6tnh

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (13:05, 24 January 2024) (edit) (undo)
 
Line 3: Line 3:
<StructureSection load='6tnh' size='340' side='right'caption='[[6tnh]], [[Resolution|resolution]] 2.21&Aring;' scene=''>
<StructureSection load='6tnh' size='340' side='right'caption='[[6tnh]], [[Resolution|resolution]] 2.21&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[6tnh]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_phage_phivc8 Vibrio phage phivc8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6TNH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6TNH FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[6tnh]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_phage_phiVC8 Vibrio phage phiVC8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6TNH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6TNH FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACP:PHOSPHOMETHYLPHOSPHONIC+ACID+ADENYLATE+ESTER'>ACP</scene>, <scene name='pdbligand=ASP:ASPARTIC+ACID'>ASP</scene>, <scene name='pdbligand=DGP:2-DEOXYGUANOSINE-5-MONOPHOSPHATE'>DGP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 2.21&#8491;</td></tr>
-
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">phiVC8_p27 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1076759 Vibrio phage phiVC8])</td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACP:PHOSPHOMETHYLPHOSPHONIC+ACID+ADENYLATE+ESTER'>ACP</scene>, <scene name='pdbligand=ASP:ASPARTIC+ACID'>ASP</scene>, <scene name='pdbligand=DGP:2-DEOXYGUANOSINE-5-MONOPHOSPHATE'>DGP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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'>[https://proteopedia.org/fgij/fg.htm?mol=6tnh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6tnh OCA], [https://pdbe.org/6tnh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6tnh RCSB], [https://www.ebi.ac.uk/pdbsum/6tnh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6tnh ProSAT]</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=6tnh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6tnh OCA], [https://pdbe.org/6tnh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6tnh RCSB], [https://www.ebi.ac.uk/pdbsum/6tnh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6tnh ProSAT]</span></td></tr>
</table>
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/PURZ_BPVC8 PURZ_BPVC8] Involved in the synthesis of the atypical nucleotide dZTP (2-amino-2'-deoxyadenosine-5'-triphosphate) (PubMed:33926954). Catalyzes the condensation of aspartate with deoxyguanylate into dSMP (N6-succino-2-amino-2'-deoxyadenylate), which undergoes defumarylation and phosphorylation respectively by host PurB and guanylate/nucleoside diphosphate kinases to give dZTP (PubMed:33926955). dZTP is integrated into the viral genome instead of adenine by the viral DNA polymerase. This Z-base probably completely replaces adenosine and forms a triple bond to the opposite T-base (PubMed:33926955). The resulting non-standard viral DNA is called Z-genome (PubMed:33926955). The chemically modified DNA is probably harder for the host bacteria to digest with nucleases or restriction enzymes (Probable).[HAMAP-Rule:MF_04166]<ref>PMID:33926954</ref> <ref>PMID:33926955</ref>
<div style="background-color:#fffaf0;">
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
== Publication Abstract from PubMed ==
Line 25: Line 27:
</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Large Structures]]
-
[[Category: Vibrio phage phivc8]]
+
[[Category: Vibrio phage phiVC8]]
-
[[Category: Haouz, A]]
+
[[Category: Haouz A]]
-
[[Category: Kaminski, P A]]
+
[[Category: Kaminski PA]]
-
[[Category: Sleiman, D]]
+
[[Category: Loc'h J]]
-
[[Category: H, J Loc]]
+
[[Category: Sleiman D]]
-
[[Category: 6-diaminopurine]]
+
-
[[Category: Biosynthetic protein]]
+
-
[[Category: Phage phivc8]]
+
-
[[Category: Synthetase]]
+

Current revision

Deoxyguanylosuccinate synthase (DgsS) quaternary structure with AMPPcP, dGMP, Asp, Magnesium at 2.21 Angstrom resolution

PDB ID 6tnh

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/6tnh"
Personal tools