Sandbox GGC16 - Revision history

Student at 21:57, 27 April 2021

Student — Tue, 27 Apr 2021 21:57:33 GMT

←Older revision		Revision as of 21:57, 27 April 2021
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	Myeloid Leukemia. Blood. 2003, 101(5), 2074–2074.</ref> It is highly polar due to the abundance of proline, glutamate, serine, and threonine. Proteins with a PEST region typically have a short half-life of under 2 hours. It is believed that the PEST region is a tag for fast degradation of the protein. This mutation likely provides a mechanism for the protein to evade degradation, enabling it to continue inducing transcription. This could contribute to cancerous growth of white blood cells.		Myeloid Leukemia. Blood. 2003, 101(5), 2074–2074.</ref> It is highly polar due to the abundance of proline, glutamate, serine, and threonine. Proteins with a PEST region typically have a short half-life of under 2 hours. It is believed that the PEST region is a tag for fast degradation of the protein. This mutation likely provides a mechanism for the protein to evade degradation, enabling it to continue inducing transcription. This could contribute to cancerous growth of white blood cells.

-	== Hydration Is Essential to PU.1/DNA Interaction ==

-	Water mediates the binding of PU.1 to DNA. As betaine was titrated into a solution of PU.1 and DNA, binding significantly decreased.

	== References ==		== References ==
	<references/>		<references/>

Student at 21:56, 27 April 2021

Student — Tue, 27 Apr 2021 21:56:54 GMT

←Older revision		Revision as of 21:56, 27 April 2021
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	==PU.1==		==PU.1==
	<StructureSection load='1PUE' size='340' side='right' caption='PU.1' scene=''>		<StructureSection load='1PUE' size='340' side='right' caption='PU.1' scene=''>
-	PU.1 is a hematopoietic transcription factor belonging to the Ets family of proteins. It regulates transcription of genes specific to lymphoid cells, ultimately leading to cellular differentiation.<ref> UniProt ConsortiumEuropean Bioinformatics InstituteProtein Information ResourceSIB Swiss Institute of Bioinformatics. (2021, April 7). Transcription factor PU.1. UniProt ConsortiumEuropean Bioinformatics InstituteProtein Information ResourceSIB Swiss Institute of Bioinformatics. https://www.uniprot.org/uniprot/P17947.</ref> <scene name='87/874948/Helixturnhelix/1'>Binding motif </scene>This transcription factor binds DNA with its helix-turn-helix motif, a common motif in transcription factors and DNA repair proteins.<ref>ARAVIND, L., ANANTHARAMAN, V., BALAJI, S., BABU, M., & IYER, L. (2005). The many faces of the helix-turn-helix domain: Transcription regulation and beyond. FEMS Microbiology Reviews, 29(2), 231–262. https://doi.org/10.1016/j.femsre.2004.12.008</ref>	+	PU.1 is a hematopoietic transcription factor belonging to the Ets family of proteins. It regulates transcription of genes specific to myeloid and lymphoid cells, ultimately leading to cellular differentiation.<ref> UniProt ConsortiumEuropean Bioinformatics InstituteProtein Information ResourceSIB Swiss Institute of Bioinformatics. (2021, April 7). Transcription factor PU.1. UniProt ConsortiumEuropean Bioinformatics InstituteProtein Information ResourceSIB Swiss Institute of Bioinformatics. https://www.uniprot.org/uniprot/P17947.</ref> <scene name='87/874948/Helixturnhelix/1'>Binding motif </scene>This transcription factor binds DNA with its helix-turn-helix motif, a common motif in transcription factors and DNA repair proteins.<ref>ARAVIND, L., ANANTHARAMAN, V., BALAJI, S., BABU, M., & IYER, L. (2005). The many faces of the helix-turn-helix domain: Transcription regulation and beyond. FEMS Microbiology Reviews, 29(2), 231–262. https://doi.org/10.1016/j.femsre.2004.12.008</ref>


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	=== Other Protein Interactions ===		=== Other Protein Interactions ===
-	PU.1 can interact with GATA-2, ~~another~~ endothelial transcription ~~factor~~ responsible for ~~leukocyte~~ development. This interaction has been observed	+	PU.1 can interact with GATA-1 and GATA-2, endothelial transcription factors responsible for erythroid development. This interaction has been observed to be antagonistic. This may likely play a big role in a stem cell's commitment to becoming an erythrocyte or leukocyte.<ref> Zhang P, Behre G, Pan J, Iwama A, Wara-Aswapati N, Radomska HS, Auron PE, Tenen DG, Sun Z. Negative cross-talk between hematopoietic regulators: GATA proteins repress PU.1. Proc Natl Acad Sci U S A. 1999 Jul 20;96(15):8705-10. doi: 10.1073/pnas.96.15.8705.</ref>

	== Disease ==		== Disease ==

Student at 21:46, 27 April 2021

Student — Tue, 27 Apr 2021 21:46:30 GMT

←Older revision		Revision as of 21:46, 27 April 2021
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	== Function ==		== Function ==
-	<scene name='87/874948/Earpurinerich/2'>Bases at Interface</scene> Within the nucleus, PU.1 activates transcription of lymphoid genes by binding DNA during hematopoiesis. The name PU.1 comes from the protein's binding interactions with a purine-rich DNA sequence.	+	<scene name='87/874948/Earpurinerich/2'>Bases at Interface</scene> Within the nucleus, PU.1 activates transcription of lymphoid genes by binding DNA during hematopoiesis. The name PU.1 comes from the protein's binding interactions with a purine-rich DNA sequence (5'-GAGGAA-3').

	=== Activation ===		=== Activation ===
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	PU.1 can exhibit protein-protein interaction. As a transcription factor, it binds DNA as a monomer. However, it can dimerize on a longer, downstream binding site. Interestingly, other Ets family proteins that a structurally homologous cannot bind DNA in as a 2:1, dimer complex. A study suggested that the 2:1 complex formation could be a mechanism of auto-inhibition.<ref>Esaki, S., Evich, M. G., Erlitzki, N., Germann, M. W., & Poon, G. M. K. (2017). Multiple DNA-binding modes for the ETS family transcription factor PU.1. Journal of Biological Chemistry, 292(39), 16044–16054. https://doi.org/https://doi.org/10.1074/jbc.M117.798207 </ref>		PU.1 can exhibit protein-protein interaction. As a transcription factor, it binds DNA as a monomer. However, it can dimerize on a longer, downstream binding site. Interestingly, other Ets family proteins that a structurally homologous cannot bind DNA in as a 2:1, dimer complex. A study suggested that the 2:1 complex formation could be a mechanism of auto-inhibition.<ref>Esaki, S., Evich, M. G., Erlitzki, N., Germann, M. W., & Poon, G. M. K. (2017). Multiple DNA-binding modes for the ETS family transcription factor PU.1. Journal of Biological Chemistry, 292(39), 16044–16054. https://doi.org/https://doi.org/10.1074/jbc.M117.798207 </ref>

		+	=== Other Protein Interactions ===
		+	PU.1 can interact with GATA-2, another endothelial transcription factor responsible for leukocyte development. This interaction has been observed

	== Disease ==		== Disease ==

Student at 21:34, 27 April 2021

Student — Tue, 27 Apr 2021 21:34:20 GMT

←Older revision		Revision as of 21:34, 27 April 2021
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	Ets binding domain is conserved across the Ets family of proteins which consist of about 35 proteins with similar functions. In PU.1, this binding domain is located between residues 170 and 253.		Ets binding domain is conserved across the Ets family of proteins which consist of about 35 proteins with similar functions. In PU.1, this binding domain is located between residues 170 and 253.
	The binding domain is positively charged. Residues most closely interacting with DNA include Arginine and Lysine. These most highly conserved residues are the two Arginines on the central helix within the major groove of the DNA and two Lysines on the outer turns.<ref>Kodandapani, R., Pio, F., Ni, CZ. et al. A new pattern for helix–turn–helix recognition revealed by the PU.l ETS–domain–DNA complex. Nature 380, 456–460 (1996). https://doi.org/10.1038/380456a0</ref>		The binding domain is positively charged. Residues most closely interacting with DNA include Arginine and Lysine. These most highly conserved residues are the two Arginines on the central helix within the major groove of the DNA and two Lysines on the outer turns.<ref>Kodandapani, R., Pio, F., Ni, CZ. et al. A new pattern for helix–turn–helix recognition revealed by the PU.l ETS–domain–DNA complex. Nature 380, 456–460 (1996). https://doi.org/10.1038/380456a0</ref>
		+
		+	== Other Functions ==
		+	=== Dimerization ===
		+	PU.1 can exhibit protein-protein interaction. As a transcription factor, it binds DNA as a monomer. However, it can dimerize on a longer, downstream binding site. Interestingly, other Ets family proteins that a structurally homologous cannot bind DNA in as a 2:1, dimer complex. A study suggested that the 2:1 complex formation could be a mechanism of auto-inhibition.<ref>Esaki, S., Evich, M. G., Erlitzki, N., Germann, M. W., & Poon, G. M. K. (2017). Multiple DNA-binding modes for the ETS family transcription factor PU.1. Journal of Biological Chemistry, 292(39), 16044–16054. https://doi.org/https://doi.org/10.1074/jbc.M117.798207 </ref>
		+

	== Disease ==		== Disease ==

Student at 21:13, 27 April 2021

Student — Tue, 27 Apr 2021 21:13:11 GMT

←Older revision		Revision as of 21:13, 27 April 2021
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	==Binding Domain==		==Binding Domain==
	<scene name='87/874948/Earbindingresiduesbest/1'>Residues at Binding Domain</scene>		<scene name='87/874948/Earbindingresiduesbest/1'>Residues at Binding Domain</scene>
-	Ets binding domain is conserved across the Ets family of proteins which consist of about 35 proteins with similar functions.	+	Ets binding domain is conserved across the Ets family of proteins which consist of about 35 proteins with similar functions. In PU.1, this binding domain is located between residues 170 and 253.
-	~~Binding~~ domain is positively charged. Residues most closely interacting with DNA include Arginine and Lysine. These ~~are~~ highly conserved- the two Arginines on the central helix within the major groove of the DNA and two Lysines on the outer turns.<ref>Kodandapani, R., Pio, F., Ni, CZ. et al. A new pattern for helix–turn–helix recognition revealed by the PU.l ETS–domain–DNA complex. Nature 380, 456–460 (1996). https://doi.org/10.1038/380456a0</ref>	+	The binding domain is positively charged. Residues most closely interacting with DNA include Arginine and Lysine. These most highly conserved residues are the two Arginines on the central helix within the major groove of the DNA and two Lysines on the outer turns.<ref>Kodandapani, R., Pio, F., Ni, CZ. et al. A new pattern for helix–turn–helix recognition revealed by the PU.l ETS–domain–DNA complex. Nature 380, 456–460 (1996). https://doi.org/10.1038/380456a0</ref>

	== Disease ==		== Disease ==
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	=== PEST domain ===		=== PEST domain ===
	<scene name='87/874948/Pest/2'>PEST domain</scene>		<scene name='87/874948/Pest/2'>PEST domain</scene>
-	The PEST domain is adjacent to the binding domain ~~and~~ has been found mutated in leukemia patients.<ref>Mueller, B. U. Heterozygous PU.1 Mutations Are Associated with Acute	+	The PEST domain is adjacent to the binding domain, located between residues 116-165. This special domain has been found mutated in leukemia patients.<ref>Mueller, B. U. Heterozygous PU.1 Mutations Are Associated with Acute
-	Myeloid Leukemia. Blood. 2003, 101(5), 2074–2074.</ref> It is highly polar due to the abundance of proline, glutamate, serine, and threonine. Proteins with a PEST region typically have a short half-life of under 2 hours. It is ~~hypothesized~~ that the PEST region is a tag for fast degradation of the protein.	+	Myeloid Leukemia. Blood. 2003, 101(5), 2074–2074.</ref> It is highly polar due to the abundance of proline, glutamate, serine, and threonine. Proteins with a PEST region typically have a short half-life of under 2 hours. It is believed that the PEST region is a tag for fast degradation of the protein. This mutation likely provides a mechanism for the protein to evade degradation, enabling it to continue inducing transcription. This could contribute to cancerous growth of white blood cells.

	== Hydration Is Essential to PU.1/DNA Interaction ==		== Hydration Is Essential to PU.1/DNA Interaction ==

Student at 21:08, 27 April 2021

Student — Tue, 27 Apr 2021 21:08:42 GMT

←Older revision		Revision as of 21:08, 27 April 2021
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	=== Activation ===		=== Activation ===
	<scene name='87/874948/Surfaceatmajorgroove/1'>Protein at Major Groove</scene>		<scene name='87/874948/Surfaceatmajorgroove/1'>Protein at Major Groove</scene>
-	A post-translational modification of PU.1 occurs at a serine ~~residue~~ (~~residue 41~~). This phosphorylation by protein kinase B (AKT) ~~induces PU.1 activation~~.<ref>Rieske, P., & Pongubala, J. M. R. (2001). AKT Induces Transcriptional Activity of PU.1 through Phosphorylation-mediated Modifications within Its Transactivation Domain. Journal of Biological Chemistry, 276(11), 8460–8468. https://doi.org/10.1074/jbc.m007482200</ref>	+	A post-translational modification of PU.1 occurs at serine residues, specifically, residues 140 and 146.<ref> UniProt ConsortiumEuropean Bioinformatics InstituteProtein Information ResourceSIB Swiss Institute of Bioinformatics. (2021, April 7). Transcription factor PU.1. UniProt ConsortiumEuropean Bioinformatics InstituteProtein Information ResourceSIB Swiss Institute of Bioinformatics. https://www.uniprot.org/uniprot/P17947.</ref> An experimental study also identified phosphorylation of serine 41 as a modification that induces activity. This phosphorylation is performed by protein kinase B (AKT).<ref>Rieske, P., & Pongubala, J. M. R. (2001). AKT Induces Transcriptional Activity of PU.1 through Phosphorylation-mediated Modifications within Its Transactivation Domain. Journal of Biological Chemistry, 276(11), 8460–8468. https://doi.org/10.1074/jbc.m007482200</ref>

Student at 20:58, 27 April 2021

Student — Tue, 27 Apr 2021 20:58:34 GMT

←Older revision		Revision as of 20:58, 27 April 2021
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	==PU.1==		==PU.1==
	<StructureSection load='1PUE' size='340' side='right' caption='PU.1' scene=''>		<StructureSection load='1PUE' size='340' side='right' caption='PU.1' scene=''>
-	PU.1 is a hematopoietic transcription factor belonging to the Ets family of proteins. It regulates transcription of genes specific to lymphoid cells, ultimately leading to cellular differentiation.<ref> UniProt ConsortiumEuropean Bioinformatics InstituteProtein Information ResourceSIB Swiss Institute of Bioinformatics. (2021, April 7). Transcription factor PU.1. UniProt ConsortiumEuropean Bioinformatics InstituteProtein Information ResourceSIB Swiss Institute of Bioinformatics. https://www.uniprot.org/uniprot/P17947.</ref> <scene name='87/874948/Helixturnhelix/1'>Binding motif</scene>This transcription factor binds DNA with its helix-turn-helix motif, a common motif in transcription factors and DNA repair proteins.<ref>ARAVIND, L., ANANTHARAMAN, V., BALAJI, S., BABU, M., & IYER, L. (2005). The many faces of the helix-turn-helix domain: Transcription regulation and beyond. FEMS Microbiology Reviews, 29(2), 231–262. https://doi.org/10.1016/j.femsre.2004.12.008</ref>	+	PU.1 is a hematopoietic transcription factor belonging to the Ets family of proteins. It regulates transcription of genes specific to lymphoid cells, ultimately leading to cellular differentiation.<ref> UniProt ConsortiumEuropean Bioinformatics InstituteProtein Information ResourceSIB Swiss Institute of Bioinformatics. (2021, April 7). Transcription factor PU.1. UniProt ConsortiumEuropean Bioinformatics InstituteProtein Information ResourceSIB Swiss Institute of Bioinformatics. https://www.uniprot.org/uniprot/P17947.</ref> <scene name='87/874948/Helixturnhelix/1'>Binding motif </scene>This transcription factor binds DNA with its helix-turn-helix motif, a common motif in transcription factors and DNA repair proteins.<ref>ARAVIND, L., ANANTHARAMAN, V., BALAJI, S., BABU, M., & IYER, L. (2005). The many faces of the helix-turn-helix domain: Transcription regulation and beyond. FEMS Microbiology Reviews, 29(2), 231–262. https://doi.org/10.1016/j.femsre.2004.12.008</ref>

Student at 20:56, 27 April 2021

Student — Tue, 27 Apr 2021 20:56:39 GMT

←Older revision		Revision as of 20:56, 27 April 2021
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	==PU.1==		==PU.1==
	<StructureSection load='1PUE' size='340' side='right' caption='PU.1' scene=''>		<StructureSection load='1PUE' size='340' side='right' caption='PU.1' scene=''>
-	PU.1 is a hematopoietic transcription factor belonging to the Ets family of proteins. It regulates transcription of genes specific to lymphoid cells, ultimately leading to cellular differentiation.<ref> UniProt ConsortiumEuropean Bioinformatics InstituteProtein Information ResourceSIB Swiss Institute of Bioinformatics. (2021, April 7). Transcription factor PU.1. UniProt ConsortiumEuropean Bioinformatics InstituteProtein Information ResourceSIB Swiss Institute of Bioinformatics. https://www.uniprot.org/uniprot/P17947.</ref> This transcription factor binds DNA with its helix-turn-helix motif, a common motif in transcription factors and DNA repair proteins.<ref>ARAVIND, L., ANANTHARAMAN, V., BALAJI, S., BABU, M., & IYER, L. (2005). The many faces of the helix-turn-helix domain: Transcription regulation and beyond. FEMS Microbiology Reviews, 29(2), 231–262. https://doi.org/10.1016/j.femsre.2004.12.008</ref>	+	PU.1 is a hematopoietic transcription factor belonging to the Ets family of proteins. It regulates transcription of genes specific to lymphoid cells, ultimately leading to cellular differentiation.<ref> UniProt ConsortiumEuropean Bioinformatics InstituteProtein Information ResourceSIB Swiss Institute of Bioinformatics. (2021, April 7). Transcription factor PU.1. UniProt ConsortiumEuropean Bioinformatics InstituteProtein Information ResourceSIB Swiss Institute of Bioinformatics. https://www.uniprot.org/uniprot/P17947.</ref> <scene name='87/874948/Helixturnhelix/1'>Binding motif</scene>This transcription factor binds DNA with its helix-turn-helix motif, a common motif in transcription factors and DNA repair proteins.<ref>ARAVIND, L., ANANTHARAMAN, V., BALAJI, S., BABU, M., & IYER, L. (2005). The many faces of the helix-turn-helix domain: Transcription regulation and beyond. FEMS Microbiology Reviews, 29(2), 231–262. https://doi.org/10.1016/j.femsre.2004.12.008</ref>

Student at 19:23, 27 April 2021

Student — Tue, 27 Apr 2021 19:23:02 GMT

←Older revision		Revision as of 19:23, 27 April 2021
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	==PU.1==		==PU.1==
	<StructureSection load='1PUE' size='340' side='right' caption='PU.1' scene=''>		<StructureSection load='1PUE' size='340' side='right' caption='PU.1' scene=''>
-	PU.1 is a hematopoietic transcription factor. It ~~specifically~~ regulates transcription of genes specific to lymphoid cells, ultimately leading to cellular differentiation.<ref> UniProt ConsortiumEuropean Bioinformatics InstituteProtein Information ResourceSIB Swiss Institute of Bioinformatics. (2021, April 7). Transcription factor PU.1. UniProt ConsortiumEuropean Bioinformatics InstituteProtein Information ResourceSIB Swiss Institute of Bioinformatics. https://www.uniprot.org/uniprot/P17947.</ref> This transcription factor binds DNA with its helix-turn-helix motif.	+	PU.1 is a hematopoietic transcription factor belonging to the Ets family of proteins. It regulates transcription of genes specific to lymphoid cells, ultimately leading to cellular differentiation.<ref> UniProt ConsortiumEuropean Bioinformatics InstituteProtein Information ResourceSIB Swiss Institute of Bioinformatics. (2021, April 7). Transcription factor PU.1. UniProt ConsortiumEuropean Bioinformatics InstituteProtein Information ResourceSIB Swiss Institute of Bioinformatics. https://www.uniprot.org/uniprot/P17947.</ref> This transcription factor binds DNA with its helix-turn-helix motif, a common motif in transcription factors and DNA repair proteins.<ref>ARAVIND, L., ANANTHARAMAN, V., BALAJI, S., BABU, M., & IYER, L. (2005). The many faces of the helix-turn-helix domain: Transcription regulation and beyond. FEMS Microbiology Reviews, 29(2), 231–262. https://doi.org/10.1016/j.femsre.2004.12.008</ref>

Student at 19:44, 24 April 2021

Student — Sat, 24 Apr 2021 19:44:58 GMT

←Older revision		Revision as of 19:44, 24 April 2021
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	Myeloid Leukemia. Blood. 2003, 101(5), 2074–2074.</ref> It is highly polar due to the abundance of proline, glutamate, serine, and threonine. Proteins with a PEST region typically have a short half-life of under 2 hours. It is hypothesized that the PEST region is a tag for fast degradation of the protein.		Myeloid Leukemia. Blood. 2003, 101(5), 2074–2074.</ref> It is highly polar due to the abundance of proline, glutamate, serine, and threonine. Proteins with a PEST region typically have a short half-life of under 2 hours. It is hypothesized that the PEST region is a tag for fast degradation of the protein.

		+	== Hydration Is Essential to PU.1/DNA Interaction ==
		+
		+	Water mediates the binding of PU.1 to DNA. As betaine was titrated into a solution of PU.1 and DNA, binding significantly decreased.

	== References ==		== References ==
	<references/>		<references/>