NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1351569870|ref|XP_024069151|]
View 

heterochromatin protein 1-binding protein 3 isoform X3 [Terrapene triunguis]

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

 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, ...
 148-238 4.41e-22

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: 90.37  E-value: 4.41e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1351569870 148 ASSRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLeLERRGYLLKQALKRELERGVIRQVKGKGASGSFVVvsNA 227
Cdd:cd00073     1 PPSHPPYSEMVTEAIKALKERKGSSLQAIKKYIEAKYKVD-DENFNKLLKLALKKGVAKGKLVQVKGTGASGSFKL--SK 77

                          90
                  ....*....|.
gi 1351569870 228 GKTVPKSRDRK 238
Cdd:cd00073    78 KKKKKKKPAKK 88
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 335-402 4.02e-20

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: 84.50  E-value: 4.02e-20
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1351569870 335 MEDAILSAIAAMNEPKTCSTTALKKYVLENHPGTNSNFQVHLLKRTLQKCEKNGWMEQISGKGFSGTF 402
Cdd:pfam00538   4 YSDMIKEAIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 259-319 6.67e-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: 63.70  E-value: 6.67e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1351569870 259 AFTRLCEPKEASYSLIKKYVSQYYPKLKVDVRPQLLKNALQRAVEKGQLEQITGKGASGTF 319
Cdd:pfam00538  11 AIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
LGT super family cl00478
Prolipoprotein diacylglyceryl transferase;
28-112 1.47e-03

Prolipoprotein diacylglyceryl transferase;


The actual alignment was detected with superfamily member PRK13108:

Pssm-ID: 469786 [Multi-domain]  Cd Length: 460  Bit Score: 41.12  E-value: 1.47e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1351569870  28 DKLSEKVEDDTMPIRRAVNSSARETPPKSKPAEDPEISSEESASTGEEQENETPPATSSETEQPKEPESEKGEAKSSEET 107
Cdd:PRK13108  335 AEVAEVTDEVAAESVVQVADRDGESTPAVEETSEADIEREQPGDLAGQAPAAHQVDAEAASAAPEEPAALASEAHDETEP 414


                  ....*
gi 1351569870 108 KKDEK 112
Cdd:PRK13108  415 EVPEK 419
 
Name Accession Description Interval E-value
H15 cd00073
linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, ...
 148-238 4.41e-22

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: 90.37  E-value: 4.41e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1351569870 148 ASSRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLeLERRGYLLKQALKRELERGVIRQVKGKGASGSFVVvsNA 227
Cdd:cd00073     1 PPSHPPYSEMVTEAIKALKERKGSSLQAIKKYIEAKYKVD-DENFNKLLKLALKKGVAKGKLVQVKGTGASGSFKL--SK 77

                          90
                  ....*....|.
gi 1351569870 228 GKTVPKSRDRK 238
Cdd:cd00073    78 KKKKKKKPAKK 88
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 151-221 1.58e-21

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: 88.35  E-value: 1.58e-21
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1351569870 151 RPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLELERRGYLLKQALKRELERGVIRQVKGKGASGSF 221
Cdd:pfam00538   1 HPPYSDMIKEAIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 335-402 4.02e-20

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: 84.50  E-value: 4.02e-20
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1351569870 335 MEDAILSAIAAMNEPKTCSTTALKKYVLENHPGTNSNFQVHLLKRTLQKCEKNGWMEQISGKGFSGTF 402
Cdd:pfam00538   4 YSDMIKEAIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
H15 smart00526
Domain in histone families 1 and 5;
148-214 1.37e-14

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 68.37  E-value: 1.37e-14
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1351569870  148 ASSRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLElERRGYLLKQALKRELERGVIRQVKG 214
Cdd:smart00526   1 PPSHPPYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLP-NNFRKLLKLALKRLVASGKLVQVKG 66
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 259-319 6.67e-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: 63.70  E-value: 6.67e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1351569870 259 AFTRLCEPKEASYSLIKKYVSQYYPKLKVDVRPQLLKNALQRAVEKGQLEQITGKGASGTF 319
Cdd:pfam00538  11 AIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
H15 smart00526
Domain in histone families 1 and 5;
251-312 5.98e-10

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 55.28  E-value: 5.98e-10
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1351569870  251 KLEDILPLAFTRLCEPKEASYSLIKKYVSQYYPKLKVDVRPqLLKNALQRAVEKGQLEQITG 312
Cdd:smart00526   6 PYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLPNNFRK-LLKLALKRLVASGKLVQVKG 66
H15 smart00526
Domain in histone families 1 and 5;
335-395 1.31e-09

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 54.12  E-value: 1.31e-09
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1351569870  335 MEDAILSAIAAMNEPKTCSTTALKKYVLENHpGTNSNFQVHLLKRTLQKCEKNGWMEQISG 395
Cdd:smart00526   7 YSEMIVEAISALKERKGSSLQAIKKYIEANY-KVLPNNFRKLLKLALKRLVASGKLVQVKG 66
H15 cd00073
linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, ...
 339-405 1.39e-06

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: 46.46  E-value: 1.39e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1351569870 339 ILSAIAAMNEPKTCSTTALKKYVLENHPGTNSNFQVHlLKRTLQKCEKNGWMEQISGKGFSGTFQLC 405
Cdd:cd00073    11 VTEAIKALKERKGSSLQAIKKYIEAKYKVDDENFNKL-LKLALKKGVAKGKLVQVKGTGASGSFKLS 76
PRK13108 PRK13108
prolipoprotein diacylglyceryl transferase; Reviewed
 28-112 1.47e-03

prolipoprotein diacylglyceryl transferase; Reviewed


Pssm-ID: 237284 [Multi-domain]  Cd Length: 460  Bit Score: 41.12  E-value: 1.47e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1351569870  28 DKLSEKVEDDTMPIRRAVNSSARETPPKSKPAEDPEISSEESASTGEEQENETPPATSSETEQPKEPESEKGEAKSSEET 107
Cdd:PRK13108  335 AEVAEVTDEVAAESVVQVADRDGESTPAVEETSEADIEREQPGDLAGQAPAAHQVDAEAASAAPEEPAALASEAHDETEP 414


                  ....*
gi 1351569870 108 KKDEK 112
Cdd:PRK13108  415 EVPEK 419
 
Name Accession Description Interval E-value
H15 cd00073
linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, ...
 148-238 4.41e-22

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: 90.37  E-value: 4.41e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1351569870 148 ASSRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLeLERRGYLLKQALKRELERGVIRQVKGKGASGSFVVvsNA 227
Cdd:cd00073     1 PPSHPPYSEMVTEAIKALKERKGSSLQAIKKYIEAKYKVD-DENFNKLLKLALKKGVAKGKLVQVKGTGASGSFKL--SK 77

                          90
                  ....*....|.
gi 1351569870 228 GKTVPKSRDRK 238
Cdd:cd00073    78 KKKKKKKPAKK 88
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 151-221 1.58e-21

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: 88.35  E-value: 1.58e-21
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1351569870 151 RPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLELERRGYLLKQALKRELERGVIRQVKGKGASGSF 221
Cdd:pfam00538   1 HPPYSDMIKEAIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 335-402 4.02e-20

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: 84.50  E-value: 4.02e-20
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1351569870 335 MEDAILSAIAAMNEPKTCSTTALKKYVLENHPGTNSNFQVHLLKRTLQKCEKNGWMEQISGKGFSGTF 402
Cdd:pfam00538   4 YSDMIKEAIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
H15 smart00526
Domain in histone families 1 and 5;
148-214 1.37e-14

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 68.37  E-value: 1.37e-14
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1351569870  148 ASSRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLElERRGYLLKQALKRELERGVIRQVKG 214
Cdd:smart00526   1 PPSHPPYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLP-NNFRKLLKLALKRLVASGKLVQVKG 66
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 259-319 6.67e-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: 63.70  E-value: 6.67e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1351569870 259 AFTRLCEPKEASYSLIKKYVSQYYPKLKVDVRPQLLKNALQRAVEKGQLEQITGKGASGTF 319
Cdd:pfam00538  11 AIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
H15 smart00526
Domain in histone families 1 and 5;
251-312 5.98e-10

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 55.28  E-value: 5.98e-10
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1351569870  251 KLEDILPLAFTRLCEPKEASYSLIKKYVSQYYPKLKVDVRPqLLKNALQRAVEKGQLEQITG 312
Cdd:smart00526   6 PYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLPNNFRK-LLKLALKRLVASGKLVQVKG 66
H15 smart00526
Domain in histone families 1 and 5;
335-395 1.31e-09

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 54.12  E-value: 1.31e-09
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1351569870  335 MEDAILSAIAAMNEPKTCSTTALKKYVLENHpGTNSNFQVHLLKRTLQKCEKNGWMEQISG 395
Cdd:smart00526   7 YSEMIVEAISALKERKGSSLQAIKKYIEANY-KVLPNNFRKLLKLALKRLVASGKLVQVKG 66
H15 cd00073
linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, ...
 339-405 1.39e-06

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: 46.46  E-value: 1.39e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1351569870 339 ILSAIAAMNEPKTCSTTALKKYVLENHPGTNSNFQVHlLKRTLQKCEKNGWMEQISGKGFSGTFQLC 405
Cdd:cd00073    11 VTEAIKALKERKGSSLQAIKKYIEAKYKVDDENFNKL-LKLALKKGVAKGKLVQVKGTGASGSFKLS 76
PRK13108 PRK13108
prolipoprotein diacylglyceryl transferase; Reviewed
 28-112 1.47e-03

prolipoprotein diacylglyceryl transferase; Reviewed


Pssm-ID: 237284 [Multi-domain]  Cd Length: 460  Bit Score: 41.12  E-value: 1.47e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1351569870  28 DKLSEKVEDDTMPIRRAVNSSARETPPKSKPAEDPEISSEESASTGEEQENETPPATSSETEQPKEPESEKGEAKSSEET 107
Cdd:PRK13108  335 AEVAEVTDEVAAESVVQVADRDGESTPAVEETSEADIEREQPGDLAGQAPAAHQVDAEAASAAPEEPAALASEAHDETEP 414


                  ....*
gi 1351569870 108 KKDEK 112
Cdd:PRK13108  415 EVPEK 419
 
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