NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1002243173|ref|XP_015625823|]
View 

uncharacterized protein [Oryza sativa Japonica Group]

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

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

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 ...
 504-554 2.26e-17

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: 76.07  E-value: 2.26e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1002243173 504 RAWTLCEVVKLVDGVARYGAGKWSEIRRlAFSSYSYRTSVDLKDKWRNLIR 554
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 ...
 504-554 2.26e-17

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: 76.07  E-value: 2.26e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1002243173 504 RAWTLCEVVKLVDGVARYGAGKWSEIRRlAFSSYSYRTSVDLKDKWRNLIR 554
Cdd:cd11660     1 RKWTDEEDEALVEGVEKYGVGNWAKILK-DYFFVNNRTSVDLKDKWRNLKK 50
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
504-554 2.36e-06

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 44.91  E-value: 2.36e-06
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1002243173  504 RAWTLCEVVKLVDGVARYGAGKWSEIRRLafssYSYRTSVDLKDKWRNLIR 554
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, ...
 505-553 7.71e-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: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 37.48  E-value: 7.71e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1002243173 505 AWTLCEVVKLVDGVARYGaGKWSEIRRLAFSsysyRTSVDLKDKWRNLI 553
Cdd:pfam00249   3 PWTPEEDELLLEAVEKLG-NRWKKIAKLLPG----RTDNQCKNRWQNYL 46
 
Name Accession Description Interval E-value
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 504-554 2.26e-17

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: 76.07  E-value: 2.26e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1002243173 504 RAWTLCEVVKLVDGVARYGAGKWSEIRRlAFSSYSYRTSVDLKDKWRNLIR 554
Cdd:cd11660     1 RKWTDEEDEALVEGVEKYGVGNWAKILK-DYFFVNNRTSVDLKDKWRNLKK 50
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 505-553 6.01e-07

'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: 46.41  E-value: 6.01e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1002243173 505 AWTLCEVVKLVDGVARYGAGKWSEIRRLafssYSYRTSVDLKDKWRNLI 553
Cdd:cd00167     1 PWTEEEDELLLEAVKKYGKNNWEKIAKE----LPGRTPKQCRERWRNLL 45
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
504-554 2.36e-06

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


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 44.91  E-value: 2.36e-06
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1002243173  504 RAWTLCEVVKLVDGVARYGAGKWSEIRRLafssYSYRTSVDLKDKWRNLIR 554
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, ...
 505-553 7.71e-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: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 37.48  E-value: 7.71e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1002243173 505 AWTLCEVVKLVDGVARYGaGKWSEIRRLAFSsysyRTSVDLKDKWRNLI 553
Cdd:pfam00249   3 PWTPEEDELLLEAVEKLG-NRWKKIAKLLPG----RTDNQCKNRWQNYL 46
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 506-556 1.15e-03

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: 37.67  E-value: 1.15e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1002243173 506 WTLCEVVKLVDGVARYGaGKWSEIRrlafSSYSYRTSVDLKDKWRNLIRAS 556
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIA----KELGRRTPKQCFDRWRRKLNPK 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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH