This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


3i8d

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:40, 6 September 2023) (edit) (undo)
 
Line 3: Line 3:
<StructureSection load='3i8d' size='340' side='right'caption='[[3i8d]], [[Resolution|resolution]] 1.61&Aring;' scene=''>
<StructureSection load='3i8d' size='340' side='right'caption='[[3i8d]], [[Resolution|resolution]] 1.61&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[3i8d]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_alcalophilus_subsp._halodurans"_boyer_et_al._1973 "bacillus alcalophilus subsp. halodurans" boyer et al. 1973]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3I8D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3I8D FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[3i8d]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Alkalihalobacillus_halodurans Alkalihalobacillus halodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3I8D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3I8D FirstGlance]. <br>
-
</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></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]] 1.61&#8491;</td></tr>
-
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DFT:1-[2-DEOXYRIBOFURANOSYL]-2,4-DIFLUORO-5-METHYL-BENZENE-5MONOPHOSPHATE'>DFT</scene></td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DFT:1-[2-DEOXYRIBOFURANOSYL]-2,4-DIFLUORO-5-METHYL-BENZENE-5MONOPHOSPHATE'>DFT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">BACILLUS HALODURANS, BH0863, RNase-H D132N mutant, rnhA ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=86665 "Bacillus alcalophilus subsp. halodurans" Boyer et al. 1973])</td></tr>
+
-
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Ribonuclease_H Ribonuclease H], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.4 3.1.26.4] </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=3i8d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3i8d OCA], [https://pdbe.org/3i8d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3i8d RCSB], [https://www.ebi.ac.uk/pdbsum/3i8d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3i8d 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=3i8d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3i8d OCA], [https://pdbe.org/3i8d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3i8d RCSB], [https://www.ebi.ac.uk/pdbsum/3i8d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3i8d ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
-
[[https://www.uniprot.org/uniprot/RNH1_BACHD RNH1_BACHD]] Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.
+
[https://www.uniprot.org/uniprot/RNH1_HALH5 RNH1_HALH5] Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.<ref>PMID:15989951</ref>
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
Line 38: Line 36:
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Bacillus alcalophilus subsp. halodurans boyer et al. 1973]]
+
[[Category: Alkalihalobacillus halodurans]]
[[Category: Large Structures]]
[[Category: Large Structures]]
-
[[Category: Ribonuclease H]]
+
[[Category: Egli M]]
-
[[Category: Egli, M]]
+
[[Category: Pallan PS]]
-
[[Category: Pallan, P S]]
+
-
[[Category: 4-difluorotoluene]]
+
-
[[Category: Endonuclease]]
+
-
[[Category: Hydrolase]]
+
-
[[Category: Hydrolase-dna complex]]
+
-
[[Category: Hydrophobic base]]
+
-
[[Category: Magnesium]]
+
-
[[Category: Manganese]]
+
-
[[Category: Metal-binding]]
+
-
[[Category: Nuclease]]
+
-
[[Category: Rnase-h]]
+
-
[[Category: Rnase-h dna-complex]]
+
-
[[Category: Thymine isostere]]
+

Current revision

The Pairing Geometry of the Hydrophobic Thymine Analog 2,4-Difluorotoluene in Duplex DNA as Analyzed by X-ray Crystallography

PDB ID 3i8d

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/3i8d"
Personal tools