Sandbox: Difference between revisions

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'''Key Structural Characteristics:'''

#'''Overall Fold:'''

:*Adopts the classic Major Facilitator Superfamily (MFS) fold.

::*Adopts the classic Major Facilitator Superfamily (MFS) fold.

:Comprises 12 transmembrane helices (TMs 1-12).

::*Comprises 12 transmembrane helices (TMs 1-12).

:Exhibits pseudo-two-fold symmetry, divided into an N-lobe (TMs 1-6) and a C-lobe (TMs 7-12).

::*Exhibits pseudo-two-fold symmetry, divided into an N-lobe (TMs 1-6) and a C-lobe (TMs 7-12).

#'''Central Binding Cavity:'''

::*The cavity is located between the N-lobe (formed by TM1, TM2, TM4, TM5) and the C-lobe (formed by TM7, TM8, TM10, TM11).

::*It possesses a positively charged electrostatic environment, which explains its strong preference for transporting anionic substrates.

::*The cavity is lined by 29 residues, forming a hydrophobic and aromatic-rich environment.

#'''Cavity Borders and Cytosolic Gate:'''

::*The top border (extracellular side) of the cavity is formed by residues including N35, Y230, Y353, and Y354.

::*The bottom border (cytosolic side) features a narrow "thin bottom gate" formed by residues M207 and F442. The interaction between these two residues splits the cytosolic entrance into two distinct pathways:

:::*Path A: Located between TM2 and TM11.

:::*Path B: Located between TM5 and TM8.

#'''Conformational State:'''

::*In the apo state, the transporter is in a relaxed, inward-open conformation, providing access for substrates from the cytoplasm.

::*The structure serves as a baseline for understanding the conformational changes that occur upon substrate or inhibitor binding.

===OmcS Structure===

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@@ Line 55: / Line 55: @@
 '''Key Structural Characteristics:'''
 #'''Overall Fold:'''
-:*Adopts the classic Major Facilitator Superfamily (MFS) fold.
+::*Adopts the classic Major Facilitator Superfamily (MFS) fold.
-:Comprises 12 transmembrane helices (TMs 1-12).
+::*Comprises 12 transmembrane helices (TMs 1-12).
-:Exhibits pseudo-two-fold symmetry, divided into an N-lobe (TMs 1-6) and a C-lobe (TMs 7-12).
+::*Exhibits pseudo-two-fold symmetry, divided into an N-lobe (TMs 1-6) and a C-lobe (TMs 7-12).
+#'''Central Binding Cavity:'''
+::*The cavity is located between the N-lobe (formed by TM1, TM2, TM4, TM5) and the C-lobe (formed by TM7, TM8, TM10, TM11).
+::*It possesses a positively charged electrostatic environment, which explains its strong preference for transporting anionic substrates.
+::*The cavity is lined by 29 residues, forming a hydrophobic and aromatic-rich environment.
+#'''Cavity Borders and Cytosolic Gate:'''
+::*The top border (extracellular side) of the cavity is formed by residues including N35, Y230, Y353, and Y354.
+::*The bottom border (cytosolic side) features a narrow "thin bottom gate" formed by residues M207 and F442. The interaction between these two residues splits the cytosolic entrance into two distinct pathways:
+:::*Path A: Located between TM2 and TM11.
+:::*Path B: Located between TM5 and TM8.
+#'''Conformational State:'''
+::*In the apo state, the transporter is in a relaxed, inward-open conformation, providing access for substrates from the cytoplasm.
+::*The structure serves as a baseline for understanding the conformational changes that occur upon substrate or inhibitor binding.
 ===OmcS Structure===