Nanog: Difference between revisions

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== Structural highlights ==

The struture of Nanog consists in 3 alpha helices linked to each other by loops. The so called alpha-helix1 and alpha-helix 3 play a role into binding of the protein to DNA. The alpha-helix1, localized in the N-terminal arm, binds to DNA through minor grooves, whereas alpha-helix3 binds major grooves in DNA and is considered the recognition helix, due to it´s extensive DNA contact sufarce. Alpha helices 1 and 2 are arrenged as antiparallel to each other in the terciary structure, while positioning alpha-Helix3 in a favorable way to bind to the major grooves of the DNA helical structure.

The <scene name='81/818528/Nanog/1'>struture of Nanog</scene> consists in 3 alpha helices linked to each other by loops. The so called alpha-helix1 and alpha-helix 3 play a role into binding of the protein to DNA. The alpha-helix1, localized in the N-terminal arm, binds to DNA through minor grooves, whereas alpha-helix3 binds major grooves in DNA and is considered the recognition helix, due to it´s extensive DNA contact sufarce. Alpha helices 1 and 2 are arrenged as antiparallel to each other in the terciary structure, while positioning alpha-Helix3 in a favorable way to bind to the major grooves of the DNA helical structure.

== DNA binding ==

Helix α3 (the so-called recognition helix) is inserted into the major groove of the DNA and forms an extensive DNA contact interface. The region upstream of helix α1 (HD residues 1–10) is referred to as the N-terminal arm and contributes to DNA binding through minor groove contacts. It was shown that in the absence and presence of DNA, the helical core of the HD constitutes a largely rigid entity that is not subjected to major structural changes upon binding to DNA. Pronounced flexibility is restricted to the N-terminal arm that becomes ordered after binding to the DNA's minor groove.[11][12]

Helix α3 (the so-called recognition helix) is inserted into the major groove of the DNA and forms an extensive DNA contact interface. The region upstream of helix α1 (HD residues 1–10) is referred to as the N-terminal arm and contributes to DNA binding through minor groove contacts. It was shown that in the absence and presence of DNA, the helical core of the HD constitutes a largely rigid entity that is not subjected to major structural changes upon binding to DNA. Pronounced flexibility is restricted to the N-terminal arm that becomes ordered after binding to the DNA's minor groove.[11][12] The figure below by Yohei Hayashia et al., 2015 shows more detail about the aminoacid residues participating in the binding between DNA and Nanog.

[[Image:Nanogg.jpg]]

== Function ==

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 == Structural highlights ==
-The struture of Nanog consists in 3 alpha helices linked to  each other by loops. The so called alpha-helix1 and alpha-helix 3 play a role into binding of the protein to DNA. The alpha-helix1, localized in the N-terminal arm, binds to DNA through minor grooves, whereas alpha-helix3 binds major grooves in DNA and is considered the recognition helix, due to it´s extensive DNA contact sufarce. Alpha helices 1 and 2 are arrenged as antiparallel to each other in the terciary structure, while positioning alpha-Helix3 in a favorable way to bind to the major grooves of the DNA helical structure.
+The <scene name='81/818528/Nanog/1'>struture of Nanog</scene> consists in 3 alpha helices linked to  each other by loops. The so called alpha-helix1 and alpha-helix 3 play a role into binding of the protein to DNA. The alpha-helix1, localized in the N-terminal arm, binds to DNA through minor grooves, whereas alpha-helix3 binds major grooves in DNA and is considered the recognition helix, due to it´s extensive DNA contact sufarce. Alpha helices 1 and 2 are arrenged as antiparallel to each other in the terciary structure, while positioning alpha-Helix3 in a favorable way to bind to the major grooves of the DNA helical structure.
 == DNA binding ==
-Helix α3 (the so-called recognition helix) is inserted into the major groove of the DNA and forms an extensive DNA contact interface. The region upstream of helix α1 (HD residues 1–10) is referred to as the N-terminal arm and contributes to DNA binding through minor groove contacts. It was shown that in the absence and presence of DNA, the helical core of the HD constitutes a largely rigid entity that is not subjected to major structural changes upon binding to DNA. Pronounced flexibility is restricted to the N-terminal arm that becomes ordered after binding to the DNA's minor groove.[11][12]
+Helix α3 (the so-called recognition helix) is inserted into the major groove of the DNA and forms an extensive DNA contact interface. The region upstream of helix α1 (HD residues 1–10) is referred to as the N-terminal arm and contributes to DNA binding through minor groove contacts. It was shown that in the absence and presence of DNA, the helical core of the HD constitutes a largely rigid entity that is not subjected to major structural changes upon binding to DNA. Pronounced flexibility is restricted to the N-terminal arm that becomes ordered after binding to the DNA's minor groove.[11][12] The figure below by Yohei Hayashia et al., 2015 shows more detail about the aminoacid residues participating in the binding between DNA and Nanog.
+[[Image:Nanogg.jpg]]
 == Function ==