2oyn: Difference between revisions

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[[Image:2oyn.jpg|left|200px]]


{{Structure
==Crystal structure of CDP-bound protein MJ0056 from Methanococcus jannaschii, Pfam DUF120==
|PDB= 2oyn |SIZE=350|CAPTION= <scene name='initialview01'>2oyn</scene>, resolution 1.850&Aring;
<StructureSection load='2oyn' size='340' side='right'caption='[[2oyn]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
|SITE=
== Structural highlights ==
|LIGAND= <scene name='pdbligand=NA:SODIUM+ION'>NA</scene> and <scene name='pdbligand=CDP:CYTIDINE-5&#39;-DIPHOSPHATE'>CDP</scene>
<table><tr><td colspan='2'>[[2oyn]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii_DSM_2661 Methanocaldococcus jannaschii DSM 2661]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OYN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2OYN FirstGlance]. <br>
|ACTIVITY=  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.85&#8491;</td></tr>
|GENE= MJ0056 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 Methanocaldococcus jannaschii])
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CDP:CYTIDINE-5-DIPHOSPHATE'>CDP</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
}}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2oyn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oyn OCA], [https://pdbe.org/2oyn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2oyn RCSB], [https://www.ebi.ac.uk/pdbsum/2oyn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2oyn ProSAT], [https://www.topsan.org/Proteins/NYSGXRC/2oyn TOPSAN]</span></td></tr>
 
</table>
'''Crystal structure of CDP-bound protein MJ0056 from Methanococcus jannaschii, Pfam DUF120'''
== Function ==
 
[https://www.uniprot.org/uniprot/RIFK_METJA RIFK_METJA] Catalyzes the CTP-dependent phosphorylation of riboflavin (vitamin B2) to form flavin mononucleotide (FMN). Can also utilize UTP as the phosphate donor, although less efficiently, and it is unclear if ATP and GTP can also serve as substrates (PubMed:18245297) or not (PubMed:18073108).<ref>PMID:18073108</ref> <ref>PMID:18245297</ref>
 
== Evolutionary Conservation ==
==About this Structure==
[[Image:Consurf_key_small.gif|200px|right]]
2OYN is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OYN OCA].  
Check<jmol>
[[Category: Methanocaldococcus jannaschii]]
  <jmolCheckbox>
[[Category: Single protein]]
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/oy/2oyn_consurf.spt"</scriptWhenChecked>
[[Category: Almo, S C.]]
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
[[Category: Bain, K T.]]
    <text>to colour the structure by Evolutionary Conservation</text>
[[Category: Bonanno, J B.]]
  </jmolCheckbox>
[[Category: Burley, S K.]]
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2oyn ConSurf].
[[Category: Dickey, M.]]
<div style="clear:both"></div>
[[Category: Lau, C.]]
== References ==
[[Category: NYSGXRC, New York Structural GenomiX Research Consortium.]]
<references/>
[[Category: Romero, R.]]
__TOC__
[[Category: Sauder, M J.]]
</StructureSection>
[[Category: Smith, D.]]
[[Category: Large Structures]]
[[Category: Wasserman, S.]]
[[Category: Methanocaldococcus jannaschii DSM 2661]]
[[Category: CDP]]
[[Category: Almo SC]]
[[Category: NA]]
[[Category: Bain KT]]
[[Category: new york structural genomix research consortium]]
[[Category: Bonanno JB]]
[[Category: nysgxrc]]
[[Category: Burley SK]]
[[Category: protein structure initiative]]
[[Category: Dickey M]]
[[Category: psi-2]]
[[Category: Lau C]]
[[Category: structural genomic]]
[[Category: Romero R]]
[[Category: unknown function]]
[[Category: Sauder JM]]
 
[[Category: Smith D]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 23 15:35:44 2008''
[[Category: Wasserman S]]

Latest revision as of 12:06, 21 February 2024

Crystal structure of CDP-bound protein MJ0056 from Methanococcus jannaschii, Pfam DUF120Crystal structure of CDP-bound protein MJ0056 from Methanococcus jannaschii, Pfam DUF120

Structural highlights

2oyn is a 1 chain structure with sequence from Methanocaldococcus jannaschii DSM 2661. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.85Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT, TOPSAN

Function

RIFK_METJA Catalyzes the CTP-dependent phosphorylation of riboflavin (vitamin B2) to form flavin mononucleotide (FMN). Can also utilize UTP as the phosphate donor, although less efficiently, and it is unclear if ATP and GTP can also serve as substrates (PubMed:18245297) or not (PubMed:18073108).[1] [2]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

References

  1. ↑ Ammelburg M, Hartmann MD, Djuranovic S, Alva V, Koretke KK, Martin J, Sauer G, Truffault V, Zeth K, Lupas AN, Coles M. A CTP-dependent archaeal riboflavin kinase forms a bridge in the evolution of cradle-loop barrels. Structure. 2007 Dec;15(12):1577-90. PMID:18073108 doi:10.1016/j.str.2007.09.027
  2. ↑ Mashhadi Z, Zhang H, Xu H, White RH. Identification and characterization of an archaeon-specific riboflavin kinase. J Bacteriol. 2008 Apr;190(7):2615-8. doi: 10.1128/JB.01900-07. Epub 2008 Feb 1. PMID:18245297 doi:http://dx.doi.org/10.1128/JB.01900-07

2oyn, resolution 1.85Å

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