5efq: Difference between revisions

Revision as of 19:39, 30 December 2015

Crystal structure of human Cdk13/Cyclin K in complex with ADP-aluminum fluoride

Structural highlights

5efq is a 4 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	ADP, AF3, MG
NonStd Res:	TPO
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum

Function

[CDK13_HUMAN] Cyclin-dependent kinase which displays CTD kinase activity and is required for RNA splicing. Has CTD kinase activity by hyperphosphorylating the C-terminal heptapeptide repeat domain (CTD) of the largest RNA polymerase II subunit RPB1, thereby acting as a key regulator of transcription elongation. Required for RNA splicing, probably by phosphorylating SRSF1/SF2. Required during hematopoiesis. In case of infection by HIV-1 virus, interacts with HIV-1 Tat protein acetylated at 'Lys-50' and 'Lys-51', thereby increasing HIV-1 mRNA splicing and promoting the production of the doubly spliced HIV-1 protein Nef.^[1] ^[2] ^[3] ^[4] [CCNK_HUMAN] May play a role in transcriptional regulation. In vitro, is associated with a kinase activity toward both RNA polymerase II C-terminal domain and CDK2 (CAK).^[5]

References

↑ Even Y, Durieux S, Escande ML, Lozano JC, Peaucellier G, Weil D, Geneviere AM. CDC2L5, a Cdk-like kinase with RS domain, interacts with the ASF/SF2-associated protein p32 and affects splicing in vivo. J Cell Biochem. 2006 Oct 15;99(3):890-904. PMID:16721827 doi:https://dx.doi.org/10.1002/jcb.20986
↑ Lapidot-Lifson Y, Patinkin D, Prody CA, Ehrlich G, Seidman S, Ben-Aziz R, Benseler F, Eckstein F, Zakut H, Soreq H. Cloning and antisense oligodeoxynucleotide inhibition of a human homolog of cdc2 required in hematopoiesis. Proc Natl Acad Sci U S A. 1992 Jan 15;89(2):579-83. PMID:1731328
↑ Berro R, Pedati C, Kehn-Hall K, Wu W, Klase Z, Even Y, Geneviere AM, Ammosova T, Nekhai S, Kashanchi F. CDK13, a new potential human immunodeficiency virus type 1 inhibitory factor regulating viral mRNA splicing. J Virol. 2008 Jul;82(14):7155-66. doi: 10.1128/JVI.02543-07. Epub 2008 May 14. PMID:18480452 doi:10.1128/JVI.02543-07
↑ Bartkowiak B, Liu P, Phatnani HP, Fuda NJ, Cooper JJ, Price DH, Adelman K, Lis JT, Greenleaf AL. CDK12 is a transcription elongation-associated CTD kinase, the metazoan ortholog of yeast Ctk1. Genes Dev. 2010 Oct 15;24(20):2303-16. doi: 10.1101/gad.1968210. PMID:20952539 doi:https://dx.doi.org/10.1101/gad.1968210
↑ Fu TJ, Peng J, Lee G, Price DH, Flores O. Cyclin K functions as a CDK9 regulatory subunit and participates in RNA polymerase II transcription. J Biol Chem. 1999 Dec 3;274(49):34527-30. PMID:10574912

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OCA

[1] Even Y, Durieux S, Escande ML, Lozano JC, Peaucellier G, Weil D, Geneviere AM. CDC2L5, a Cdk-like kinase with RS domain, interacts with the ASF/SF2-associated protein p32 and affects splicing in vivo. J Cell Biochem. 2006 Oct 15;99(3):890-904. PMID:16721827 doi:https://dx.doi.org/10.1002/jcb.20986

[2] Lapidot-Lifson Y, Patinkin D, Prody CA, Ehrlich G, Seidman S, Ben-Aziz R, Benseler F, Eckstein F, Zakut H, Soreq H. Cloning and antisense oligodeoxynucleotide inhibition of a human homolog of cdc2 required in hematopoiesis. Proc Natl Acad Sci U S A. 1992 Jan 15;89(2):579-83. PMID:1731328

[3] Berro R, Pedati C, Kehn-Hall K, Wu W, Klase Z, Even Y, Geneviere AM, Ammosova T, Nekhai S, Kashanchi F. CDK13, a new potential human immunodeficiency virus type 1 inhibitory factor regulating viral mRNA splicing. J Virol. 2008 Jul;82(14):7155-66. doi: 10.1128/JVI.02543-07. Epub 2008 May 14. PMID:18480452 doi:10.1128/JVI.02543-07

[4] Bartkowiak B, Liu P, Phatnani HP, Fuda NJ, Cooper JJ, Price DH, Adelman K, Lis JT, Greenleaf AL. CDK12 is a transcription elongation-associated CTD kinase, the metazoan ortholog of yeast Ctk1. Genes Dev. 2010 Oct 15;24(20):2303-16. doi: 10.1101/gad.1968210. PMID:20952539 doi:https://dx.doi.org/10.1101/gad.1968210

[5] Fu TJ, Peng J, Lee G, Price DH, Flores O. Cyclin K functions as a CDK9 regulatory subunit and participates in RNA polymerase II transcription. J Biol Chem. 1999 Dec 3;274(49):34527-30. PMID:10574912

[1]

[2]

[3]

[4]

[5]

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
+==Crystal structure of human Cdk13/Cyclin K in complex with ADP-aluminum fluoride==
+<StructureSection load='5efq' size='340' side='right' caption='[[5efq]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
-The entry 5efq is ON HOLD  until Paper Publication
+== Structural highlights ==
+<table><tr><td colspan='2'>[[5efq]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5EFQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5EFQ FirstGlance]. <br>
-Authors: Hoenig, D., Greifenberg, A.K., Anand, K., Geyer, M.
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=AF3:ALUMINUM+FLUORIDE'>AF3</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
+<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=TPO:PHOSPHOTHREONINE'>TPO</scene></td></tr>
-Description:
+<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=5efq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5efq OCA], [http://pdbe.org/5efq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5efq RCSB], [http://www.ebi.ac.uk/pdbsum/5efq PDBsum]</span></td></tr>
-[[Category: Unreleased Structures]]
+</table>
+== Function ==
+[[http://www.uniprot.org/uniprot/CDK13_HUMAN CDK13_HUMAN]] Cyclin-dependent kinase which displays CTD kinase activity and is required for RNA splicing. Has CTD kinase activity by hyperphosphorylating the C-terminal heptapeptide repeat domain (CTD) of the largest RNA polymerase II subunit RPB1, thereby acting as a key regulator of transcription elongation. Required for RNA splicing, probably by phosphorylating SRSF1/SF2. Required during hematopoiesis. In case of infection by HIV-1 virus, interacts with HIV-1 Tat protein acetylated at 'Lys-50' and 'Lys-51', thereby increasing HIV-1 mRNA splicing and promoting the production of the doubly spliced HIV-1 protein Nef.<ref>PMID:16721827</ref> <ref>PMID:1731328</ref> <ref>PMID:18480452</ref> <ref>PMID:20952539</ref>  [[http://www.uniprot.org/uniprot/CCNK_HUMAN CCNK_HUMAN]] May play a role in transcriptional regulation. In vitro, is associated with a kinase activity toward both RNA polymerase II C-terminal domain and CDK2 (CAK).<ref>PMID:10574912</ref>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Anand, K]]
-[[Category: Greifenberg, A.K]]
 [[Category: Geyer, M]]
+[[Category: Greifenberg, A K]]
 [[Category: Hoenig, D]]
+[[Category: Adp]]
+[[Category: Cyclin]]
+[[Category: Kinase]]
+[[Category: Transferase]]

5efq: Difference between revisions

Revision as of 19:39, 30 December 2015

Crystal structure of human Cdk13/Cyclin K in complex with ADP-aluminum fluoride

Structural highlights

Function

References

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