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Conserved domains on  [gi|28571712|ref|NP_650383|]
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histone H1 variant BigH1 [Drosophila melanogaster]

Protein Classification

histone H1/H5 family protein( domain architecture ID 10455480)

histone H1/H5 family protein similar to a linker histone (H1 or H5), which is a chromatin-associated protein that binds to the exterior of nucleosomes and dramatically stabilizes the highly condensed states of chromatin fibers

CATH:  1.10.10.10
Gene Ontology:  GO:0006334|GO:0030527|GO:0000786|GO:0003677|GO:0000785
PubMed:  26212454|16345076|10973918
SCOP:  4000178

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Linker_histone super family cl47564
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 109-162 2.16e-07

linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin structure. H1 links nucleosomes into higher order structures Histone H1 is replaced by histone H5 in some cell types.


The actual alignment was detected with superfamily member pfam00538:

Pssm-ID: 459846 [Multi-domain]  Cd Length: 71  Bit Score: 47.52  E-value: 2.16e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 28571712   109 AIGKLASRSGSSVQAIMTYLKDNGQeWKDPKKTARLLHRALKLAEANGEVVMVK 162
Cdd:pfam00538  11 AIKALKERKGSSRQAIKKYIKANYK-VGDVAKFNSLLKRALKKGVEKGTLVQPK 63
 
Name Accession Description Interval E-value
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 109-162 2.16e-07

linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin structure. H1 links nucleosomes into higher order structures Histone H1 is replaced by histone H5 in some cell types.


Pssm-ID: 459846 [Multi-domain]  Cd Length: 71  Bit Score: 47.52  E-value: 2.16e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 28571712   109 AIGKLASRSGSSVQAIMTYLKDNGQeWKDPKKTARLLHRALKLAEANGEVVMVK 162
Cdd:pfam00538  11 AIKALKERKGSSRQAIKKYIKANYK-VGDVAKFNSLLKRALKKGVEKGTLVQPK 63
H15 smart00526
Domain in histone families 1 and 5;
96-162 1.89e-05

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 41.79  E-value: 1.89e-05
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 28571712     96 PKPKGTLISLALMAIGKLASRSGSSVQAIMTYLKDNGQEwkDPKKTARLLHRALKLAEANGEVVMVK 162
Cdd:smart00526   1 PPSHPPYSEMIVEAISALKERKGSSLQAIKKYIEANYKV--LPNNFRKLLKLALKRLVASGKLVQVK 65
H15 cd00073
linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, ...
 109-177 3.21e-05

linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated proteins that bind to the exterior of nucleosomes and dramatically stabilize the highly condensed states of chromatin fibers; stabilization of higher order folding occurs through electrostatic neutralization of the linker DNA segments, through a highly positively charged carboxy- terminal domain known as the AKP helix (Ala, Lys, Pro); thought to be involved in specific protein-protein and protein-DNA interactions and play a role in suppressing core histone tail domain acetylation in the chromatin fiber


Pssm-ID: 238028 [Multi-domain]  Cd Length: 88  Bit Score: 41.84  E-value: 3.21e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 28571712 109 AIGKLASRSGSSVQAIMTYLKDNGqeWKDPKKTARLLHRALKLAEANGEVVMVKR-----SFKLTDKQKNSSKA 177
Cdd:cd00073  14 AIKALKERKGSSLQAIKKYIEAKY--KVDDENFNKLLKLALKKGVAKGKLVQVKGtgasgSFKLSKKKKKKKKP 85
 
Name Accession Description Interval E-value
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 109-162 2.16e-07

linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin structure. H1 links nucleosomes into higher order structures Histone H1 is replaced by histone H5 in some cell types.


Pssm-ID: 459846 [Multi-domain]  Cd Length: 71  Bit Score: 47.52  E-value: 2.16e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 28571712   109 AIGKLASRSGSSVQAIMTYLKDNGQeWKDPKKTARLLHRALKLAEANGEVVMVK 162
Cdd:pfam00538  11 AIKALKERKGSSRQAIKKYIKANYK-VGDVAKFNSLLKRALKKGVEKGTLVQPK 63
H15 smart00526
Domain in histone families 1 and 5;
96-162 1.89e-05

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 41.79  E-value: 1.89e-05
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 28571712     96 PKPKGTLISLALMAIGKLASRSGSSVQAIMTYLKDNGQEwkDPKKTARLLHRALKLAEANGEVVMVK 162
Cdd:smart00526   1 PPSHPPYSEMIVEAISALKERKGSSLQAIKKYIEANYKV--LPNNFRKLLKLALKRLVASGKLVQVK 65
H15 cd00073
linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, ...
 109-177 3.21e-05

linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated proteins that bind to the exterior of nucleosomes and dramatically stabilize the highly condensed states of chromatin fibers; stabilization of higher order folding occurs through electrostatic neutralization of the linker DNA segments, through a highly positively charged carboxy- terminal domain known as the AKP helix (Ala, Lys, Pro); thought to be involved in specific protein-protein and protein-DNA interactions and play a role in suppressing core histone tail domain acetylation in the chromatin fiber


Pssm-ID: 238028 [Multi-domain]  Cd Length: 88  Bit Score: 41.84  E-value: 3.21e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 28571712 109 AIGKLASRSGSSVQAIMTYLKDNGqeWKDPKKTARLLHRALKLAEANGEVVMVKR-----SFKLTDKQKNSSKA 177
Cdd:cd00073  14 AIKALKERKGSSLQAIKKYIEAKY--KVDDENFNKLLKLALKKGVAKGKLVQVKGtgasgSFKLSKKKKKKKKP 85
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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