Family GP000620


Family ID GP000620  add to my list RDF
Family name Histone H2B family   suggest a name
Cross-reference(s) PMID:
Control of DNA methylation and heterochromatic silencing by histone H2B deubiquitination.
17554311 PMID:
Identification of proliferation-induced genes in Arabidopsis thaliana. Characterization of a new member of the highly evolutionarily conserved histone H2A.F/Z variant subfamily.
9414552 PMID:
Characterization of post-translational modifications of histone H2B-variants isolated from Arabidopsis thaliana.
17691833 PMID:
The uni chromosome of Chlamydomonas: histone genes and nucleosome structure.
7479007 PMID:
Purification of Chlamydomonas 28-kDa ubiquitinated protein and its identification as ubiquitinated histone H2B.
1312804 PMID:
Histones of Chlamydomonas reinhardtii. Synthesis, acetylation, and methylation.
7480339 PMID:
Phylogenetic analysis of the core histones H2A, H2B, H3, and H4.
8121801
Family Ontology
Close Hide
N/A
Curation status ?
Found in No specificity
Phylogenetic analyzes Phylogeny done




Clustering level Family ID (number of sequences)
1
Histone H2B family (plant-specificity: 9%)
GP000620 (442)
2 GP015520 (435) , GP114745 (4) , GP035844 (3)
3 GP040183 (435) , GP126806 (4) , GP064775 (3)
4 GP069655 (435) , GP142507 (4) , GP099066 (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: 442
Species Count (w/o splice) Count (w/ splice)
2 2
28 28
18 18
9 9
7 7
35 35
6 6
9 9
8 8
10 10
7 7
11 12
12 14
16 16
12 12
15 18
13 13
7 7
16 16
19 19
5 5
11 11
5 5
8 8
14 14
6 6
12 13
7 7
8 8
4 4
18 18
10 10
18 18
14 14
10 10
17 17
8 8
Filter splice forms

Information to display




(click on chart bars above to get species proteins)


Close InterPro family
IPR Annotation Type % Occurence Specificity
Histone H2B
IPR000558
Histone H2B Family 91 (402) No

Close Other InterPro signatures
IPR Annotation Type % Occurence Specificity
Histone core
IPR007125
Histone core Domain 89 (392) No
Histone-fold
IPR009072
Histone-fold Domain 93 (410) No

Close Domain architecture
Clustering
 



Close Representative InterPro domains - Consensus schema
IPR000558 IPR007125 IPR009072


Build your own display:   ?

Species
Information to display
?


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





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

You can filter species displayed in the phylogenomic tree by checking the species you want:
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
442 435 (98%) 413 (93%) [31; 145; 417] ~147 1457 134


Phylogenomic tree statistics:

Overall family sequences Sequences used for phylogeny (w/o splice and filtered seq.) Average branch length Median branch length Standard deviation
442 413 (93%) 5.96688 5.6758 0.510311



for (default: all):
Species



(click on the button above to get your homolog prediction list)