5wvd: Difference between revisions

Latest revision as of 07:49, 22 November 2023

Structure of Mnk1 in complex with DS12881479

Structural highlights

5wvd is a 2 chain structure with sequence from Homo sapiens. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 3Å
Ligands:	7UX, SO4
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

MKNK1_HUMAN May play a role in the response to environmental stress and cytokines. Appears to regulate translation by phosphorylating EIF4E, thus increasing the affinity of this protein for the 7-methylguanosine-containing mRNA cap.^[1] ^[2] ^[3] ^[4]

Publication Abstract from PubMed

Mitogen-activated protein kinase (MAPK)-interacting kinases 1 (Mnk1) and 2 (Mnk2) modulate translation initiation through the phosphorylation of eukaryotic translation initiation factor 4E, which promotes tumorigenesis. However, Mnk1 and Mnk2 are dispensable in normal cells, suggesting that the inhibition of Mnk1 and Mnk2 could be effective in cancer therapy. To provide a structural basis for Mnk1 inhibition, a novel Mnk1 inhibitor was discovered and the crystal structure of Mnk1 in complex with this inhibitor was determined. The crystal structure revealed that the inhibitor binds to the autoinhibited state of Mnk1, stabilizing the Mnk-specific DFD motif in the DFD-out conformation, thus preventing Mnk1 from switching to the active conformation and thereby inhibiting the kinase activity. These results provide a valuable platform for the structure-guided design of Mnk1 inhibitors.

A novel inhibitor stabilizes the inactive conformation of MAPK-interacting kinase 1.,Matsui Y, Yasumatsu I, Yoshida KI, Iimura S, Ikeno Y, Nawano T, Fukano H, Ubukata O, Hanzawa H, Tanzawa F, Isoyama T Acta Crystallogr F Struct Biol Commun. 2018 Mar 1;74(Pt 3):156-160. doi:, 10.1107/S2053230X18002108. Epub 2018 Feb 26. PMID:29497019^[5]

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

References

↑ Fukunaga R, Hunter T. MNK1, a new MAP kinase-activated protein kinase, isolated by a novel expression screening method for identifying protein kinase substrates. EMBO J. 1997 Apr 15;16(8):1921-33. PMID:9155018 doi:https://dx.doi.org/10.1093/emboj/16.8.1921
↑ Knauf U, Tschopp C, Gram H. Negative regulation of protein translation by mitogen-activated protein kinase-interacting kinases 1 and 2. Mol Cell Biol. 2001 Aug;21(16):5500-11. PMID:11463832 doi:https://dx.doi.org/10.1128/MCB.21.16.5500-5511.2001
↑ O'Loghlen A, Gonzalez VM, Pineiro D, Perez-Morgado MI, Salinas M, Martin ME. Identification and molecular characterization of Mnk1b, a splice variant of human MAP kinase-interacting kinase Mnk1. Exp Cell Res. 2004 Oct 1;299(2):343-55. PMID:15350534 doi:https://dx.doi.org/10.1016/j.yexcr.2004.06.006
↑ Pyronnet S, Imataka H, Gingras AC, Fukunaga R, Hunter T, Sonenberg N. Human eukaryotic translation initiation factor 4G (eIF4G) recruits mnk1 to phosphorylate eIF4E. EMBO J. 1999 Jan 4;18(1):270-9. PMID:9878069 doi:https://dx.doi.org/10.1093/emboj/18.1.270
↑ Matsui Y, Yasumatsu I, Yoshida KI, Iimura S, Ikeno Y, Nawano T, Fukano H, Ubukata O, Hanzawa H, Tanzawa F, Isoyama T. A novel inhibitor stabilizes the inactive conformation of MAPK-interacting kinase 1. Acta Crystallogr F Struct Biol Commun. 2018 Mar 1;74(Pt 3):156-160. doi:, 10.1107/S2053230X18002108. Epub 2018 Feb 26. PMID:29497019 doi:https://dx.doi.org/10.1107/S2053230X18002108

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Fukunaga R, Hunter T. MNK1, a new MAP kinase-activated protein kinase, isolated by a novel expression screening method for identifying protein kinase substrates. EMBO J. 1997 Apr 15;16(8):1921-33. PMID:9155018 doi:https://dx.doi.org/10.1093/emboj/16.8.1921

[2] Knauf U, Tschopp C, Gram H. Negative regulation of protein translation by mitogen-activated protein kinase-interacting kinases 1 and 2. Mol Cell Biol. 2001 Aug;21(16):5500-11. PMID:11463832 doi:https://dx.doi.org/10.1128/MCB.21.16.5500-5511.2001

[3] O'Loghlen A, Gonzalez VM, Pineiro D, Perez-Morgado MI, Salinas M, Martin ME. Identification and molecular characterization of Mnk1b, a splice variant of human MAP kinase-interacting kinase Mnk1. Exp Cell Res. 2004 Oct 1;299(2):343-55. PMID:15350534 doi:https://dx.doi.org/10.1016/j.yexcr.2004.06.006

[4] Pyronnet S, Imataka H, Gingras AC, Fukunaga R, Hunter T, Sonenberg N. Human eukaryotic translation initiation factor 4G (eIF4G) recruits mnk1 to phosphorylate eIF4E. EMBO J. 1999 Jan 4;18(1):270-9. PMID:9878069 doi:https://dx.doi.org/10.1093/emboj/18.1.270

[5] Matsui Y, Yasumatsu I, Yoshida KI, Iimura S, Ikeno Y, Nawano T, Fukano H, Ubukata O, Hanzawa H, Tanzawa F, Isoyama T. A novel inhibitor stabilizes the inactive conformation of MAPK-interacting kinase 1. Acta Crystallogr F Struct Biol Commun. 2018 Mar 1;74(Pt 3):156-160. doi:, 10.1107/S2053230X18002108. Epub 2018 Feb 26. PMID:29497019 doi:https://dx.doi.org/10.1107/S2053230X18002108

[1]

[2]

[3]

[4]

[5]

@@ Line 1: / Line 1: @@
 ==Structure of Mnk1 in complex with DS12881479==
-<StructureSection load='5wvd' size='340' side='right' caption='[[5wvd]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
+<StructureSection load='5wvd' size='340' side='right'caption='[[5wvd]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5wvd]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WVD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WVD FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5wvd]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WVD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5WVD FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=7UX:1-methyl-N-(5-phenyl-1,3-thiazol-2-yl)piperidine-4-carboxamide'>7UX</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]] 3&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5wvj|5wvj]], [[5wvl|5wvl]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=7UX:1-methyl-N-(5-phenyl-1,3-thiazol-2-yl)piperidine-4-carboxamide'>7UX</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">MKNK1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=5wvd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wvd OCA], [https://pdbe.org/5wvd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5wvd RCSB], [https://www.ebi.ac.uk/pdbsum/5wvd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5wvd ProSAT]</span></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=5wvd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wvd OCA], [http://pdbe.org/5wvd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wvd RCSB], [http://www.ebi.ac.uk/pdbsum/5wvd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wvd ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/MKNK1_HUMAN MKNK1_HUMAN] May play a role in the response to environmental stress and cytokines. Appears to regulate translation by phosphorylating EIF4E, thus increasing the affinity of this protein for the 7-methylguanosine-containing mRNA cap.<ref>PMID:9155018</ref> <ref>PMID:11463832</ref> <ref>PMID:15350534</ref> <ref>PMID:9878069</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 18: / Line 19: @@
 </div>
 <div class="pdbe-citations 5wvd" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Serine/threonine protein kinase 3D structures|Serine/threonine protein kinase 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Human]]
+[[Category: Homo sapiens]]
-[[Category: Hanzawa, H]]
+[[Category: Large Structures]]
-[[Category: Matsui, Y]]
+[[Category: Hanzawa H]]
-[[Category: Inactive conformation]]
+[[Category: Matsui Y]]
-[[Category: Kinase]]
-[[Category: Kinase inhibitor]]
-[[Category: Transferase]]

5wvd: Difference between revisions

Latest revision as of 07:49, 22 November 2023

Structure of Mnk1 in complex with DS12881479

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

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