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| - | [[Image:1wb3.gif|left|200px]] | + | #REDIRECT [[4acb]] This PDB entry is obsolete and replaced by 4acb |
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| - | {{Structure
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| - | |PDB= 1wb3 |SIZE=350|CAPTION= <scene name='initialview01'>1wb3</scene>, resolution 3.20Å
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| - | |SITE= <scene name='pdbsite=AC1:Dxc+Binding+Site+For+Chain+C'>AC1</scene>
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| - | |LIGAND= <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene> and <scene name='pdbligand=DXC:(3ALPHA,5ALPHA,12ALPHA)-3,12-DIHYDROXYCHOLAN-24-OIC ACID'>DXC</scene>
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| - | |ACTIVITY=
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| - | |GENE=
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| - | }}
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| - | '''CRYSTAL STRUCTURE OF TRANSLATION ELONGATION FACTOR SELB FROM METHANOCOCCUS MARIPALUDIS IN COMPLEX WITH THE GTP ANALOGUE GPPNHP'''
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| - | ==Overview==
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| - | In all three kingdoms of life, SelB is a specialized translation elongation factor responsible for the cotranslational incorporation of selenocysteine into proteins by recoding of a UGA stop codon in the presence of a downstream mRNA hairpin loop. Here, we present the X-ray structures of SelB from the archaeon Methanococcus maripaludis in the apo-, GDP- and GppNHp-bound form and use mutational analysis to investigate the role of individual amino acids in its aminoacyl-binding pocket. All three SelB structures reveal an EF-Tu:GTP-like domain arrangement. Upon binding of the GTP analogue GppNHp, a conformational change of the Switch 2 region in the GTPase domain leads to the exposure of SelB residues involved in clamping the 5' phosphate of the tRNA. A conserved extended loop in domain III of SelB may be responsible for specific interactions with tRNA(Sec) and act as a ruler for measuring the extra long acceptor arm. Domain IV of SelB adopts a beta barrel fold and is flexibly tethered to domain III. The overall domain arrangement of SelB resembles a 'chalice' observed so far only for initiation factor IF2/eIF5B. In our model of SelB bound to the ribosome, domain IV points towards the 3' mRNA entrance cleft ready to interact with the downstream secondary structure element.
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| - | ==About this Structure==
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| - | 1WB3 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Methanococcus_maripaludis Methanococcus maripaludis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WB3 OCA].
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| - | ==Reference==
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| - | Selenocysteine tRNA-specific elongation factor SelB is a structural chimaera of elongation and initiation factors., Leibundgut M, Frick C, Thanbichler M, Bock A, Ban N, EMBO J. 2005 Jan 12;24(1):11-22. Epub 2004 Dec 23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15616587 15616587]
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| - | [[Category: Methanococcus maripaludis]]
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| - | [[Category: Single protein]]
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| - | [[Category: Ban, N.]]
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| - | [[Category: Boeck, A.]]
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| - | [[Category: Frick, C.]]
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| - | [[Category: Leibundgut, M.]]
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| - | [[Category: Thanbichler, M.]]
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| - | [[Category: DXC]]
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| - | [[Category: GNP]]
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| - | [[Category: MG]]
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| - | [[Category: SO4]]
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| - | [[Category: protein synthesis]]
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| - | [[Category: ribosome]]
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| - | [[Category: selenium]]
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| - | [[Category: selenocysteine]]
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| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 14:54:36 2008''
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