153 + GDP
    
  • 3w3z – dRan + importin β1 subunit + GTP
    
  • 5bxq – dRan + NTF-2 + GDP
    

• Ran quaternary complex

• • 3gjx – hRan + snurportin 1 + exportin 1 + GTP
    
  • 3nby, 3nbz, 3nc0 – hRan (mutant) + snurportin 1 + exportin 1 + GTP
    
  • 1k5d – hRan + Ran-specific GTPase-activating protein + Ran GTPase activating protein 1 + GTP analog
    
  • 1k5g – hRan + Ran-specific GTPase-activating protein + Ran GTPase activating protein 1 + GDP
    
  • 4gpt, 4gmx, 4hat, 4hb2, 4hb3 – hRan + Ran-specific GTPase-activating protein + exportin 1 + GNP
    
  • 4hat, 4hau, 4hav, 4haw, 4hax, 4hay, 4haz, 4hb0, 4hb4 – hRan + Ran-specific GTPase-activating protein + exportin 1 + GNP + antibiotic
    
  • 5jlj – hRan + Ran-specific GTPase-activating protein + exportin 1 + GNP + inhibitor
    
  • [[4wvf] – hRan + Ran-specific GTPase-activating protein + CRM1P + GNP + inhibitor
    
  • 5uww, 5uwu, 5uwt, 5uws, 5uwr, 5uwq, 5uwp, 5uwo, 5uwj, 5uwi, 5uwh, 5dif, 5di9, 5dhf, 5dha, 5dh9 – hRan + Ran-specific GTPase-activating protein + exportin 1 + peptide
    
  • 3zjy – hRan (mutant) + importin 13 + EIF-1A + GTP
    
  • 5dlq – hRan (mutant) + exportin 4 + EIF-5A + GTP
    
  • 5dis – hRan (mutant) + exportin 1 + RNA U transporter + Nup214 + GTP
    
  • 3a6p – dRan + pre-microRNA + exportin 5 + peptide
    
  • 3icq – yRan + RNA + exportin T
    
  • 3m1i – yRan + Ran-specific GTPase-activating protein + exportin 1 + GTP
    

• Small GTP-binding protein

• • 2rhd – Rab-1a – Cryptosporidium parvum
    
  • 1yzq - hRab-6 + GNP
    
  • 5kh0 - GBP – Thermosipho melanesiensis
    

• Small GTP-binding protein ERA

• • 1ega – EcERA
    
  • 3ieu – EcERA + GDP
    
  • 3iev – AaERA + RNA + Mg-GNP
    
  • 1x1l – TtERA + RNA – Cryo EM
    
  • 1x18 – TtERA + RNA + RPS2 + RPS7 + RPS11 + RPS18 – Cryo EM
    

• Small GTP-binding protein Gem

• • 2cjw, 2ht6, 2g3y – hGem G domain + GDP
    

• Small GTP-binding protein Rheb

• • 1xtq – hRheb + GDP
    
  • 1xts - hRheb + GTP
    
  • 1xtr - hRheb + GPPNHP
    
  • 3sea - hRheb + GDP + GNP
    
  • 4o25 – mRheb + GTP - mouse
    
  • 4o2l - mRheb (mutant) + GTP
    
  • 4o2r - mRheb (mutant) + GDP
    
  • 3t5g – hRheb + GMP-PDE delta
    

• Small GTPase h-Ras see GTPase HRas

• Heterotrimeric G protein see Transducin

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See Also

• G protein-coupled receptor

References

1. ↑ Preininger AM, Hamm HE. G protein signaling: insights from new structures. Sci STKE. 2004 Jan 27;2004(218):re3. PMID:14762218 doi:http://dx.doi.org/10.1126/stke.2182004re3
2. ↑ Takai Y, Sasaki T, Matozaki T. Small GTP-binding proteins. Physiol Rev. 2001 Jan;81(1):153-208. PMID:11152757
3. ↑ Lania A, Mantovani G, Spada A. G protein mutations in endocrine diseases. Eur J Endocrinol. 2001 Nov;145(5):543-59. PMID:11720871
4. ↑ Tu C, Zhou X, Tropea JE, Austin BP, Waugh DS, Court DL, Ji X. Structure of ERA in complex with the 3' end of 16S rRNA: implications for ribosome biogenesis. Proc Natl Acad Sci U S A. 2009 Sep 1;106(35):14843-8. Epub 2009 Aug 17. PMID:19706445