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Conserved domains on  [gi|22329629|ref|NP_564025|]
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TRF-like 3 [Arabidopsis thaliana]

Protein Classification

telomere repeat binding factor family protein( domain architecture ID 10184738)

telomere repeat binding factor (TRF) family protein binds directly to the telomeric double-stranded TTAGGG repeat through its SANT (SWI3, ADA2, N-CoR and TFIIIB)/Myb-like DNA-binding domain, and negatively regulates telomere length

CATH:  1.20.58.1880
Gene Ontology:  GO:0003677|GO:0006355|GO:0003700
PubMed:  8882580|12757977|15040448|16877755
SCOP:  4000317

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 ...
 497-547 7.72e-22

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: 88.78  E-value: 7.72e-22
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 22329629 497 RAWTISEVEKLVEGVSKYGVGKWTEIKKlSFSPYTHRTTVDLKDKWRNLQK 547
Cdd:cd11660   1 RKWTDEEDEALVEGVEKYGVGNWAKILK-DYFFVNNRTSVDLKDKWRNLKK 50
 
Name Accession Description Interval E-value
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 497-547 7.72e-22

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: 88.78  E-value: 7.72e-22
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 22329629 497 RAWTISEVEKLVEGVSKYGVGKWTEIKKlSFSPYTHRTTVDLKDKWRNLQK 547
Cdd:cd11660   1 RKWTDEEDEALVEGVEKYGVGNWAKILK-DYFFVNNRTSVDLKDKWRNLKK 50
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
497-547 1.72e-07

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 47.99  E-value: 1.72e-07
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 22329629    497 RAWTISEVEKLVEGVSKYGVGKWTEIKKLsfspYTHRTTVDLKDKWRNLQK 547
Cdd:smart00717   2 GEWTEEEDELLIELVKKYGKNNWEKIAKE----LPGRTAEQCRERWRNLLK 48
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 498-545 5.13e-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: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 43.65  E-value: 5.13e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 22329629   498 AWTISEVEKLVEGVSKYGvGKWTEIKKLsfspYTHRTTVDLKDKWRNL 545
Cdd:pfam00249   3 PWTPEEDELLLEAVEKLG-NRWKKIAKL----LPGRTDNQCKNRWQNY 45
 
Name Accession Description Interval E-value
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 497-547 7.72e-22

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: 88.78  E-value: 7.72e-22
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 22329629 497 RAWTISEVEKLVEGVSKYGVGKWTEIKKlSFSPYTHRTTVDLKDKWRNLQK 547
Cdd:cd11660   1 RKWTDEEDEALVEGVEKYGVGNWAKILK-DYFFVNNRTSVDLKDKWRNLKK 50
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 498-545 7.02e-08

'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: 48.73  E-value: 7.02e-08
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*...
gi 22329629 498 AWTISEVEKLVEGVSKYGVGKWTEIKKLsfspYTHRTTVDLKDKWRNL 545
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGKNNWEKIAKE----LPGRTPKQCRERWRNL 44
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
497-547 1.72e-07

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 47.99  E-value: 1.72e-07
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 22329629    497 RAWTISEVEKLVEGVSKYGVGKWTEIKKLsfspYTHRTTVDLKDKWRNLQK 547
Cdd:smart00717   2 GEWTEEEDELLIELVKKYGKNNWEKIAKE----LPGRTAEQCRERWRNLLK 48
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 498-545 5.13e-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: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 43.65  E-value: 5.13e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 22329629   498 AWTISEVEKLVEGVSKYGvGKWTEIKKLsfspYTHRTTVDLKDKWRNL 545
Cdd:pfam00249   3 PWTPEEDELLLEAVEKLG-NRWKKIAKL----LPGRTDNQCKNRWQNY 45
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 499-552 6.17e-04

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: 38.06  E-value: 6.17e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 22329629   499 WTISEVEKLVEGVSKYGvGKWTEIKKLsfspYTHRTTVDLKDKWRNLQKASSSN 552
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIAKE----LGRRTPKQCFDRWRRKLNPKISR 49
SANT_DMAP1_like cd11658
SANT/myb-like domain of Human Dna Methyltransferase 1 Associated Protein 1-like; These ...
 499-546 1.32e-03

SANT/myb-like domain of Human Dna Methyltransferase 1 Associated Protein 1-like; These proteins are members of the SANT/myb group. SANT is named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. The SANT domain resembles the 3 alpha-helix bundle of the DNA-binding Myb domains and is found in a diverse set of proteins.


Pssm-ID: 212556  Cd Length: 46  Bit Score: 37.00  E-value: 1.32e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*...
gi 22329629 499 WTISEVEKLVEGVSKYGVgKWTEIKKlSFSPYTHRTTVDLKDKWRNLQ 546
Cdd:cd11658   1 WTKEETDYLFDLVKRFDL-RWNVILD-RYPFQKGRSVEDLKEKYYHLC 46
 
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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