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Conserved domains on  [gi|149024362|gb|EDL80859|]
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heterochromatin protein 1, binding protein 3, isoform CRA_b [Rattus norvegicus]

Protein Classification

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, ...
 155-239 1.01e-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: 92.30  E-value: 1.01e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 149024362 155 SSPRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLDlERRGYLLKQALKRELNRGVIKQVKGKGASGSFVVVQKS 234
Cdd:cd00073    1 PPSHPPYSEMVTEAIKALKERKGSSLQAIKKYIEAKYKVDD-ENFNKLLKLALKKGVAKGKLVQVKGTGASGSFKLSKKK 79


                 ....*
gi 149024362 235 KTPQK 239
Cdd:cd00073   80 KKKKK 84
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 340-407 7.07e-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: 83.73  E-value: 7.07e-20
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 149024362  340 MEYAILSAIAAMNEPKTCSTTALKKYVLENHPGTNSNYQMHLLKKTLQKCEKNGWLEQISGKGFSGTF 407
Cdd:pfam00538   4 YSDMIKEAIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 264-324 8.13e-11

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: 57.92  E-value: 8.13e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 149024362  264 AFTRLCEPKEASYSLIRKYVSQYYPKLRVDIRPQLLKNALQRAVERGQLEQITGKGASGTF 324
Cdd:pfam00538  11 AIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
PRK13808 super family cl31642
adenylate kinase; Provisional
 469-543 1.23e-03

adenylate kinase; Provisional


The actual alignment was detected with superfamily member PRK13808:

Pssm-ID: 172341 [Multi-domain]  Cd Length: 333  Bit Score: 41.03  E-value: 1.23e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 149024362 469 ASMKQRGAKPARKVPAAQRGKVRPlPKKAPPKAKTPARKGRPAPSAVKKPSGSTSKKPVANARKEAKLPGKGKSA 543
Cdd:PRK13808 192 AAVGAANAKKAAKTPAAKSGAKKA-SAKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAK 265
 
Name Accession Description Interval E-value
H15 cd00073
linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, ...
 155-239 1.01e-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: 92.30  E-value: 1.01e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 149024362 155 SSPRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLDlERRGYLLKQALKRELNRGVIKQVKGKGASGSFVVVQKS 234
Cdd:cd00073    1 PPSHPPYSEMVTEAIKALKERKGSSLQAIKKYIEAKYKVDD-ENFNKLLKLALKKGVAKGKLVQVKGTGASGSFKLSKKK 79


                 ....*
gi 149024362 235 KTPQK 239
Cdd:cd00073   80 KKKKK 84
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 158-228 1.88e-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: 87.97  E-value: 1.88e-21
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 149024362  158 RPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLDLERRGYLLKQALKRELNRGVIKQVKGKGASGSF 228
Cdd:pfam00538   1 HPPYSDMIKEAIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 340-407 7.07e-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: 83.73  E-value: 7.07e-20
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 149024362  340 MEYAILSAIAAMNEPKTCSTTALKKYVLENHPGTNSNYQMHLLKKTLQKCEKNGWLEQISGKGFSGTF 407
Cdd:pfam00538   4 YSDMIKEAIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
H15 smart00526
Domain in histone families 1 and 5;
155-221 4.49e-15

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 69.91  E-value: 4.49e-15
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 149024362   155 SSPRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLDlERRGYLLKQALKRELNRGVIKQVKG 221
Cdd:smart00526   1 PPSHPPYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLP-NNFRKLLKLALKRLVASGKLVQVKG 66
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 264-324 8.13e-11

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: 57.92  E-value: 8.13e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 149024362  264 AFTRLCEPKEASYSLIRKYVSQYYPKLRVDIRPQLLKNALQRAVERGQLEQITGKGASGTF 324
Cdd:pfam00538  11 AIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
H15 smart00526
Domain in histone families 1 and 5;
344-400 2.33e-10

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 56.43  E-value: 2.33e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 149024362   344 ILSAIAAMNEPKTCSTTALKKYVLENHpGTNSNYQMHLLKKTLQKCEKNGWLEQISG 400
Cdd:smart00526  11 IVEAISALKERKGSSLQAIKKYIEANY-KVLPNNFRKLLKLALKRLVASGKLVQVKG 66
H15 smart00526
Domain in histone families 1 and 5;
251-317 3.55e-10

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 56.05  E-value: 3.55e-10
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 149024362   251 PEPQVKLEDVLPLAFTRLCEPKEASYSLIRKYVSQYYPKLRVDIRPqLLKNALQRAVERGQLEQITG 317
Cdd:smart00526   1 PPSHPPYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLPNNFRK-LLKLALKRLVASGKLVQVKG 66
H15 cd00073
linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, ...
 344-410 2.26e-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: 45.69  E-value: 2.26e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 149024362 344 ILSAIAAMNEPKTCSTTALKKYVLENHPGTNSNYQMHlLKKTLQKCEKNGWLEQISGKGFSGTFQLC 410
Cdd:cd00073   11 VTEAIKALKERKGSSLQAIKKYIEAKYKVDDENFNKL-LKLALKKGVAKGKLVQVKGTGASGSFKLS 76
PRK13808 PRK13808
adenylate kinase; Provisional
 469-543 1.23e-03

adenylate kinase; Provisional


Pssm-ID: 172341 [Multi-domain]  Cd Length: 333  Bit Score: 41.03  E-value: 1.23e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 149024362 469 ASMKQRGAKPARKVPAAQRGKVRPlPKKAPPKAKTPARKGRPAPSAVKKPSGSTSKKPVANARKEAKLPGKGKSA 543
Cdd:PRK13808 192 AAVGAANAKKAAKTPAAKSGAKKA-SAKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAK 265
 
Name Accession Description Interval E-value
H15 cd00073
linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, ...
 155-239 1.01e-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: 92.30  E-value: 1.01e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 149024362 155 SSPRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLDlERRGYLLKQALKRELNRGVIKQVKGKGASGSFVVVQKS 234
Cdd:cd00073    1 PPSHPPYSEMVTEAIKALKERKGSSLQAIKKYIEAKYKVDD-ENFNKLLKLALKKGVAKGKLVQVKGTGASGSFKLSKKK 79


                 ....*
gi 149024362 235 KTPQK 239
Cdd:cd00073   80 KKKKK 84
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 158-228 1.88e-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: 87.97  E-value: 1.88e-21
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 149024362  158 RPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLDLERRGYLLKQALKRELNRGVIKQVKGKGASGSF 228
Cdd:pfam00538   1 HPPYSDMIKEAIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 340-407 7.07e-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: 83.73  E-value: 7.07e-20
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 149024362  340 MEYAILSAIAAMNEPKTCSTTALKKYVLENHPGTNSNYQMHLLKKTLQKCEKNGWLEQISGKGFSGTF 407
Cdd:pfam00538   4 YSDMIKEAIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
H15 smart00526
Domain in histone families 1 and 5;
155-221 4.49e-15

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 69.91  E-value: 4.49e-15
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 149024362   155 SSPRPKMDAILTEAIKACFQKSGASVVAIRKYIIHKYPSLDlERRGYLLKQALKRELNRGVIKQVKG 221
Cdd:smart00526   1 PPSHPPYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLP-NNFRKLLKLALKRLVASGKLVQVKG 66
Linker_histone pfam00538
linker histone H1 and H5 family; Linker histone H1 is an essential component of chromatin ...
 264-324 8.13e-11

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: 57.92  E-value: 8.13e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 149024362  264 AFTRLCEPKEASYSLIRKYVSQYYPKLRVDIRPQLLKNALQRAVERGQLEQITGKGASGTF 324
Cdd:pfam00538  11 AIKALKERKGSSRQAIKKYIKANYKVGDVAKFNSLLKRALKKGVEKGTLVQPKGTGASGSF 71
H15 smart00526
Domain in histone families 1 and 5;
344-400 2.33e-10

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 56.43  E-value: 2.33e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 149024362   344 ILSAIAAMNEPKTCSTTALKKYVLENHpGTNSNYQMHLLKKTLQKCEKNGWLEQISG 400
Cdd:smart00526  11 IVEAISALKERKGSSLQAIKKYIEANY-KVLPNNFRKLLKLALKRLVASGKLVQVKG 66
H15 smart00526
Domain in histone families 1 and 5;
251-317 3.55e-10

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 56.05  E-value: 3.55e-10
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 149024362   251 PEPQVKLEDVLPLAFTRLCEPKEASYSLIRKYVSQYYPKLRVDIRPqLLKNALQRAVERGQLEQITG 317
Cdd:smart00526   1 PPSHPPYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLPNNFRK-LLKLALKRLVASGKLVQVKG 66
H15 cd00073
linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, ...
 344-410 2.26e-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: 45.69  E-value: 2.26e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 149024362 344 ILSAIAAMNEPKTCSTTALKKYVLENHPGTNSNYQMHlLKKTLQKCEKNGWLEQISGKGFSGTFQLC 410
Cdd:cd00073   11 VTEAIKALKERKGSSLQAIKKYIEAKYKVDDENFNKL-LKLALKKGVAKGKLVQVKGTGASGSFKLS 76
PRK13808 PRK13808
adenylate kinase; Provisional
 469-543 1.23e-03

adenylate kinase; Provisional


Pssm-ID: 172341 [Multi-domain]  Cd Length: 333  Bit Score: 41.03  E-value: 1.23e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 149024362 469 ASMKQRGAKPARKVPAAQRGKVRPlPKKAPPKAKTPARKGRPAPSAVKKPSGSTSKKPVANARKEAKLPGKGKSA 543
Cdd:PRK13808 192 AAVGAANAKKAAKTPAAKSGAKKA-SAKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAK 265
valS PRK14900
valyl-tRNA synthetase; Provisional
 454-530 1.52e-03

valyl-tRNA synthetase; Provisional


Pssm-ID: 237855 [Multi-domain]  Cd Length: 1052  Bit Score: 41.52  E-value: 1.52e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 149024362  454 RSLQKKTPAKPQGKTASMKQRGAKPARKVPAAQRGKVRPLPKKAPPKAKTPARKGrPAPSAVKKPSGST-SKKPVANA 530
Cdd:PRK14900  971 AEAVRKTVRRSVKKAAATRAAMKKKVAKKAPAKKAAAKKAAAKKAAAKKKVAKKA-PAKKVARKPAAKKaAKKPARKA 1047
PRK13808 PRK13808
adenylate kinase; Provisional
 452-543 3.69e-03

adenylate kinase; Provisional


Pssm-ID: 172341 [Multi-domain]  Cd Length: 333  Bit Score: 39.87  E-value: 3.69e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 149024362 452 PKRSLQKKTPAKPQGKTASMKQRGAKPARKVPAAQRGKVRPLPKKAPPKAKTPARKGRPAPSAVKKPSGSTsKKPVANAR 531
Cdd:PRK13808 232 AKTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKAVKKAAKKAAKAAAKAAKGAAKATKGKAKAKKKAGKK-AAAGSKAK 310

                         90
                 ....*....|..
gi 149024362 532 KEAKLPGKGKSA 543
Cdd:PRK13808 311 ATAKAPKRGAKG 322
 
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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