Family GP000637


Family ID GP000637  add to my list RDF
Family name Autophagy Protein Family   suggest a name
Synonym(s) Light chain 3 (LC3)
Cross-reference(s) PMID:
Arabidopsis homologues of the autophagy protein Atg8 are a novel family of microtubule binding proteins.
15178341 PMID:
The autophagy-associated Atg8 gene family operates both under favourable growth conditions and under starvation stresses in Arabidopsis plants.
16157655
Family Ontology
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N/A
Curation status ?
Found in Viridiplantae
Phylogenetic analyzes Phylogeny done




Clustering level Family ID (number of sequences)
1
Autophagy Protein Family (plant-specificity: 19%)
GP000637 (381)
2 GP015531 (381)
3 GP040227 (377) , GP057329 (3) , GP055336 (3)
4 GP069693 (372) ,
(plant-specificity: 40%)
GP081934 (5) , GP096831 (3) , GP087189 (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: 381
Species Count (w/o splice) Count (w/ splice)
1 1
13 13
6 11
3 3
3 3
3 3
10 10
9 9
5 5
5 5
5 11
4 10
3 3
4 4
5 19
4 5
5 5
7 7
7 7
6 6
9 15
5 5
12 12
11 30
7 7
11 35
7 7
9 9
6 17
44 44
3 3
8 9
7 7
6 10
13 25
6 6


Information to display




(click on chart bars above to get species proteins)


Close InterPro family
IPR Annotation Type % Occurence Specificity
Autophagy-related protein Atg8 family
IPR004241
Autophagy-related protein Atg8 family Family 96 (365) No

Close Other InterPro signatures

No other significant IPR (i.e. > 25%)


Close Domain architecture
Clustering
 



Close Representative InterPro domains - Consensus schema
IPR004241


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Species
Information to display
?


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[Masking step 1 details] [Masking step 2 details] [Filtration details] [Global HMM file]

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Species




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
381 272 (71%) 269 (71%) [28; 121; 708] ~132 1197 115


Phylogenomic tree statistics:

Overall family sequences Sequences used for phylogeny (w/o splice and filtered seq.) Average branch length Median branch length Standard deviation
381 269 (71%) 0.710697 0.373566 0.615535



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Species



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