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Conserved domains on  [gi|1776945242|ref|NP_001363726|]
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heterochromatin protein 1-binding protein 3 isoform 4 [Homo sapiens]

Protein Classification

histone H1/H5 family protein( domain architecture ID 10049420)

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
H15 cd00073
linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, ...
 117-207 5.42e-26

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: 98.46  E-value: 5.42e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1776945242 117 SSPRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLeLERRGYLLKQALKRELNRGVIKQVKGKGASGSFVVVQKs 196
Cdd:cd00073     1 PPSHPPYSEMVTEAIKALKERKGSSLQAIKKYIEAKYKVD-DENFNKLLKLALKKGVAKGKLVQVKGTGASGSFKLSKK- 78

                          90
                  ....*....|.
gi 1776945242 197 rKTPQKSRNRK 207
Cdd:cd00073    79 -KKKKKKPAKK 88
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 228-288 5.05e-12

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: 60.23  E-value: 5.05e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1776945242 228 AFTRLCEPKEASYSLIRKYVSQYYPKLRVDIRPQLLKNALQRAVERGQLEQITGKGASGTF 288
Cdd:pfam00538  11 AIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
 
Name Accession Description Interval E-value
H15 cd00073
linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, ...
 117-207 5.42e-26

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: 98.46  E-value: 5.42e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1776945242 117 SSPRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLeLERRGYLLKQALKRELNRGVIKQVKGKGASGSFVVVQKs 196
Cdd:cd00073     1 PPSHPPYSEMVTEAIKALKERKGSSLQAIKKYIEAKYKVD-DENFNKLLKLALKKGVAKGKLVQVKGTGASGSFKLSKK- 78

                          90
                  ....*....|.
gi 1776945242 197 rKTPQKSRNRK 207
Cdd:cd00073    79 -KKKKKKPAKK 88
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 120-190 2.86e-23

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: 90.66  E-value: 2.86e-23
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1776945242 120 RPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLELERRGYLLKQALKRELNRGVIKQVKGKGASGSF 190
Cdd:pfam00538   1 HPPYSDMIKEAIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
H15 smart00526
Domain in histone families 1 and 5;
117-183 1.56e-16

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 72.61  E-value: 1.56e-16
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1776945242  117 SSPRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLElERRGYLLKQALKRELNRGVIKQVKG 183
Cdd:smart00526   1 PPSHPPYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLP-NNFRKLLKLALKRLVASGKLVQVKG 66
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 228-288 5.05e-12

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: 60.23  E-value: 5.05e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1776945242 228 AFTRLCEPKEASYSLIRKYVSQYYPKLRVDIRPQLLKNALQRAVERGQLEQITGKGASGTF 288
Cdd:pfam00538  11 AIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
H15 smart00526
Domain in histone families 1 and 5;
215-281 1.73e-11

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 58.74  E-value: 1.73e-11
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1776945242  215 PEPQVKLEDVLPLAFTRLCEPKEASYSLIRKYVSQYYPKLRVDIRPqLLKNALQRAVERGQLEQITG 281
Cdd:smart00526   1 PPSHPPYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLPNNFRK-LLKLALKRLVASGKLVQVKG 66
 
Name Accession Description Interval E-value
H15 cd00073
linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, ...
 117-207 5.42e-26

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: 98.46  E-value: 5.42e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1776945242 117 SSPRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLeLERRGYLLKQALKRELNRGVIKQVKGKGASGSFVVVQKs 196
Cdd:cd00073     1 PPSHPPYSEMVTEAIKALKERKGSSLQAIKKYIEAKYKVD-DENFNKLLKLALKKGVAKGKLVQVKGTGASGSFKLSKK- 78

                          90
                  ....*....|.
gi 1776945242 197 rKTPQKSRNRK 207
Cdd:cd00073    79 -KKKKKKPAKK 88
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 120-190 2.86e-23

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: 90.66  E-value: 2.86e-23
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1776945242 120 RPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLELERRGYLLKQALKRELNRGVIKQVKGKGASGSF 190
Cdd:pfam00538   1 HPPYSDMIKEAIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
H15 smart00526
Domain in histone families 1 and 5;
117-183 1.56e-16

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 72.61  E-value: 1.56e-16
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1776945242  117 SSPRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLElERRGYLLKQALKRELNRGVIKQVKG 183
Cdd:smart00526   1 PPSHPPYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLP-NNFRKLLKLALKRLVASGKLVQVKG 66
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 228-288 5.05e-12

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: 60.23  E-value: 5.05e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1776945242 228 AFTRLCEPKEASYSLIRKYVSQYYPKLRVDIRPQLLKNALQRAVERGQLEQITGKGASGTF 288
Cdd:pfam00538  11 AIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
H15 smart00526
Domain in histone families 1 and 5;
215-281 1.73e-11

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 58.74  E-value: 1.73e-11
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1776945242  215 PEPQVKLEDVLPLAFTRLCEPKEASYSLIRKYVSQYYPKLRVDIRPqLLKNALQRAVERGQLEQITG 281
Cdd:smart00526   1 PPSHPPYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLPNNFRK-LLKLALKRLVASGKLVQVKG 66
 
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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