6w4x

From Proteopedia

(Difference between revisions)

Revision as of 06:43, 6 May 2020

Holocomplex of E. coli class Ia ribonucleotide reductase with GDP and TTP

Structural highlights

6w4x is a 4 chain structure with sequence from Ecoli. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, , ,
NonStd Res:
Gene:	nrdA, dnaF, b2234, JW2228 (ECOLI), nrdB, ftsB, b2235, JW2229 (ECOLI)
Activity:	Ribonucleoside-diphosphate reductase, with EC number 1.17.4.1
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[RIR1_ECOLI] Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides. R1 contains the binding sites for both substrates and allosteric effectors and carries out the actual reduction of the ribonucleotide. It also provides redox-active cysteines. [RIR2_ECOLI] Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides. R2 contains the tyrosyl radical required for catalysis.

Publication Abstract from PubMed

Ribonucleotide reductases (RNRs) are a diverse family of enzymes that are alone capable of generating 2'-deoxynucleotides de novo and are thus critical in DNA biosynthesis and repair. The nucleotide reduction reaction in all RNRs requires the generation of a transient active site thiyl radical, and in class I RNRs this process involves a long-range radical transfer between two subunits, alpha and beta. Due to the transient subunit association, an atomic resolution structure of an active alpha2beta2 RNR complex has been elusive. Here we use a doubly-substituted beta2, E52Q/(2,3,5)-trifluorotyrosine122-beta2 to trap wildtype-alpha2 in long-lived alpha2beta2 complex. We report the structure of this complex by cryo-electron microscopy to 3.6-A resolution, allowing for structural visualization of a 32-A-long radical transfer pathway that affords RNR activity.

Structure of a trapped radical transfer pathway within a ribonucleotide reductase holocomplex.,Kang G, Taguchi AT, Stubbe J, Drennan CL Science. 2020 Mar 26. pii: science.aba6794. doi: 10.1126/science.aba6794. PMID:32217749^[1]

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

References

↑ Kang G, Taguchi AT, Stubbe J, Drennan CL. Structure of a trapped radical transfer pathway within a ribonucleotide reductase holocomplex. Science. 2020 Mar 26. pii: science.aba6794. doi: 10.1126/science.aba6794. PMID:32217749 doi:http://dx.doi.org/10.1126/science.aba6794

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/6w4x"

@@ Line 3: / Line 3: @@
 <StructureSection load='6w4x' size='340' side='right'caption='[[6w4x]], [[Resolution|resolution]] 3.60&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6w4x]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6W4X OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6W4X FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6w4x]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6W4X OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6W4X FirstGlance]. <br>
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FEO:MU-OXO-DIIRON'>FEO</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TTP:THYMIDINE-5-TRIPHOSPHATE'>TTP</scene></td></tr>
 <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=FY3:2,3,5-TRIFLUORO-L-TYROSINE'>FY3</scene></td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">nrdA, dnaF, b2234, JW2228 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI]), nrdB, ftsB, b2235, JW2229 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</td></tr>
 <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribonucleoside-diphosphate_reductase Ribonucleoside-diphosphate reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.17.4.1 1.17.4.1] </span></td></tr>
 <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6w4x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6w4x OCA], [http://pdbe.org/6w4x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6w4x RCSB], [http://www.ebi.ac.uk/pdbsum/6w4x PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6w4x ProSAT]</span></td></tr>
@@ Line 24: / Line 25: @@
 __TOC__
 </StructureSection>
+[[Category: Ecoli]]
 [[Category: Large Structures]]
 [[Category: Ribonucleoside-diphosphate reductase]]

6w4x

From Proteopedia

Revision as of 06:43, 6 May 2020

Holocomplex of E. coli class Ia ribonucleotide reductase with GDP and TTP

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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