Phosphatase Subfamily CDC25 - Revision history

Gerard: /* Domain */

2015-11-16T22:18:37Z

‎Domain

Gerard: /* Evolution */

2015-11-16T22:17:00Z

‎Evolution

Gerard: /* Phosphatase domain structure */

2015-11-16T19:57:34Z

‎Phosphatase domain structure

Mark: /* Phosphatase domain structure */

2015-11-16T02:00:27Z

‎Phosphatase domain structure

Mark at 01:56, 16 November 2015

2015-11-16T01:56:03Z

Mark at 17:45, 10 September 2015

2015-09-10T17:45:14Z

Mark at 17:19, 10 September 2015

2015-09-10T17:19:57Z

Mark: /* Domain */

2015-09-09T21:37:19Z

‎Domain

Gerard: /* Catalytic activity and functions */

2015-08-23T01:57:08Z

‎Catalytic activity and functions

Gerard: /* Evolution */

2015-08-23T01:54:26Z

‎Evolution

@@ Line 6: / Line 6: @@
 === Domain ===
-Human CDC25s have an N-terminal regulatory domain known as  [http://pfam.xfam.org/family/M-inducer_phosp M-phase inducer phosphatase domain] and a C-terminal phosphatase domain with a rhodanese fold. Both human CDC25s show alternative splicing of the regulatory domain. The N-terminal regulatory domain is classified as tetrapod-specific in Pfam, but has clearly conserved homology with CDC25 genes in ''Nematostella vectensis''. A divergent N-terminal domain is also found in insects and Trichocephalida (an order of nematode), but not in Caenorhabditis species (see [[HMM_PD0128|technical note of CDC25 N-terminal domain]]). Thus, the CDC25, N-terminal domain is probably lost in Caenorhabditis.
+Human CDC25s have an N-terminal regulatory domain known as  [http://pfam.xfam.org/family/M-inducer_phosp M-phase inducer phosphatase domain] and a C-terminal phosphatase domain with a rhodanese fold. Human CDC25s show alternative splicing of the regulatory domain. The N-terminal regulatory domain is classified as tetrapod-specific in Pfam, but has clearly conserved homology with CDC25 genes in ''Nematostella vectensis''. A divergent N-terminal domain is also found in insects and Trichocephalida (an order of nematode), but not in Caenorhabditis species (see [[HMM_PD0128|technical note of CDC25 N-terminal domain]]). Thus, the CDC25, N-terminal domain is probably lost in Caenorhabditis.
 === Catalytic activity and functions ===

@@ Line 3: / Line 3: @@
 === Evolution ===
-The CDC25 subfamily is found in a broad of eukaryotes, but absent from most if not all of plants. It has multiple copies in many species, including three in human, two in ''Drosophila'' (string and twine) and four in ''C. elegans'', all from apparently independent duplications.
+The CDC25 subfamily is found in most eukaryotes, but absent from most if not all of plants. It has multiple copies in many species, including three in human, two in ''Drosophila'' (string and twine) and four in ''C. elegans'', all from apparently independent duplications.
 === Domain ===

@@ Line 12: / Line 12: @@
 === Phosphatase domain structure ===
-The three human CDC25s have generally the same structure, which have a secondary structure (SS) combination of E1, H1, E2, H2, E3, E4, H3, E5, H4, E6, H5, E7. The strands E1, E2, E4, E5, E6 form a 5-stranded sheet; the strands E3 and E7 form a 2-stranded sheet.
+The three human CDC25s have the same structure, with a secondary structure (SS) combination of E1, H1, E2, H2, E3, E4, H3, E5, H4, E6, H5, E7. The strands E1, E2, E4, E5, E6 form a 5-stranded sheet; E3 and E7 form a 2-stranded sheet.
-The human CDC25s and yeast YCH1 share the SS elements of E1, H1, E2, E3, E4, H3, E5, H4, E6, H5, E7. But,  yeast YCH1 structure is different from human CDC25s in two aspects:
+Human CDC25s and yeast YCH1 share the SS elements of E1, H1, E2, E3, E4, H3, E5, H4, E6, H5, E7. Yeast YCH1 structure differs from human CDC25s in two aspects:
-* While human CDC25s have an helix (H2) between E2 and E3, yeast YCH1 has an helix between E4 and H3. We named the SS elements as H2-YCH1.
+* While human CDC25s have an helix (H2) between E2 and E3, yeast YCH1 has an helix between E4 and H3, which we name H2-YCH1.
-* Yeast YCH1 has a helix between H4 and E6. We name it as H4'-YCH1.
+* Yeast YCH1 has a helix between H4 and E6, which we name H4'-YCH1.
-Note: We have the same SS annotation of CDC25 in the papers reported CDC25 structures <cite> Fauman98, Reynolds99 </cite>, but we have the SS annotation of YCH1 different from the paper reported its structure <cite>Yeo09</cite>, where it had a SS elements of EHEEHHEHEH. We obtained the original annotations from DSSP and Stride programs and validated them in structure visualization.
+Note: These SS elements are the same as those reported in human CDC25 structures <cite> Fauman98, Reynolds99 </cite>, but differ from those reported for the YCH1 structure <cite>Yeo09</cite>, where it had a SS elements of EHEEHHEHEH. Our assignments include annotations from DSSP and Stride and validated in structure visualization.
 === References ===

@@ Line 12: / Line 12: @@
 === Phosphatase domain structure ===
-Human CDC25 and yeast YCH1 share the secondary structure (SS) combination of E1, H1, E2, E3, E4, H3, E5, H4, E6, H5, E7. The strands E1, E2, E4, E5, E6 form a 5-stranded sheet; the strands E3 and E7 form a 2-stranded sheet.
+The three human CDC25s have generally the same structure, which have a secondary structure (SS) combination of E1, H1, E2, H2, E3, E4, H3, E5, H4, E6, H5, E7. The strands E1, E2, E4, E5, E6 form a 5-stranded sheet; the strands E3 and E7 form a 2-stranded sheet.
-Human CDC25 and yeast YCH1 structures are different in:
+The human CDC25s and yeast YCH1 share the SS elements of E1, H1, E2, E3, E4, H3, E5, H4, E6, H5, E7. But,  yeast YCH1 structure is different from human CDC25s in two aspects:
-* Human CDC25 has an helix between E2 and E3, while yeast YCH1 has an helix between E4 and H3. We named the SS elements as H2-CDC25 and H2-YCH1, respectively.
+* While human CDC25s have an helix (H2) between E2 and E3, yeast YCH1 has an helix between E4 and H3. We named the SS elements as H2-YCH1.
-* Yeast YCH1 has a helix between H4 and E6. We name the SS element as H4'-YCH1.
+* Yeast YCH1 has a helix between H4 and E6. We name it as H4'-YCH1.
 Note: We have the same SS annotation of CDC25 in the papers reported CDC25 structures <cite> Fauman98, Reynolds99 </cite>, but we have the SS annotation of YCH1 different from the paper reported its structure <cite>Yeo09</cite>, where it had a SS elements of EHEEHHEHEH. We obtained the original annotations from DSSP and Stride programs and validated them in structure visualization.

@@ Line 10: / Line 10: @@
 === Catalytic activity and functions ===
 Cdc25 dephosphorylates CDK kinases in many organisms, including yeasts, ''Drosophila'' and mammals, and so controls checkpoint progression of the cell cycle. CDC25 structures and functions have been reviewed in detail <cite>boutros06, rudolph07, boutros07</cite>. CDC25 removes inhibitory phosphates added by Wee1 from a threonine and a tyrosine in the G-loop of CDK1 and other CDKs, activating their cell cycle function. Duplicated CDC25s often have specific subfunctions: in ''Drosophila'', string (stg) is involved in mitosis, and twine (twe) in meiosis ([http://www.sdbonline.org/sites/fly/genebrief/twine.htm Interactive Fly ]), while in mammals, CDC25A is involved in the G1-S checkpoint (dephosphorylating CDK2, CDK4 and CDK6) <cite>Shen</cite>, and CDC25B and CDC25C are involved at G2-M.
 === References ===
@@ Line 15: / Line 24: @@
 #boutros06 pmid=16488126
 #boutros07 pmid=17568790
 #rudolph07 pmid=17328562
 #Shen pmid=22263797
 </biblio>