2fcj

From Proteopedia

(Difference between revisions)

Current revision

Structure of small TOPRIM domain protein from Bacillus stearothermophilus.

Structural highlights

2fcj is a 3 chain structure with sequence from Geobacillus stearothermophilus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.3Å
Ligands:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT, TOPSAN

Function

Q5KVJ9_GEOKA

Evolutionary Conservation

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

Publication Abstract from PubMed

The crystal structure of the Midwest Center for Structural Genomics target APC35832, a 14.7-kDa cytosolic protein from Bacillus stearothermophilus, has been determined at 1.3 A resolution by the single anomalous diffraction method from a mercury soaked crystal. The APC35832 protein is a representative of large group of bacterial and archeal proteins entirely consisting of the Toprim (topoisomerase-primase) domain. This domain is found in the catalytic centers of many enzymes catalyzing phosphodiester bond formation or cleavage, but the function of small Toprim domain proteins remains unknown. Consistent with the sequence analysis, the APC35832 structure shows a conserved Toprim fold, with a central 4-stranded parallel beta-sheet surrounded by four alpha-helixes. Comparison of the APC35832 structure with its closest structural homolog, the catalytic core of bacteriophage T7 primase, revealed structural conservation of a metal binding site and isothermal titration calorimetry indicates that APC35832 binds Mg2+ with a sub-millimolar dissociation constant (K(d)). The APC35832-Mg2+ complex structure was determined at 1.65 A and reveals the role of conserved acidic residues in Mg2+ ion coordination. The structural similarities to other Toprim domain containing proteins and potential function and substrates of APC35832 are discussed in this article.

Crystal structure and putative function of small Toprim domain-containing protein from Bacillus stearothermophilus.,Rezacova P, Borek D, Moy SF, Joachimiak A, Otwinowski Z Proteins. 2008 Feb 1;70(2):311-9. PMID:17705269^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Rezacova P, Borek D, Moy SF, Joachimiak A, Otwinowski Z. Crystal structure and putative function of small Toprim domain-containing protein from Bacillus stearothermophilus. Proteins. 2008 Feb 1;70(2):311-9. PMID:17705269 doi:10.1002/prot.21511

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 See Also
6 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2fcj"

@@ Line 1: / Line 1: @@
 ==Structure of small TOPRIM domain protein from Bacillus stearothermophilus.==
-<StructureSection load='2fcj' size='340' side='right' caption='[[2fcj]], [[Resolution|resolution]] 1.30&Aring;' scene=''>
+<StructureSection load='2fcj' size='340' side='right'caption='[[2fcj]], [[Resolution|resolution]] 1.30&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2fcj]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_12980 Atcc 12980]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FCJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2FCJ FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2fcj]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FCJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FCJ FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.3&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">RBSTP2199 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1422 ATCC 12980])</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2fcj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fcj OCA], [http://pdbe.org/2fcj PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2fcj RCSB], [http://www.ebi.ac.uk/pdbsum/2fcj PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2fcj ProSAT], [http://www.topsan.org/Proteins/MCSG/2fcj TOPSAN]</span></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=2fcj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fcj OCA], [https://pdbe.org/2fcj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fcj RCSB], [https://www.ebi.ac.uk/pdbsum/2fcj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fcj ProSAT], [https://www.topsan.org/Proteins/MCSG/2fcj TOPSAN]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q5KVJ9_GEOKA Q5KVJ9_GEOKA]
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 13: / Line 15: @@
   <jmolCheckbox>
     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fc/2fcj_consurf.spt"</scriptWhenChecked>
-    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
@@ Line 29: / Line 31: @@
 ==See Also==
-*[[Acetylcholinesterase with OTMA|Acetylcholinesterase with OTMA]]
-*[[Acid beta-glucosidase with N-butyl-deoxynojirimycin|Acid beta-glucosidase with N-butyl-deoxynojirimycin]]
 *[[Central glycolytic gene regulator (CggR)|Central glycolytic gene regulator (CggR)]]
 *[[TOPRIM domain protein|TOPRIM domain protein]]
@@ Line 37: / Line 37: @@
 __TOC__
 </StructureSection>
-[[Category: Atcc 12980]]
+[[Category: Geobacillus stearothermophilus]]
-[[Category: Borek, D]]
+[[Category: Large Structures]]
-[[Category: Chen, Y]]
+[[Category: Borek D]]
-[[Category: Collart, F]]
+[[Category: Chen Y]]
-[[Category: Joachimiak, A]]
+[[Category: Collart F]]
-[[Category: Structural genomic]]
+[[Category: Joachimiak A]]
-[[Category: Otwinowski, Z]]
+[[Category: Otwinowski Z]]
-[[Category: Rezacova, P]]
+[[Category: Rezacova P]]
-[[Category: Mcsg]]
-[[Category: PSI, Protein structure initiative]]
-[[Category: Toprim domain]]
-[[Category: Unknown function]]

2fcj

From Proteopedia

Current revision

Structure of small TOPRIM domain protein from Bacillus stearothermophilus.

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox