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Family GP000262


Family ID GP000262  add to my list RDF
Family name Patatin family  
Cross-reference(s) PMID:
Structural diversity and differential transcription of the patatin multicopy gene family during potato tuber development.
16322504 PMID:
Patatins, Kunitz protease inhibitors and other major proteins in tuber of potato cv. Kuras.
16884497 PMID:
The structure and transcription start site of a major potato tuber protein gene.
3714488 PMID:
Cloning, expression, purification and characterization of patatin, a novel phospholipase A.
11589694 PMID:
Molecular characterization of the patatin multigene family of potato.
3371664 PMID:
Isolation and sequence analysis of cDNAs for the major potato tuber protein, patatin.
6150463
Family Ontology
Close Hide
molecular_function
4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase activity
GO:0050515 (6%) - 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase activity
Curation status ?
Found in No specificity
Phylogenetic analyzes Did not pass filtration




Clustering level Family ID (number of sequences)
1
Patatin family
GP000262 (943)
2 GP015324 (517) , GP016307 (237) , GP109137 (71) ,
(plant-specificity: 11%)
GP020728 (64) , GP109335 (49) , GP116610 (3)
3 GP039991 (517) , GP040954 (237) , GP045244 (71) ,
(plant-specificity: 11%)
GP045743 (64) , GP045718 (49) , GP129558 (3)
4 GP069498 (515) , GP070361 (237) , GP075310 (71) , GP075387 (64) , GP074912 (49) , GP146421 (3)
Table 1: This table displays which relationship has the selected family with other families in GreenPhyl clustering ?.




Legend:
  • Families (clustering)
    • Sequences are clustered and classified at 4 levels (from less to more stringent).
    • The number between parenthesis indicates the number of sequences in the cluster.
    • Selected family is highlighted like this.
    • Annotated gene families are underlined and gene family name pops up when you move your mouse cursor over.
    • Gene families are coloured in this color when the phylogenetic analyses are available.


Sequence total: 943
Species Count (w/o splice) Count (w/ splice)
2 2
2 2
15 15
15 16
14 14
48 48
20 20
34 34
29 29
32 32
21 21
23 27
23 28
17 17
31 31
24 30
25 25
28 28
22 22
21 21
34 34
13 18
9 11
23 23
24 41
22 22
53 70
21 21
23 23
19 23
69 69
17 17
21 23
13 13
20 22
30 36
15 15


Information to display




(click on chart bars above to get species proteins)


Close InterPro family
IPR Annotation Type % Occurence Specificity
4-diphosphocytidyl-2C-methyl-D-erythritol kinase
IPR004424
4-diphosphocytidyl-2C-methyl-D-erythritol kinase Family 6 (52) Yes
Mediator complex, subunit Med22
IPR009332
Mediator complex, subunit Med22 Family 5 (44) Yes
TRAPP I complex, subunit 5
IPR016696
TRAPP I complex, subunit 5 Family 6 (56) Yes

Close Other InterPro signatures
IPR Annotation Type % Occurence Specificity
Patatin/Phospholipase A2-related
IPR002641
Patatin/Phospholipase A2-related Domain 61 (572) No
Acyl transferase/acyl hydrolase/lysophospholipase
IPR016035
Acyl transferase/acyl hydrolase/lysophospholipase Domain 70 (659) No

Close Domain architecture
Clustering
 



Close Representative InterPro domains - Consensus schema
IPR016035 IPR002641


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Species
Information to display
?


(click on the button above to get your protein list)


Alignment not available.
[Masking step 1 details] [Masking step 2 details] [Filtration details] [Global HMM file]



Alignment and filtration statistics:

Overall family sequences Sequences used for alignment (w/o splice) Sequences kept after filtration [min; median; max] ~average sequence length Alignment length Masked alignment length
943 872 (92%) 575 (61%) [37; 387; 1353] ~336 3975 181