Phosphatase classification - Revision history

Gerard at 23:51, 13 April 2017

2017-04-13T23:51:56Z

2017-03-13T17:28:12Z

2016-05-10T02:55:12Z

‎Classification Chart of Protein Phosphatases

2016-05-10T02:54:56Z

‎Classification Chart of Protein Phosphatases

2016-05-09T04:38:19Z

‎Classification Chart of Protein Phosphatases

2016-03-08T21:55:26Z

2016-03-08T21:54:45Z

2016-03-08T21:52:49Z

2015-09-25T18:27:42Z

‎Technical notes

2015-09-25T18:18:01Z

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 __NOTOC__
-Phosphatases are classified by protein structural fold of the catalytic domain, and sub-classified by families and subfamilies based on the sequence of the phosphatase domains as well as by sequences outside of the catalytic domain, and known biochemical and biological functions.
+Phosphatases are classified by protein structural fold of the catalytic domain, and sub-classified by families and subfamilies based on the sequence of the phosphatase domains as well as by sequences outside of the catalytic domain, and known biochemical and biological functions <cite>Chen</cite>.
 == Classification Chart of Protein Phosphatases ==
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 === Technical notes ===
 * What are the [[Single-Gene_Subfamilies_in_Nine_Genomes|single-gene subfamilies in nine genomes]]. We keep them because they are found in at least two genera, although they are not found in the other genome among the nine genomes: dicty, budding yeast, monosiga, sponge, nematostella, C. elegans, Drosophila, sea urchin, and human.

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 Synonymns: CC3 = Rhodanese; PPM = PP2C.
-Abbreviations: CC1, Cysteine-based Class I; CC2, Cysteine-based Class II; CC3, Cysteine-based Class III; MTDP, MeTallo-Dependent Phosphatase; PAP, Purple Acid Phosphatase;  AP, Alkaline Phosphatase; HP, Histidine Phosphatase; HP1, Histidine Phosphatase, branch 1; HP2, Histidine Phosphatase, branch 2; CTD, RNA Poly II C-Terminal Domain.
+Abbreviations: CC1, Cysteine-based Class I; CC2, Cysteine-based Class II; CC3, Cysteine-based Class III; PPPL: PPP-like; PAP, Purple Acid Phosphatase;  AP, Alkaline Phosphatase; HP, Histidine Phosphatase; HP1, Histidine Phosphatase, branch 1; HP2, Histidine Phosphatase, branch 2; CTD, RNA Poly II C-Terminal Domain.
 === Notes of classification ===

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 | bgcolor="#ffffff" colspan="1"  |[[Phosphatase_Family_SSU72|SSU72]]|| bgcolor="#ffffff" colspan="1" | pSer || bgcolor="#ffffff" colspan="1" | Yes
 |-
-| bgcolor="#ffffff" colspan="1"  |[[Phosphatase_Family_ArsC|ArsC]]|| bgcolor="#ffffff" colspan="1" | Arsenate || bgcolor="#ffffff" colspan="1" |
+| bgcolor="#ffffff" colspan="1"  |[[Phosphatase_Family_ArsC|ArsC]]|| bgcolor="#ffffff" colspan="1" | Arsenate || bgcolor="#ffffff" colspan="1" | No
 |-
 |bgcolor="#ffffff" rowspan="1"  |[[Phosphatase_Fold_Rhodanese|CC3]]||bgcolor="#ffffff" rowspan="1"  |[[Phosphatase_Superfamily_CC3|CC3]]|| bgcolor="#ffffff" colspan="1"  |[[Phosphatase_Family_CDC25|CDC25]]|| bgcolor="#ffffff" colspan="1" | pTyr, pThr || bgcolor="#ffffff" colspan="1" | Yes

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 | bgcolor="#ffffff" colspan="1"  |[[Phosphatase_Family_Paladin|Paladin]]|| bgcolor="#ffffff" colspan="1" | inactive || bgcolor="#ffffff" colspan="1" | Yes
 |-
-| bgcolor="#ffffff" colspan="1"  |[[Phosphatase_Family_OCA|OCA]]|| bgcolor="#ffffff" colspan="1" | ? || bgcolor="#ffffff" colspan="1" |
+| bgcolor="#ffffff" colspan="1"  |[[Phosphatase_Family_OCA|OCA]]|| bgcolor="#ffffff" colspan="1" | ? || bgcolor="#ffffff" colspan="1" | No
 |-
 |bgcolor="#ffffff" rowspan="3"  |[[Phosphatase_Fold_CC2|CC2]]||bgcolor="#ffffff" rowspan="3"  |[[Phosphatase_Superfamily_CC2|CC2]] || bgcolor="#ffffff" colspan="1"  |[[Phosphatase_Family_LMWPTP|LMWPTP]]|| bgcolor="#ffffff" colspan="1" | pTyr || bgcolor="#ffffff" colspan="1" | Yes

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 |bgcolor="#ffffff" rowspan="1"  |[[Phosphatase_Fold_Rhodanese|CC3]]||bgcolor="#ffffff" rowspan="1"  |[[Phosphatase_Superfamily_CC3|CC3]]|| bgcolor="#ffffff" colspan="1"  |[[Phosphatase_Family_CDC25|CDC25]]|| bgcolor="#ffffff" colspan="1" | pTyr, pThr || bgcolor="#ffffff" colspan="1" | Yes
 |-
-|bgcolor="#ffffff" rowspan="3"  |[[Phosphatase_Group_HAD|HAD]]||bgcolor="#ffffff" rowspan="3"  |[[Phosphatase_Group_HAD|HAD]]|| bgcolor="#ffffff" colspan="1"  |[[Phosphatase_Family_EYA|EYA]]|| bgcolor="#ffffff" colspan="1" | pTyr || bgcolor="#ffffff" colspan="1" | Yes
+|bgcolor="#ffffff" rowspan="3"  |[[Phosphatase_Fold_HAD|HAD]]||bgcolor="#ffffff" rowspan="3"  |[[Phosphatase_Superfamily_HAD|HAD]]|| bgcolor="#ffffff" colspan="1"  |[[Phosphatase_Family_EYA|EYA]]|| bgcolor="#ffffff" colspan="1" | pTyr || bgcolor="#ffffff" colspan="1" | Yes
 |-
 |bgcolor="#ffffff" colspan="1"  |[[Phosphatase_Family_FCP|FCP]]|| bgcolor="#ffffff" colspan="1" | pSer || bgcolor="#ffffff" colspan="1" | Yes

← Older revision		Revision as of 21:52, 8 March 2016
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		+	__NOTOC__
	Phosphatases were first clustered by sequence similarity in the phosphatase domain, and additional information from domains outside of the catalytic domain, from evolutionary conservation, and from known functions was added. The result is a hybrid classification, in which no criterion is universally satisfied, but aims to be of practical use to a range of phosphatase interests. The classification grows as new phosphatomes are sequenced.		Phosphatases were first clustered by sequence similarity in the phosphatase domain, and additional information from domains outside of the catalytic domain, from evolutionary conservation, and from known functions was added. The result is a hybrid classification, in which no criterion is universally satisfied, but aims to be of practical use to a range of phosphatase interests. The classification grows as new phosphatomes are sequenced.

← Older revision		Revision as of 18:27, 25 September 2015
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	=== Technical notes ===		=== Technical notes ===
−	* What are the [[Single-Gene_Subfamilies_in_Nine_Genomes\|single-gene subfamilies in nine genomes]] ~~and why we~~ keep them?	+	* What are the [[Single-Gene_Subfamilies_in_Nine_Genomes\|single-gene subfamilies in nine genomes]]. We keep them because they are found in at least two genera, although they are not found in the other genome among the nine genomes: dicty, budding yeast, monosiga, sponge, nematostella, C. elegans, Drosophila, sea urchin, and human.

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 Abbreviations: CC1, Cysteine-based Class I; CC2, Cysteine-based Class II; CC3, Cysteine-based Class III; MTDP, MeTallo-Dependent Phosphatase; PAP, Purple Acid Phosphatase;  AP, Alkaline Phosphatase; HP, Histidine Phosphatase; HP1, Histidine Phosphatase, branch 1; HP2, Histidine Phosphatase, branch 2; CTD, RNA Poly II C-Terminal Domain.
-== Notes of classification ==
+=== Notes of classification ===
 ===== [[CTD_Phosphorylation|Phosphorylation of RNA polymerase II C-terminal domain]] =====
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 ===== [[Other_Classification_Schemes|Other Classification Schemes]] =====