Difference between revisions of "HMM PD0017"
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| − | + | === Note of PPM phosphatase domain profiles in public databases === | |
| + | We compare the sequence and structure of human PPM1A (PDB code: 1A6Q) with the profiles of public databases. The sequence is in the end of the page. See [[Phosphatase_Family_PPM#Phosphatase_domain_structure|PPM phosphatase domain]] for the secondary structure elements described below. | ||
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| + | [http://pfam.xfam.org/family/PF00481.17 Pfam profile (PF00481.17)] begins from E2 and ends at E11. It lacks the last 5 or 6 aa of E11, though. | ||
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| + | SMART has two profiles: SM00331 and SM00332. SM00331 lacks E2; SM00332 includes E1, which is not a part of PPM PD in general, though it is found in PPM1A and a few other PPMs. | ||
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| + | CDD profile (cd00143) begins from E2 and ends at E11, which *includes* the complete E11, in contrast with Pfam profile. | ||
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| + | === Appendix === | ||
| + | |||
| + | >PPM1A_1A6Q | ||
| + | GAFLDKPKMEKHNAQGQGNGLRYGLSSMQGWRVEMEDAHTAVIGLPSG | ||
| + | LESWSFFAVYDGHAGSQVAKYCCEHLLDHITNNQDFKGSAGA | ||
| + | PSVENVKNGIRTGFLEIDEHMRVMSEKKHGADR | ||
| + | SGSTAVGVLISPQ | ||
| + | HTYFINCGDSRGLLCRNRKVHFFTQDHKPSNPLEKERIQNAGG | ||
| + | SVMIQRVNGSLAVSRALGDFDYKCVHGKGPTEQLVSP | ||
| + | EPEVHDIERSEEDDQFIILACDGIWDVMGNEELCDFVRSRLEVT | ||
| + | DDLEKVCNEVVDTCLYKGSRDNMSVILICFPNAPKVSPEAVKKEAELDKYLECRV | ||
| + | EEIIKGVPDLVHVMRTLASENIPSLPPGGELASKRNVIEAVYNRLNPY | ||
Latest revision as of 19:27, 17 November 2015
Note of PPM phosphatase domain profiles in public databases
We compare the sequence and structure of human PPM1A (PDB code: 1A6Q) with the profiles of public databases. The sequence is in the end of the page. See PPM phosphatase domain for the secondary structure elements described below.
Pfam profile (PF00481.17) begins from E2 and ends at E11. It lacks the last 5 or 6 aa of E11, though.
SMART has two profiles: SM00331 and SM00332. SM00331 lacks E2; SM00332 includes E1, which is not a part of PPM PD in general, though it is found in PPM1A and a few other PPMs.
CDD profile (cd00143) begins from E2 and ends at E11, which *includes* the complete E11, in contrast with Pfam profile.
Appendix
>PPM1A_1A6Q GAFLDKPKMEKHNAQGQGNGLRYGLSSMQGWRVEMEDAHTAVIGLPSG LESWSFFAVYDGHAGSQVAKYCCEHLLDHITNNQDFKGSAGA PSVENVKNGIRTGFLEIDEHMRVMSEKKHGADR SGSTAVGVLISPQ HTYFINCGDSRGLLCRNRKVHFFTQDHKPSNPLEKERIQNAGG SVMIQRVNGSLAVSRALGDFDYKCVHGKGPTEQLVSP EPEVHDIERSEEDDQFIILACDGIWDVMGNEELCDFVRSRLEVT DDLEKVCNEVVDTCLYKGSRDNMSVILICFPNAPKVSPEAVKKEAELDKYLECRV EEIIKGVPDLVHVMRTLASENIPSLPPGGELASKRNVIEAVYNRLNPY
