1vdx
From Proteopedia
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|PDB= 1vdx |SIZE=350|CAPTION= <scene name='initialview01'>1vdx</scene>, resolution 2.40Å | |PDB= 1vdx |SIZE=350|CAPTION= <scene name='initialview01'>1vdx</scene>, resolution 2.40Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand=CL:CHLORIDE ION'>CL</scene> | + | |LIGAND= <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene> |
| - | |ACTIVITY= [http://en.wikipedia.org/wiki/RNA_ligase_(ATP) RNA ligase (ATP)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.5.1.3 6.5.1.3] | + | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA_ligase_(ATP) RNA ligase (ATP)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.5.1.3 6.5.1.3] </span> |
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1vdx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vdx OCA], [http://www.ebi.ac.uk/pdbsum/1vdx PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1vdx RCSB]</span> | ||
}} | }} | ||
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[[Category: Rehse, P H.]] | [[Category: Rehse, P H.]] | ||
[[Category: Tahirov, T H.]] | [[Category: Tahirov, T H.]] | ||
| - | [[Category: CL]] | ||
[[Category: ligase]] | [[Category: ligase]] | ||
[[Category: national project on protein structural and functional analyse]] | [[Category: national project on protein structural and functional analyse]] | ||
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[[Category: structural genomic]] | [[Category: structural genomic]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 00:23:02 2008'' |
Revision as of 21:23, 30 March 2008
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| , resolution 2.40Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | |||||||
| Activity: | RNA ligase (ATP), with EC number 6.5.1.3 | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal Structure of a Pyrococcus horikoshii protein with similarities to 2'5' RNA-ligase
Overview
Cyclic phosphodiesterase and 2'-5' RNA ligase are members of a superfamily of proteins which share structural similarities even though their homology may be very low. A putative 2'-5' RNA ligase from Pyrococcus horikoshii has been crystallized and its X-ray crystallographic structure determined to 2.4 A. The protein crystallized in the orthorhombic space group P2(1)2(1)2(1), with unit-cell parameters a = 44.07, b = 45.47, c = 93.17 A and one protein monomer in the asymmetric unit. The molecular-replacement probe was a 2'-5' RNA ligase from Thermus thermophilus which shares 30% sequence identity. The P. horikoshii RNA ligase has some structural features that have more in common with a cyclic phosphodiesterase from Arabidopsis thaliana with which it has no significant homology, yet an examination of the electrostatic surface potential clearly defines its relationship to the T. thermophilus RNA ligase. However, the size of the active-site cleft is smaller and less positively charged than that of the T. thermophilus homologue, suggesting that the actual substrate may be smaller than that previously postulated for the latter.
About this Structure
1VDX is a Single protein structure of sequence from Pyrococcus horikoshii. Full crystallographic information is available from OCA.
Reference
Structure of a putative 2'-5' RNA ligase from Pyrococcus horikoshii., Rehse PH, Tahirov TH, Acta Crystallogr D Biol Crystallogr. 2005 Sep;61(Pt 9):1207-12. Epub 2005, Aug 16. PMID:16131753
Page seeded by OCA on Mon Mar 31 00:23:02 2008
Categories: Pyrococcus horikoshii | RNA ligase (ATP) | Single protein | RSGI, RIKEN Structural Genomics/Proteomics Initiative. | Rehse, P H. | Tahirov, T H. | Ligase | National project on protein structural and functional analyse | Nppsfa | Riken structural genomics/proteomics initiative | Rsgi | Structural genomic
