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Conserved domains on  [gi|1841650272|ref|XP_034226586|]
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telomere repeat-binding factor 4-like [Prunus dulcis]

Protein Classification

SANT_TRF and H15 domain-containing protein( domain architecture ID 10184744)

SANT_TRF and H15 domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 6-57 2.44e-24

Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human telomere repeat binding factors, TRF1 and TRF2, function as part of the 6 component shelterin complex. TRF2 binds DNA and recruits RAP1 (via binding to the RAP1 protein c-terminal (RCT)) and TIN2 in the protection of telomeres from DNA repair machinery. Metazoan shelterin consists of 3 DNA binding proteins (TRF2, TRF1, and POT1) and 3 recruited proteins that bind to one or more of these DNA-binding proteins (RAP1, TIN2, TPP1). Schizosaccharomyces pombe TAZ1 is an orthlog and binds RAP1. Human TRF1 and TRF2 bind double-stranded DNA. hTRF2 consists of a basic N-terminus, a TRF homology domain, the RAP1 binding motif (RBM), the TIN2 binding motif (TBM) and a myb-like DNA binding domain, SANT, named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. Tandem copies of the domain bind telomeric DNA tandem repeats as part of the capping complex. The single myb-like domain of TRF-type proteins is similar to the tandem myb_like domains found in yeast RAP1.


:

Pssm-ID: 212558 [Multi-domain]  Cd Length: 50  Bit Score: 92.63  E-value: 2.44e-24
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1841650272   6 QKWTSEEEEALRAGVKKHGTGKWKDIQKDPefnPFLSSRSNIDLKDKWRNMT 57
Cdd:cd11660     1 RKWTDEEDEALVEGVEKYGVGNWAKILKDY---FFVNNRTSVDLKDKWRNLK 49
H15 super family cl00073
linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, ...
 156-197 3.29e-04

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


The actual alignment was detected with superfamily member smart00526:

Pssm-ID: 469603 [Multi-domain]  Cd Length: 66  Bit Score: 38.33  E-value: 3.29e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
gi 1841650272  156 AKTAPAYDAMIFEALSTSTGPNGLDSGAIASFIEQRNEIPPN 197
Cdd:smart00526   1 PPSHPPYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLPN 42
 
Name Accession Description Interval E-value
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 6-57 2.44e-24

Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human telomere repeat binding factors, TRF1 and TRF2, function as part of the 6 component shelterin complex. TRF2 binds DNA and recruits RAP1 (via binding to the RAP1 protein c-terminal (RCT)) and TIN2 in the protection of telomeres from DNA repair machinery. Metazoan shelterin consists of 3 DNA binding proteins (TRF2, TRF1, and POT1) and 3 recruited proteins that bind to one or more of these DNA-binding proteins (RAP1, TIN2, TPP1). Schizosaccharomyces pombe TAZ1 is an orthlog and binds RAP1. Human TRF1 and TRF2 bind double-stranded DNA. hTRF2 consists of a basic N-terminus, a TRF homology domain, the RAP1 binding motif (RBM), the TIN2 binding motif (TBM) and a myb-like DNA binding domain, SANT, named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. Tandem copies of the domain bind telomeric DNA tandem repeats as part of the capping complex. The single myb-like domain of TRF-type proteins is similar to the tandem myb_like domains found in yeast RAP1.


Pssm-ID: 212558 [Multi-domain]  Cd Length: 50  Bit Score: 92.63  E-value: 2.44e-24
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1841650272   6 QKWTSEEEEALRAGVKKHGTGKWKDIQKDPefnPFLSSRSNIDLKDKWRNMT 57
Cdd:cd11660     1 RKWTDEEDEALVEGVEKYGVGNWAKILKDY---FFVNNRTSVDLKDKWRNLK 49
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
5-56 2.79e-10

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 54.92  E-value: 2.79e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 1841650272    5 KQKWTSEEEEALRAGVKKHGTGKWKDIQKdpefnpFLSSRSNIDLKDKWRNM 56
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAK------ELPGRTAEQCRERWRNL 46
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 5-56 7.19e-08

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 47.88  E-value: 7.19e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1841650272   5 KQKWTSEEEEALRAGVKKHGtGKWKDIQKdpefnpFLSSRSNIDLKDKWRNM 56
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKIAK------LLPGRTDNQCKNRWQNY 45
H15 smart00526
Domain in histone families 1 and 5;
156-197 3.29e-04

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 38.33  E-value: 3.29e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
gi 1841650272  156 AKTAPAYDAMIFEALSTSTGPNGLDSGAIASFIEQRNEIPPN 197
Cdd:smart00526   1 PPSHPPYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLPN 42
 
Name Accession Description Interval E-value
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 6-57 2.44e-24

Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human telomere repeat binding factors, TRF1 and TRF2, function as part of the 6 component shelterin complex. TRF2 binds DNA and recruits RAP1 (via binding to the RAP1 protein c-terminal (RCT)) and TIN2 in the protection of telomeres from DNA repair machinery. Metazoan shelterin consists of 3 DNA binding proteins (TRF2, TRF1, and POT1) and 3 recruited proteins that bind to one or more of these DNA-binding proteins (RAP1, TIN2, TPP1). Schizosaccharomyces pombe TAZ1 is an orthlog and binds RAP1. Human TRF1 and TRF2 bind double-stranded DNA. hTRF2 consists of a basic N-terminus, a TRF homology domain, the RAP1 binding motif (RBM), the TIN2 binding motif (TBM) and a myb-like DNA binding domain, SANT, named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. Tandem copies of the domain bind telomeric DNA tandem repeats as part of the capping complex. The single myb-like domain of TRF-type proteins is similar to the tandem myb_like domains found in yeast RAP1.


Pssm-ID: 212558 [Multi-domain]  Cd Length: 50  Bit Score: 92.63  E-value: 2.44e-24
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1841650272   6 QKWTSEEEEALRAGVKKHGTGKWKDIQKDPefnPFLSSRSNIDLKDKWRNMT 57
Cdd:cd11660     1 RKWTDEEDEALVEGVEKYGVGNWAKILKDY---FFVNNRTSVDLKDKWRNLK 49
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
5-56 2.79e-10

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 54.92  E-value: 2.79e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 1841650272    5 KQKWTSEEEEALRAGVKKHGTGKWKDIQKdpefnpFLSSRSNIDLKDKWRNM 56
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAK------ELPGRTAEQCRERWRNL 46
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 7-56 2.86e-10

'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.


Pssm-ID: 238096 [Multi-domain]  Cd Length: 45  Bit Score: 54.50  E-value: 2.86e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1841650272   7 KWTSEEEEALRAGVKKHGTGKWKDIQKdpefnpFLSSRSNIDLKDKWRNM 56
Cdd:cd00167     1 PWTEEEDELLLEAVKKYGKNNWEKIAK------ELPGRTPKQCRERWRNL 44
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 5-56 7.19e-08

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 47.88  E-value: 7.19e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1841650272   5 KQKWTSEEEEALRAGVKKHGtGKWKDIQKdpefnpFLSSRSNIDLKDKWRNM 56
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKIAK------LLPGRTDNQCKNRWQNY 45
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 8-62 1.07e-06

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 372817 [Multi-domain]  Cd Length: 60  Bit Score: 44.99  E-value: 1.07e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1841650272   8 WTSEEEEALRAGVKKHGtGKWKDIQKdpefnpFLSSRSNIDLKDKWRNMTVSGMN 62
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIAK------ELGRRTPKQCFDRWRRKLNPKIS 48
H15 smart00526
Domain in histone families 1 and 5;
156-197 3.29e-04

Domain in histone families 1 and 5;


Pssm-ID: 197772 [Multi-domain]  Cd Length: 66  Bit Score: 38.33  E-value: 3.29e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
gi 1841650272  156 AKTAPAYDAMIFEALSTSTGPNGLDSGAIASFIEQRNEIPPN 197
Cdd:smart00526   1 PPSHPPYSEMIVEAISALKERKGSSLQAIKKYIEANYKVLPN 42
CHDCT2 pfam08074
CHDCT2 (NUC038) domain; The CHDCT2 C-terminal domain is found in PHD/RING finger and chromo ...
 16-53 2.42e-03

CHDCT2 (NUC038) domain; The CHDCT2 C-terminal domain is found in PHD/RING finger and chromo domain-associated CHD-like helicases.


Pssm-ID: 462358  Cd Length: 145  Bit Score: 37.80  E-value: 2.42e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1841650272  16 LRAGVKKHGTGKWKDIQKDPEF----NPF--LSSRSN-IDLKDKW 53
Cdd:pfam08074  12 LLAGVATHGYGRWQDIQNDPRFsiinEPFkgESAKGNfLEIKNKF 56
 
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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