3tkk: Difference between revisions
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==Crystal Structure Analysis of a recombinant predicted acetamidase/ formamidase from the thermophile thermoanaerobacter tengcongensis== | ==Crystal Structure Analysis of a recombinant predicted acetamidase/ formamidase from the thermophile thermoanaerobacter tengcongensis== | ||
<StructureSection load='3tkk' size='340' side='right' caption='[[3tkk]], [[Resolution|resolution]] 1.99Å' scene=''> | <StructureSection load='3tkk' size='340' side='right'caption='[[3tkk]], [[Resolution|resolution]] 1.99Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[3tkk]] is a 4 chain structure with sequence from [ | <table><tr><td colspan='2'>[[3tkk]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/As_1.2430 As 1.2430]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3mjj 3mjj]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3TKK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3TKK FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> | ||
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSD:3-SULFINOALANINE'>CSD</scene></td></tr> | <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CSD:3-SULFINOALANINE'>CSD</scene></td></tr> | ||
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">TTE1919 ([ | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">TTE1919 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=119072 AS 1.2430])</td></tr> | ||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3tkk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3tkk OCA], [https://pdbe.org/3tkk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3tkk RCSB], [https://www.ebi.ac.uk/pdbsum/3tkk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3tkk ProSAT]</span></td></tr> | ||
</table> | </table> | ||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
| Line 23: | Line 23: | ||
</StructureSection> | </StructureSection> | ||
[[Category: As 1 2430]] | [[Category: As 1 2430]] | ||
[[Category: Large Structures]] | |||
[[Category: Huang, Q]] | [[Category: Huang, Q]] | ||
[[Category: Kusunoki, M]] | [[Category: Kusunoki, M]] | ||
Latest revision as of 20:02, 6 July 2022
Crystal Structure Analysis of a recombinant predicted acetamidase/ formamidase from the thermophile thermoanaerobacter tengcongensisCrystal Structure Analysis of a recombinant predicted acetamidase/ formamidase from the thermophile thermoanaerobacter tengcongensis
Structural highlights
Publication Abstract from PubMedThe structure of acetamidase/formamidase (Amds/Fmds) from the archaeon Thermoanaerobacter tengcongensis has been determined by X-ray diffraction analysis using MAD data in a crystal of space group P2(1), with unit-cell parameters a = 41.23 (3), b = 152.88 (6), c = 100.26 (7) A, beta = 99.49 (3) degrees and been refined to a crystallographic R-factor of 17.4% and R-free of 23.7%. It contains two dimers in one asymmetric unit, in which native Amds/Fmds (TE19) contains of the 32 kDa native protein. The final model consists of 4 monomer (299 amino acids residues with additional 2 expression tag amino acids residues), 5 Ca(2+), 4 Zn(2+) and 853 water molecules. The monomer is composed by the following: an N-domain which is featuring by three-layers beta/beta/beta; a prominent excursion between N-terminal end of strand beta(7) and beta(11), which contains four-stranded antiparallel beta sheet; an C-domain which is formed by the last 82 amino acid residues with the feature of mixed alpha/beta structure. The protein contains ion-pair Ca(2+)-Zn(2+). The portion of three-layer beta/beta/beta along with the loops provides four protein ligands to the tightly bound Ca(2+), three water molecules complete the coordination; and provides five protein ligands to the tightly bound Zn(2+), one water molecule complete the coordination. Crystal Structure Analysis of a Recombinant Predicted Acetamidase/Formamidase from the Thermophile Thermoanaerobacter tengcongensis.,Qian M, Huang Q, Wu G, Lai L, Tang Y, Pei J, Kusunoki M Protein J. 2012 Feb;31(2):166-74. PMID:22207484[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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