4pyd

From Proteopedia

(Difference between revisions)

Current revision

MoaC in complex with cPMP crystallized in space group P212121

Structural highlights

4pyd is a 6 chain structure with sequence from Escherichia coli K-12. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 3.186Å
Ligands:	, , ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

MOAC_ECOLI Together with MoaA, is involved in the conversion of 5'-GTP to cyclic pyranopterin monophosphate (cPMP or molybdopterin precursor Z).[HAMAP-Rule:MF_01224_B]

Publication Abstract from PubMed

The molybdenum cofactor (Moco) is essential for all kingdoms of life, plays central roles in various biological processes, and must be biosynthesized de novo. During Moco biosynthesis, the characteristic pyranopterin ring is constructed by a complex rearrangement of guanosine 5'-triphosphate (GTP) into cyclic pyranopterin (cPMP) through the action of two enzymes, MoaA and MoaC (molybdenum cofactor biosynthesis protein A and C, respectively). Conventionally, MoaA was considered to catalyze the majority of this transformation, with MoaC playing little or no role in the pyranopterin formation. Recently, this view was challenged by the isolation of 3',8-cyclo-7,8-dihydro-guanosine 5'-triphosphate (3',8-cH2GTP) as the product of in vitro MoaA reactions. To elucidate the mechanism of formation of Moco pyranopterin backbone, we performed biochemical characterization of 3',8-cH2GTP and functional and X-ray crystallographic characterizations of MoaC. These studies revealed that 3',8-cH2GTP is the only product of MoaA that can be converted to cPMP by MoaC. Our structural studies captured the specific binding of 3',8-cH2GTP in the active site of MoaC. These observations provided strong evidence that the physiological function of MoaA is the conversion of GTP to 3',8-cH2GTP (GTP 3',8-cyclase), and that of MoaC is to catalyze the rearrangement of 3',8-cH2GTP into cPMP (cPMP synthase). Furthermore, our structure-guided studies suggest that MoaC catalysis involves the dynamic motions of enzyme active-site loops as a way to control the timing of interaction between the reaction intermediates and catalytically essential amino acid residues. Thus, these results reveal the previously unidentified mechanism behind Moco biosynthesis and provide mechanistic and structural insights into how enzymes catalyze complex rearrangement reactions.

Mechanism of pyranopterin ring formation in molybdenum cofactor biosynthesis.,Hover BM, Tonthat NK, Schumacher MA, Yokoyama K Proc Natl Acad Sci U S A. 2015 May 19;112(20):6347-52. doi:, 10.1073/pnas.1500697112. Epub 2015 May 4. PMID:25941396^[1]

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

References

↑ Hover BM, Tonthat NK, Schumacher MA, Yokoyama K. Mechanism of pyranopterin ring formation in molybdenum cofactor biosynthesis. Proc Natl Acad Sci U S A. 2015 May 19;112(20):6347-52. doi:, 10.1073/pnas.1500697112. Epub 2015 May 4. PMID:25941396 doi:http://dx.doi.org/10.1073/pnas.1500697112

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://proteopedia.org/wiki/index.php/4pyd"

@@ Line 1: / Line 1: @@
 ==MoaC in complex with cPMP crystallized in space group P212121==
-<StructureSection load='4pyd' size='340' side='right' caption='[[4pyd]], [[Resolution|resolution]] 3.19&Aring;' scene=''>
+<StructureSection load='4pyd' size='340' side='right'caption='[[4pyd]], [[Resolution|resolution]] 3.19&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4pyd]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PYD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PYD FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4pyd]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PYD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4PYD FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=8CS:(2R,4AR,5AR,11AR,12AS)-8-AMINO-2-HYDROXY-4A,5A,9,11,11A,12A-HEXAHYDRO[1,3,2]DIOXAPHOSPHININO[4,5 5,6]PYRANO[3,2-G]PTERIDINE-10,12(4H,6H)-DIONE+2-OXIDE'>8CS</scene>, <scene name='pdbligand=DTT:2,3-DIHYDROXY-1,4-DITHIOBUTANE'>DTT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <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]] 3.186&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4pya|4pya]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8CS:(2R,4AR,5AR,11AR,12AS)-8-AMINO-2-HYDROXY-4A,5A,9,11,11A,12A-HEXAHYDRO[1,3,2]DIOXAPHOSPHININO[4,5 5,6]PYRANO[3,2-G]PTERIDINE-10,12(4H,6H)-DIONE+2-OXIDE'>8CS</scene>, <scene name='pdbligand=DTT:2,3-DIHYDROXY-1,4-DITHIOBUTANE'>DTT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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=4pyd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pyd OCA], [http://pdbe.org/4pyd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4pyd RCSB], [http://www.ebi.ac.uk/pdbsum/4pyd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4pyd 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=4pyd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pyd OCA], [https://pdbe.org/4pyd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4pyd RCSB], [https://www.ebi.ac.uk/pdbsum/4pyd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4pyd ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/MOAC_ECOLI MOAC_ECOLI] Together with MoaA, is involved in the conversion of 5'-GTP to cyclic pyranopterin monophosphate (cPMP or molybdopterin precursor Z).[HAMAP-Rule:MF_01224_B]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 21: / Line 23: @@
 __TOC__
 </StructureSection>
-[[Category: Escherichia coli]]
+[[Category: Escherichia coli K-12]]
-[[Category: Hover, B M]]
+[[Category: Large Structures]]
-[[Category: Schumacher, M A]]
+[[Category: Hover BM]]
-[[Category: Tonthat, N K]]
+[[Category: Schumacher MA]]
-[[Category: Yokoyama, K]]
+[[Category: Tonthat NK]]
-[[Category: Biosynthetic protein]]
+[[Category: Yokoyama K]]
-[[Category: Moac]]
-[[Category: Moco]]
-[[Category: Molybdenum cofactor]]

4pyd

From Proteopedia

Current revision

MoaC in complex with cPMP crystallized in space group P212121

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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