NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|2024379318|ref|XP_040507136|]
View 

heterochromatin protein 1-binding protein 3 isoform X4 [Gallus gallus]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

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, ...
 156-243 9.20e-25

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: 96.15  E-value: 9.20e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024379318 156 ATSRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLeLERRGYLLKQALKRELERGIIRQVKGKGASGSFVVVSNA 235
Cdd:cd00073     1 PPSHPPYSEMVTEAIKALKERKGSSLQAIKKYIEAKYKVD-DENFNKLLKLALKKGVAKGKLVQVKGTGASGSFKLSKKK 79


                  ....*...
gi 2024379318 236 GKTVQKAR 243
Cdd:cd00073    80 KKKKKPAK 87
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 267-327 1.37e-13

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: 65.24  E-value: 1.37e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2024379318 267 AFTRLCEPKEASYSLIKKYVSQYYPKLKVDIRPQLLKNALQRAVEKGQLEQITGKGASGTF 327
Cdd:pfam00538  11 AIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
LGT super family cl00478
Prolipoprotein diacylglyceryl transferase;
21-138 6.77e-04

Prolipoprotein diacylglyceryl transferase;


The actual alignment was detected with superfamily member PRK13108:

Pssm-ID: 469786 [Multi-domain]  Cd Length: 460  Bit Score: 41.50  E-value: 6.77e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024379318  21 GTQLIHTDKLSEKAEDDTMPIRRSVNSSRETPPKSKPAEGGEEVKADAEATSEESASAGEEQENETLPAAAPSEAEQPKE 100
Cdd:PRK13108  329 VAEAVKAEVAEVTDEVAAESVVQVADRDGESTPAVEETSEADIEREQPGDLAGQAPAAHQVDAEAASAAPEEPAALASEA 408

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 2024379318 101 PENEEKGET-KSSVETKKDDKDQSKEKEKKVKKTIPAWA 138
Cdd:PRK13108  409 HDETEPEVPeKAAPIPDPAKPDELAVAGPGDDPAEPDGI 447
 
Name Accession Description Interval E-value
H15 cd00073
linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, ...
 156-243 9.20e-25

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: 96.15  E-value: 9.20e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024379318 156 ATSRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLeLERRGYLLKQALKRELERGIIRQVKGKGASGSFVVVSNA 235
Cdd:cd00073     1 PPSHPPYSEMVTEAIKALKERKGSSLQAIKKYIEAKYKVD-DENFNKLLKLALKKGVAKGKLVQVKGTGASGSFKLSKKK 79


                  ....*...
gi 2024379318 236 GKTVQKAR 243
Cdd:cd00073    80 KKKKKPAK 87
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 159-229 2.28e-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: 91.82  E-value: 2.28e-23
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2024379318 159 RPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLELERRGYLLKQALKRELERGIIRQVKGKGASGSF 229
Cdd:pfam00538   1 HPPYSDMIKEAIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
H15 smart00526
Domain in histone families 1 and 5;
156-222 1.39e-15

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 70.30  E-value: 1.39e-15
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2024379318  156 ATSRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLElERRGYLLKQALKRELERGIIRQVKG 222
Cdd:smart00526   1 PPSHPPYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLP-NNFRKLLKLALKRLVASGKLVQVKG 66
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 267-327 1.37e-13

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: 65.24  E-value: 1.37e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2024379318 267 AFTRLCEPKEASYSLIKKYVSQYYPKLKVDIRPQLLKNALQRAVEKGQLEQITGKGASGTF 327
Cdd:pfam00538  11 AIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
H15 smart00526
Domain in histone families 1 and 5;
259-320 1.32e-11

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 59.51  E-value: 1.32e-11
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2024379318  259 KLEDILPLAFTRLCEPKEASYSLIKKYVSQYYPKLKVDIRPqLLKNALQRAVEKGQLEQITG 320
Cdd:smart00526   6 PYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLPNNFRK-LLKLALKRLVASGKLVQVKG 66
PRK13108 PRK13108
prolipoprotein diacylglyceryl transferase; Reviewed
 21-138 6.77e-04

prolipoprotein diacylglyceryl transferase; Reviewed


Pssm-ID: 237284 [Multi-domain]  Cd Length: 460  Bit Score: 41.50  E-value: 6.77e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024379318  21 GTQLIHTDKLSEKAEDDTMPIRRSVNSSRETPPKSKPAEGGEEVKADAEATSEESASAGEEQENETLPAAAPSEAEQPKE 100
Cdd:PRK13108  329 VAEAVKAEVAEVTDEVAAESVVQVADRDGESTPAVEETSEADIEREQPGDLAGQAPAAHQVDAEAASAAPEEPAALASEA 408

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 2024379318 101 PENEEKGET-KSSVETKKDDKDQSKEKEKKVKKTIPAWA 138
Cdd:PRK13108  409 HDETEPEVPeKAAPIPDPAKPDELAVAGPGDDPAEPDGI 447
 
Name Accession Description Interval E-value
H15 cd00073
linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, ...
 156-243 9.20e-25

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: 96.15  E-value: 9.20e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024379318 156 ATSRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLeLERRGYLLKQALKRELERGIIRQVKGKGASGSFVVVSNA 235
Cdd:cd00073     1 PPSHPPYSEMVTEAIKALKERKGSSLQAIKKYIEAKYKVD-DENFNKLLKLALKKGVAKGKLVQVKGTGASGSFKLSKKK 79


                  ....*...
gi 2024379318 236 GKTVQKAR 243
Cdd:cd00073    80 KKKKKPAK 87
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 159-229 2.28e-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: 91.82  E-value: 2.28e-23
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2024379318 159 RPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLELERRGYLLKQALKRELERGIIRQVKGKGASGSF 229
Cdd:pfam00538   1 HPPYSDMIKEAIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
H15 smart00526
Domain in histone families 1 and 5;
156-222 1.39e-15

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 70.30  E-value: 1.39e-15
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2024379318  156 ATSRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLElERRGYLLKQALKRELERGIIRQVKG 222
Cdd:smart00526   1 PPSHPPYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLP-NNFRKLLKLALKRLVASGKLVQVKG 66
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 267-327 1.37e-13

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: 65.24  E-value: 1.37e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2024379318 267 AFTRLCEPKEASYSLIKKYVSQYYPKLKVDIRPQLLKNALQRAVEKGQLEQITGKGASGTF 327
Cdd:pfam00538  11 AIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
H15 smart00526
Domain in histone families 1 and 5;
259-320 1.32e-11

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 59.51  E-value: 1.32e-11
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2024379318  259 KLEDILPLAFTRLCEPKEASYSLIKKYVSQYYPKLKVDIRPqLLKNALQRAVEKGQLEQITG 320
Cdd:smart00526   6 PYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLPNNFRK-LLKLALKRLVASGKLVQVKG 66
PRK13108 PRK13108
prolipoprotein diacylglyceryl transferase; Reviewed
 21-138 6.77e-04

prolipoprotein diacylglyceryl transferase; Reviewed


Pssm-ID: 237284 [Multi-domain]  Cd Length: 460  Bit Score: 41.50  E-value: 6.77e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2024379318  21 GTQLIHTDKLSEKAEDDTMPIRRSVNSSRETPPKSKPAEGGEEVKADAEATSEESASAGEEQENETLPAAAPSEAEQPKE 100
Cdd:PRK13108  329 VAEAVKAEVAEVTDEVAAESVVQVADRDGESTPAVEETSEADIEREQPGDLAGQAPAAHQVDAEAASAAPEEPAALASEA 408

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 2024379318 101 PENEEKGET-KSSVETKKDDKDQSKEKEKKVKKTIPAWA 138
Cdd:PRK13108  409 HDETEPEVPeKAAPIPDPAKPDELAVAGPGDDPAEPDGI 447
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH