Family GP004398


Family ID GP004398  add to my list RDF
Family name Tfiih basal transcription factor complex, ssl1 subunit family   suggest a name
Cross-reference(s) PMID:
Solution structure of the C-terminal domain of TFIIH P44 subunit reveals a novel type of C4C4 ring domain involved in protein-protein interactions.
15790571
Curation status ?
Found in No specificity
Phylogenetic analyzes Phylogeny done




Clustering level Family ID (number of sequences)
1
Tfiih basal transcription factor complex, ssl1 subunit family (plant-specificity: 19%)
GP004398 (71)
2
(plant-specificity: 19%)
GP021697 (71)
3
(plant-specificity: 19%)
GP046798 (71)
4
(plant-specificity: 19%)
GP076572 (71)
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: 71
Species Count (w/o splice) Count (w/ splice)
1 1
1 1
9 9
1 2
1 1
2 2
1 1
1 1
1 1
3 3
2 2
1 1
1 1
1 1
2 2
2 2
1 1
1 1
1 1
1 1
1 1
1 1
1 1
10 10
1 8
1 1
1 1
1 1
1 1
1 1
2 2
1 1
1 1
1 1
1 1
2 3
1 1


Information to display




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Close InterPro family
IPR Annotation Type % Occurence Specificity
TFIIH subunit Ssl1/p44
IPR012170
TFIIH subunit Ssl1/p44 Family 85 (60) No

Close Other InterPro signatures
IPR Annotation Type % Occurence Specificity
von Willebrand factor, type A
IPR002035
von Willebrand factor, type A Domain 82 (58) No
TFIIH C1-like domain
IPR004595
TFIIH C1-like domain Domain 73 (52) No
Zinc finger, C2H2
IPR007087
Zinc finger, C2H2 Domain 66 (47) No
Ssl1-like
IPR007198
Ssl1-like Domain 89 (63) No

Close Domain architecture
Clustering
 



Close Representative InterPro domains - Consensus schema
IPR002035 IPR007087 IPR012170 IPR007198 IPR004595


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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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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
71 62 (87%) 56 (79%) [114; 417; 606] ~394 991 371


Phylogenomic tree statistics:

Overall family sequences Sequences used for phylogeny (w/o splice and filtered seq.) Average branch length Median branch length Standard deviation
71 56 (79%) 0.668936 0.610721 0.111919



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