4bgq

From Proteopedia

(Difference between revisions)

Current revision

Crystal structure of the human CDKL5 kinase domain

Structural highlights

4bgq is a 1 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 2Å
Ligands:	, , ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Disease

CDKL5_HUMAN Note=Chromosomal aberrations involving CDKL5 are found in patients manifesting early-onset seizures and spams and psychomotor impairment. Translocation t(X;6)(p22.3;q14); translocation t(X;7)(p22.3;p15). Epileptic encephalopathy, early infantile, 2 (EIEE2) [MIM:300672: A severe form of epilepsy characterized by seizures or spasms beginning in infancy. Patients with epileptic encephalopathy early infantile type 2 manifest features resembling Rett syndrome such as microcephaly, lack of speech development, stereotypic hand movements. Note=The disease is caused by mutations affecting the gene represented in this entry.^[1] ^[2] ^[3] ^[4] ^[5] ^[6] ^[7] ^[8] ^[9] ^[10] ^[11] ^[12] ^[13]

Function

CDKL5_HUMAN Mediates phosphorylation of MECP2.^[14] ^[15]

Publication Abstract from PubMed

Various kinases, including a cyclin-dependent kinase (CDK) family member, regulate the growth and functions of primary cilia, which perform essential roles in signaling and development. Neurological disorders linked to CDK-Like (CDKL) proteins suggest that these underexplored kinases may have similar functions. Here, we present the crystal structures of human CDKL1, CDKL2, CDKL3, and CDKL5, revealing their evolutionary divergence from CDK and mitogen-activated protein kinases (MAPKs), including an unusual ?J helix important for CDKL2 and CDKL3 activity. C. elegans CDKL-1, most closely related to CDKL1-4 and localized to neuronal cilia transition zones, modulates cilium length; this depends on its kinase activity and ?J helix-containing C terminus. Human CDKL5, linked to Rett syndrome, also localizes to cilia, and it impairs ciliogenesis when overexpressed. CDKL5 patient mutations modeled in CDKL-1 cause localization and/or cilium length defects. Together, our studies establish a disease model system suggesting cilium length defects as a pathomechanism for neurological disorders, including epilepsy.

CDKL Family Kinases Have Evolved Distinct Structural Features and Ciliary Function.,Canning P, Park K, Goncalves J, Li C, Howard CJ, Sharpe TD, Holt LJ, Pelletier L, Bullock AN, Leroux MR Cell Rep. 2018 Jan 23;22(4):885-894. doi: 10.1016/j.celrep.2017.12.083. Epub 2018, Jan 28. PMID:29420175^[16]

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

References

↑ Mari F, Azimonti S, Bertani I, Bolognese F, Colombo E, Caselli R, Scala E, Longo I, Grosso S, Pescucci C, Ariani F, Hayek G, Balestri P, Bergo A, Badaracco G, Zappella M, Broccoli V, Renieri A, Kilstrup-Nielsen C, Landsberger N. CDKL5 belongs to the same molecular pathway of MeCP2 and it is responsible for the early-onset seizure variant of Rett syndrome. Hum Mol Genet. 2005 Jul 15;14(14):1935-46. Epub 2005 May 25. PMID:15917271 doi:10.1093/hmg/ddi198
↑ Bertani I, Rusconi L, Bolognese F, Forlani G, Conca B, De Monte L, Badaracco G, Landsberger N, Kilstrup-Nielsen C. Functional consequences of mutations in CDKL5, an X-linked gene involved in infantile spasms and mental retardation. J Biol Chem. 2006 Oct 20;281(42):32048-56. Epub 2006 Aug 24. PMID:16935860 doi:10.1074/jbc.M606325200
↑ Kalscheuer VM, Tao J, Donnelly A, Hollway G, Schwinger E, Kubart S, Menzel C, Hoeltzenbein M, Tommerup N, Eyre H, Harbord M, Haan E, Sutherland GR, Ropers HH, Gecz J. Disruption of the serine/threonine kinase 9 gene causes severe X-linked infantile spasms and mental retardation. Am J Hum Genet. 2003 Jun;72(6):1401-11. Epub 2003 May 7. PMID:12736870 doi:S0002-9297(07)60440-6
↑ Weaving LS, Christodoulou J, Williamson SL, Friend KL, McKenzie OL, Archer H, Evans J, Clarke A, Pelka GJ, Tam PP, Watson C, Lahooti H, Ellaway CJ, Bennetts B, Leonard H, Gecz J. Mutations of CDKL5 cause a severe neurodevelopmental disorder with infantile spasms and mental retardation. Am J Hum Genet. 2004 Dec;75(6):1079-93. Epub 2004 Oct 18. PMID:15492925 doi:S0002-9297(07)60075-5
↑ Tao J, Van Esch H, Hagedorn-Greiwe M, Hoffmann K, Moser B, Raynaud M, Sperner J, Fryns JP, Schwinger E, Gecz J, Ropers HH, Kalscheuer VM. Mutations in the X-linked cyclin-dependent kinase-like 5 (CDKL5/STK9) gene are associated with severe neurodevelopmental retardation. Am J Hum Genet. 2004 Dec;75(6):1149-54. PMID:15499549 doi:10.1086/426460
↑ Scala E, Ariani F, Mari F, Caselli R, Pescucci C, Longo I, Meloni I, Giachino D, Bruttini M, Hayek G, Zappella M, Renieri A. CDKL5/STK9 is mutated in Rett syndrome variant with infantile spasms. J Med Genet. 2005 Feb;42(2):103-7. PMID:15689447 doi:10.1136/jmg.2004.026237
↑ Evans JC, Archer HL, Colley JP, Ravn K, Nielsen JB, Kerr A, Williams E, Christodoulou J, Gecz J, Jardine PE, Wright MJ, Pilz DT, Lazarou L, Cooper DN, Sampson JR, Butler R, Whatley SD, Clarke AJ. Early onset seizures and Rett-like features associated with mutations in CDKL5. Eur J Hum Genet. 2005 Oct;13(10):1113-20. PMID:16015284 doi:5201451
↑ Archer HL, Evans J, Edwards S, Colley J, Newbury-Ecob R, O'Callaghan F, Huyton M, O'Regan M, Tolmie J, Sampson J, Clarke A, Osborne J. CDKL5 mutations cause infantile spasms, early onset seizures, and severe mental retardation in female patients. J Med Genet. 2006 Sep;43(9):729-34. Epub 2006 Apr 12. PMID:16611748 doi:10.1136/jmg.2006.041467
↑ Bahi-Buisson N, Nectoux J, Rosas-Vargas H, Milh M, Boddaert N, Girard B, Cances C, Ville D, Afenjar A, Rio M, Heron D, N'guyen Morel MA, Arzimanoglou A, Philippe C, Jonveaux P, Chelly J, Bienvenu T. Key clinical features to identify girls with CDKL5 mutations. Brain. 2008 Oct;131(Pt 10):2647-61. Epub 2008 Sep 12. PMID:18790821 doi:awn197
↑ Rosas-Vargas H, Bahi-Buisson N, Philippe C, Nectoux J, Girard B, N'Guyen Morel MA, Gitiaux C, Lazaro L, Odent S, Jonveaux P, Chelly J, Bienvenu T. Impairment of CDKL5 nuclear localisation as a cause for severe infantile encephalopathy. J Med Genet. 2008 Mar;45(3):172-8. Epub 2007 Nov 9. PMID:17993579 doi:jmg.2007.053504
↑ Elia M, Falco M, Ferri R, Spalletta A, Bottitta M, Calabrese G, Carotenuto M, Musumeci SA, Lo Giudice M, Fichera M. CDKL5 mutations in boys with severe encephalopathy and early-onset intractable epilepsy. Neurology. 2008 Sep 23;71(13):997-9. PMID:18809835 doi:71/13/997
↑ Sprovieri T, Conforti FL, Fiumara A, Mazzei R, Ungaro C, Citrigno L, Muglia M, Arena A, Quattrone A. A novel mutation in the X-linked cyclin-dependent kinase-like 5 (CDKL5) gene associated with a severe Rett phenotype. Am J Med Genet A. 2009 Feb 15;149A(4):722-5. PMID:19253388 doi:10.1002/ajmg.a.32711
↑ Russo S, Marchi M, Cogliati F, Bonati MT, Pintaudi M, Veneselli E, Saletti V, Balestrini M, Ben-Zeev B, Larizza L. Novel mutations in the CDKL5 gene, predicted effects and associated phenotypes. Neurogenetics. 2009 Jul;10(3):241-50. Epub 2009 Feb 25. PMID:19241098 doi:10.1007/s10048-009-0177-1
↑ Mari F, Azimonti S, Bertani I, Bolognese F, Colombo E, Caselli R, Scala E, Longo I, Grosso S, Pescucci C, Ariani F, Hayek G, Balestri P, Bergo A, Badaracco G, Zappella M, Broccoli V, Renieri A, Kilstrup-Nielsen C, Landsberger N. CDKL5 belongs to the same molecular pathway of MeCP2 and it is responsible for the early-onset seizure variant of Rett syndrome. Hum Mol Genet. 2005 Jul 15;14(14):1935-46. Epub 2005 May 25. PMID:15917271 doi:10.1093/hmg/ddi198
↑ Bertani I, Rusconi L, Bolognese F, Forlani G, Conca B, De Monte L, Badaracco G, Landsberger N, Kilstrup-Nielsen C. Functional consequences of mutations in CDKL5, an X-linked gene involved in infantile spasms and mental retardation. J Biol Chem. 2006 Oct 20;281(42):32048-56. Epub 2006 Aug 24. PMID:16935860 doi:10.1074/jbc.M606325200
↑ Canning P, Park K, Goncalves J, Li C, Howard CJ, Sharpe TD, Holt LJ, Pelletier L, Bullock AN, Leroux MR. CDKL Family Kinases Have Evolved Distinct Structural Features and Ciliary Function. Cell Rep. 2018 Jan 23;22(4):885-894. doi: 10.1016/j.celrep.2017.12.083. Epub 2018, Jan 28. PMID:29420175 doi:http://dx.doi.org/10.1016/j.celrep.2017.12.083

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4bgq"

@@ Line 3: / Line 3: @@
 <StructureSection load='4bgq' size='340' side='right'caption='[[4bgq]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4bgq]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4BGQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4BGQ FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4bgq]] is a 1 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=4BGQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4BGQ FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=38R:[4-({4-[(3-CYCLOPENTYL-1H-PYRAZOL-5-YL)AMINO]PYRIMIDIN-2-YL}AMINO)PHENYL]ACETONITRILE'>38R</scene>, <scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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&#8491;</td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Cyclin-dependent_kinase Cyclin-dependent kinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.11.22 2.7.11.22] </span></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=38R:[4-({4-[(3-CYCLOPENTYL-1H-PYRAZOL-5-YL)AMINO]PYRIMIDIN-2-YL}AMINO)PHENYL]ACETONITRILE'>38R</scene>, <scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=4bgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4bgq OCA], [https://pdbe.org/4bgq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4bgq RCSB], [https://www.ebi.ac.uk/pdbsum/4bgq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4bgq ProSAT]</span></td></tr>
 </table>
 == Disease ==
-[[https://www.uniprot.org/uniprot/CDKL5_HUMAN CDKL5_HUMAN]] Note=Chromosomal aberrations involving CDKL5 are found in patients manifesting early-onset seizures and spams and psychomotor impairment. Translocation t(X;6)(p22.3;q14); translocation t(X;7)(p22.3;p15).  Epileptic encephalopathy, early infantile, 2 (EIEE2) [MIM:[https://omim.org/entry/300672 300672]]: A severe form of epilepsy characterized by seizures or spasms beginning in infancy. Patients with epileptic encephalopathy early infantile type 2 manifest features resembling Rett syndrome such as microcephaly, lack of speech development, stereotypic hand movements. Note=The disease is caused by mutations affecting the gene represented in this entry.<ref>PMID:15917271</ref> <ref>PMID:16935860</ref> <ref>PMID:12736870</ref> <ref>PMID:15492925</ref> <ref>PMID:15499549</ref> <ref>PMID:15689447</ref> <ref>PMID:16015284</ref> <ref>PMID:16611748</ref> <ref>PMID:18790821</ref> <ref>PMID:17993579</ref> <ref>PMID:18809835</ref> <ref>PMID:19253388</ref> <ref>PMID:19241098</ref>
+[https://www.uniprot.org/uniprot/CDKL5_HUMAN CDKL5_HUMAN] Note=Chromosomal aberrations involving CDKL5 are found in patients manifesting early-onset seizures and spams and psychomotor impairment. Translocation t(X;6)(p22.3;q14); translocation t(X;7)(p22.3;p15).  Epileptic encephalopathy, early infantile, 2 (EIEE2) [MIM:[https://omim.org/entry/300672 300672]: A severe form of epilepsy characterized by seizures or spasms beginning in infancy. Patients with epileptic encephalopathy early infantile type 2 manifest features resembling Rett syndrome such as microcephaly, lack of speech development, stereotypic hand movements. Note=The disease is caused by mutations affecting the gene represented in this entry.<ref>PMID:15917271</ref> <ref>PMID:16935860</ref> <ref>PMID:12736870</ref> <ref>PMID:15492925</ref> <ref>PMID:15499549</ref> <ref>PMID:15689447</ref> <ref>PMID:16015284</ref> <ref>PMID:16611748</ref> <ref>PMID:18790821</ref> <ref>PMID:17993579</ref> <ref>PMID:18809835</ref> <ref>PMID:19253388</ref> <ref>PMID:19241098</ref>
 == Function ==
-[[https://www.uniprot.org/uniprot/CDKL5_HUMAN CDKL5_HUMAN]] Mediates phosphorylation of MECP2.<ref>PMID:15917271</ref> <ref>PMID:16935860</ref>
+[https://www.uniprot.org/uniprot/CDKL5_HUMAN CDKL5_HUMAN] Mediates phosphorylation of MECP2.<ref>PMID:15917271</ref> <ref>PMID:16935860</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 25: / Line 25: @@
 __TOC__
 </StructureSection>
-[[Category: Cyclin-dependent kinase]]
+[[Category: Homo sapiens]]
-[[Category: Human]]
 [[Category: Large Structures]]
-[[Category: Arrowsmith, C H]]
+[[Category: Arrowsmith CH]]
-[[Category: Bountra, C]]
+[[Category: Bountra C]]
-[[Category: Bullock, A]]
+[[Category: Bullock A]]
-[[Category: Canning, P]]
+[[Category: Canning P]]
-[[Category: Delft, F von]]
+[[Category: Edwards AM]]
-[[Category: Edwards, A M]]
+[[Category: Goubin S]]
-[[Category: Goubin, S]]
+[[Category: Krojer T]]
-[[Category: Krojer, T]]
+[[Category: Mahajan P]]
-[[Category: Mahajan, P]]
+[[Category: Pike ACW]]
-[[Category: Pike, A C.W]]
+[[Category: Vollmar M]]
-[[Category: Vollmar, M]]
+[[Category: Von Delft F]]
-[[Category: Kinase]]
-[[Category: Phospho-mimetic]]
-[[Category: Transferase]]

4bgq

From Proteopedia

Current revision

Crystal structure of the human CDKL5 kinase domain

Structural highlights

Disease

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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