Phosphatase Subfamily PPPRK TN - Revision history

Gerard: /* Other related subfamilies */

2016-11-10T02:27:15Z

‎Other related subfamilies

Gerard at 20:57, 24 March 2016

2016-03-24T20:57:54Z

Gerard at 20:39, 24 March 2016

2016-03-24T20:39:07Z

Gerard at 17:08, 24 March 2016

2016-03-24T17:08:34Z

Gerard: /* Other related subfamilies */

2016-03-13T05:47:06Z

‎Other related subfamilies

Gerard at 05:46, 13 March 2016

2016-03-13T05:46:05Z

Gerard at 05:44, 13 March 2016

2016-03-13T05:44:51Z

Gerard at 02:34, 13 March 2016

2016-03-13T02:34:53Z

Gerard at 01:40, 13 March 2016

2016-03-13T01:40:58Z

Mark: Created page with "Phosphatase Classification: Fold CC1:Superfamily CC1: Phosphatase_Family_PTP|Family P..."

2015-09-12T05:43:15Z

Created page with "Phosphatase Classification: Fold CC1:Superfamily CC1: Phosphatase_Family_PTP|Family P..."

New page

[[Phosphatase classification|Phosphatase Classification]]: [[Phosphatase_Fold_CC1|Fold CC1]]:[[Phosphatase_Superfamily_CC1|Superfamily CC1]]: [[Phosphatase_Family_PTP|Family PTP]]: [[Phosphatase_Subfamily_PTPRK|Subfamily PTPRK]] (R2B): Technical notes

Coming soon.

← Older revision		Revision as of 02:27, 10 November 2016
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	====Other related subfamilies====		====Other related subfamilies====
−	PTPRK is similar to the ~~PTP7_Spur~~ subfamily seen in sea urchin and the [[Phosphatase_Subfamily_NvecPTP-sf2\|NvecPTP-sf2]] subfamily seen in Nematostella, but most of these genes are fragments and their orthology is not clear, leading to their classification in separate subfamilies.	+	PTPRK is similar to the [[Phosphatase_Subfamily_SpurPTP-sf4\|SpurPTP-sf4]] subfamily seen in sea urchin and the [[Phosphatase_Subfamily_NvecPTP-sf2\|NvecPTP-sf2]] subfamily seen in Nematostella, but most of these genes are fragments and their orthology is not clear, leading to their classification in separate subfamilies.

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 * [[Phosphatase_Subfamily_Ptp36E|PTP36E]] is similar to PTPRK but most or all members have lost their extracellular regions.
-* [[Phosphatase_Subfamily_SpurPTP-sf4|SpurPTP-sf4]], [[Phosphatase_Subfamily_MbrePTP-sf1|MbrePTP-sf1]], and [[Phosphatase_Subfamily_NvecPTP-sf2|NvecPTP-sf2]] are species-specific subfamilies that show some selectively similarity to PTPRK, but the orthology confidence is quite low.
+* [[Phosphatase_Subfamily_SpurPTP-sf4|SpurPTP-sf4]] and [[Phosphatase_Subfamily_NvecPTP-sf2|NvecPTP-sf2]] are species-specific subfamilies that show some selectively similarity to PTPRK, but the orthology confidence is quite low.
 ====KRCS====

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 * [[Phosphatase_Subfamily_Ptp36E|PTP36E]] is similar to PTPRK but most or all members have lost their extracellular regions.
-* [[Phosphatase_Subfamily_SpurPTP-sf4|SpurPTP-sf4]], [[Phosphatase_Subfamily_MbrePTP-sf1-3|MbrePTP-sf1-3]], and [[Phosphatase_Subfamily_NvecPTP-sf2|NvecPTP-sf2]] are species-specific subfamilies that show some selectively similarity to PTPRK, but the orthology confidence is quite low.
+* [[Phosphatase_Subfamily_SpurPTP-sf4|SpurPTP-sf4]], [[Phosphatase_Subfamily_MbrePTP-sf1|MbrePTP-sf1]], and [[Phosphatase_Subfamily_NvecPTP-sf2|NvecPTP-sf2]] are species-specific subfamilies that show some selectively similarity to PTPRK, but the orthology confidence is quite low.
 ====KRCS====

@@ Line 9: / Line 9: @@
 Putative homologs of PTPRK are present in other invertebrates, but they have different domain architectures and their orthology to PTPRK is uncertain. These include:
-[[Phosphatase_Subfamily_Ptp36E|PTP36E]] is similar to PTPRK but most or all members have lost their extracellular regions.
+* [[Phosphatase_Subfamily_Ptp36E|PTP36E]] is similar to PTPRK but most or all members have lost their extracellular regions.
 ====KRCS====

← Older revision		Revision as of 05:47, 13 March 2016
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	====Other related subfamilies====		====Other related subfamilies====
−	PTPRK is similar to the PTP7_Spur subfamily seen in sea urchin and the [[Phosphatase_Subfamily_NvecPTP-sf2\|~~Subfamily~~ NvecPTP-sf2]] subfamily seen in Nematostella, but most of these genes are fragments and their orthology is not clear, leading to their classification in separate subfamilies.	+	PTPRK is similar to the PTP7_Spur subfamily seen in sea urchin and the [[Phosphatase_Subfamily_NvecPTP-sf2\|NvecPTP-sf2]] subfamily seen in Nematostella, but most of these genes are fragments and their orthology is not clear, leading to their classification in separate subfamilies.

← Older revision		Revision as of 05:46, 13 March 2016
Line 31:		Line 31:

	====Other related subfamilies====		====Other related subfamilies====
−	PTPRK is similar to the PTP7_Spur subfamily seen in sea urchin and the NvecPTP-sf2 subfamily seen in Nematostella, but most of these genes are fragments and their orthology is not clear, leading to their classification in separate subfamilies.	+	PTPRK is similar to the PTP7_Spur subfamily seen in sea urchin and the [[Phosphatase_Subfamily_NvecPTP-sf2\|Subfamily NvecPTP-sf2]] subfamily seen in Nematostella, but most of these genes are fragments and their orthology is not clear, leading to their classification in separate subfamilies.

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 ====RPTPK-KR====
-This family has an N-terminal Kringle domain, followed by 3-4 FN3 domains, and twin intracellular PTP domains that look most like PTPRK. It is found in Lophotrochozoa including annelinds and molluscs
+This family has an N-terminal Kringle domain, followed by 3-4 FN3 domains, and twin intracellular PTP domains that look most like PTPRK. It is found in Lophotrochozoa including annelids and molluscs
 * Octopus bimaculoides (XP_014783726.1)  KR-FN3(4)-PTP(2)
@@ Line 28: / Line 28: @@
 * Aplysia californica (XP_012937090.1): KR-SKG6-PTP(2)
 * Biomphalaria glabrata (XP_013067253.1) frag fn3(3)-PTP(2)

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 This putative new subfamily is found in molluscs, and has a extracellular region with a Kringle domain, a CS-rich domain and some have a SKG6 transmembrane domain. Members include:
-* KRCS-Acal (|XP_012937090.1) from Aplysia californica
+* KRCS-Acal (XP_012937090.1) from Aplysia californica
 * KRCS_Bgla: with a KR-EGF_Lam-SKG6-PTP(2) architecture from Biomphalaria glabrata.
-* KRCS_Cgig (|EKC20265.1) from Crassostrea gigas
+* KRCS_Cgig (EKC20265.1) from Crassostrea gigas

← Older revision		Revision as of 01:40, 13 March 2016
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	[[Phosphatase classification\|Phosphatase Classification]]: [[Phosphatase_Fold_CC1\|Fold CC1]]:[[Phosphatase_Superfamily_CC1\|Superfamily CC1]]: [[Phosphatase_Family_PTP\|Family PTP]]: [[Phosphatase_Subfamily_PTPRK\|Subfamily PTPRK]] (R2B): Technical notes		[[Phosphatase classification\|Phosphatase Classification]]: [[Phosphatase_Fold_CC1\|Fold CC1]]:[[Phosphatase_Superfamily_CC1\|Superfamily CC1]]: [[Phosphatase_Family_PTP\|Family PTP]]: [[Phosphatase_Subfamily_PTPRK\|Subfamily PTPRK]] (R2B): Technical notes

−	~~Coming soon~~.	+	PTPRK has four members in human, with orthologs across the vertebrates. PTPRK is also found in invertebrate chordates
		+
		+	* Ciona intestinalis (XP_002125715.3) has a full length prediction with the typical MAM-Ig-Fn3-Fn3-Fn3 -PTP-PTP architecture
		+	* Oikopleura dioca (CBY08646.1) has a MAM-Ig-FN3(2)-PTP(3) architecture, with one more PTP domain than typical.
		+
		+
		+	Putative homologs of PTPRK are present in other invertebrates, but they have different domain architectures and their orthology to PTPRK is uncertain. These include:
		+
		+	[[Phosphatase_Subfamily_Ptp36E\|PTP36E]] is similar to PTPRK but most or all members have lost their extracellular regions.
		+
		+	====KRCS====
		+	This putative new subfamily is found in molluscs, and has a extracellular region with a Kringle domain, a CS-rich domain and some have a SKG6 transmembrane domain. Members include:
		+
		+	* KRCS-Acal (\|XP_012937090.1) from Aplysia californica
		+	* KRCS_Bgla: with a KR-EGF_Lam-SKG6-PTP(2) architecture from Biomphalaria glabrata.
		+	* KRCS_Cgig (\|EKC20265.1) from Crassostrea gigas