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Conserved domains on  [gi|2414833358|ref|XP_052619412|]
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CST complex subunit STN1 isoform X1 [Peromyscus californicus insignis]

Protein Classification

single-stranded DNA-binding protein( domain architecture ID 10138995)

single-stranded DNA (ssDNA)-binding protein plays a key role in DNA replication, recombination, and repair

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
STN1_2 pfam09170
CST, complex subunit STN1, C terminal; STN1 is a component of the CST complex, a complex that ...
 205-371 7.07e-98

CST, complex subunit STN1, C terminal; STN1 is a component of the CST complex, a complex that binds to single-stranded DNA and is required for protecting telomeres from DNA degradation. The CST complex binds single-stranded DNA with high affinity in a sequence-independent manner, while isolated subunits bind DNA with low affinity on their own. In addition to telomere protection, the CST complex probably has a more general role in DNA metabolism at non-telomeric sites. This entry represents the C-terminal region of Stn1 which has two winged helix-turn-helix (wHTH) motifs, wHTH1 and wHTH2. wHTH1 is structurally similar to that in RPA32 with a large insertion between helices alpha2 and alpha3, unique to Stn1, that may allow interaction with a different set of proteins that function at telomeres such as Ctc1. wHTH2 is most similar to the DNA-binding wHTH motifs of the pur operon repressor and RepE replication initiator, but it does not bind double-stranded DNA.


:

Pssm-ID: 462701  Cd Length: 167  Bit Score: 287.66  E-value: 7.07e-98
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2414833358 205 AGLTSLLSEKIKEFLQDKKVQTFYQQELEMVESLQSLASQPVLHSACSDQVGSKSSTTSNTVHSVFKNAIQLLREKGLLF 284
Cdd:pfam09170   1 PGLVSLLSEKIKEFLLENKVQTFYQQELETVESLVSLASRPVQHSSCSQQVDSKGPSTSKQIHSLFKEAIQLLQEKGLVF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2414833358 285 QKDGGYDKLYYVTNKDKDLHQKIYQIVKEECQKPNHVEKGCHLMHILSCVHLNLRWDLNKAVLQQVLEFLEDQSDIVSTG 364
Cdd:pfam09170  81 QKDSSFDDLYYVTDQDKDLHKKILDIIREDCQKPKHAEKGCHFLHILSCVRQSYSPNLSEAVLQQVLDLLEDNSDIVSTM 160


                  ....*..
gi 2414833358 365 AHYYTAF 371
Cdd:pfam09170 161 EGYYTAF 167
hOBFC1_like cd04483
hOBFC1_like: A subfamily of OB folds similar to that found in human OB fold containing protein ...
 58-158 6.23e-36

hOBFC1_like: A subfamily of OB folds similar to that found in human OB fold containing protein 1 (hOBFC1). Members of this group belong to the Replication protein A subunit 2 (RPA2) family of OB folds. RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The OB fold domain of RPA2 has dual roles in ssDNA binding and trimerization.


:

Pssm-ID: 239929  Cd Length: 92  Bit Score: 126.01  E-value: 6.23e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2414833358  58 DIMGTVISVRERDAFYSYGVDDATGVVNCTCWKKGSNPESSpdpvAPSTArelsvTSQLKKLQETIEQKTKIEIGDVIRV 137
Cdd:cd04483     1 DILGTVVSRRERETFYSFGVDDGTGVVNCVCWKNLSYAEVS----SRSDA-----ARILKSALMALKQAKVLEIGDLLRV 71

                          90       100
                  ....*....|....*....|.
gi 2414833358 138 RGYVHMFREEREIRASMYYKV 158
Cdd:cd04483    72 RGSIRTYRGEREINASVVYKV 92
 
Name Accession Description Interval E-value
STN1_2 pfam09170
CST, complex subunit STN1, C terminal; STN1 is a component of the CST complex, a complex that ...
 205-371 7.07e-98

CST, complex subunit STN1, C terminal; STN1 is a component of the CST complex, a complex that binds to single-stranded DNA and is required for protecting telomeres from DNA degradation. The CST complex binds single-stranded DNA with high affinity in a sequence-independent manner, while isolated subunits bind DNA with low affinity on their own. In addition to telomere protection, the CST complex probably has a more general role in DNA metabolism at non-telomeric sites. This entry represents the C-terminal region of Stn1 which has two winged helix-turn-helix (wHTH) motifs, wHTH1 and wHTH2. wHTH1 is structurally similar to that in RPA32 with a large insertion between helices alpha2 and alpha3, unique to Stn1, that may allow interaction with a different set of proteins that function at telomeres such as Ctc1. wHTH2 is most similar to the DNA-binding wHTH motifs of the pur operon repressor and RepE replication initiator, but it does not bind double-stranded DNA.


Pssm-ID: 462701  Cd Length: 167  Bit Score: 287.66  E-value: 7.07e-98
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2414833358 205 AGLTSLLSEKIKEFLQDKKVQTFYQQELEMVESLQSLASQPVLHSACSDQVGSKSSTTSNTVHSVFKNAIQLLREKGLLF 284
Cdd:pfam09170   1 PGLVSLLSEKIKEFLLENKVQTFYQQELETVESLVSLASRPVQHSSCSQQVDSKGPSTSKQIHSLFKEAIQLLQEKGLVF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2414833358 285 QKDGGYDKLYYVTNKDKDLHQKIYQIVKEECQKPNHVEKGCHLMHILSCVHLNLRWDLNKAVLQQVLEFLEDQSDIVSTG 364
Cdd:pfam09170  81 QKDSSFDDLYYVTDQDKDLHKKILDIIREDCQKPKHAEKGCHFLHILSCVRQSYSPNLSEAVLQQVLDLLEDNSDIVSTM 160


                  ....*..
gi 2414833358 365 AHYYTAF 371
Cdd:pfam09170 161 EGYYTAF 167
hOBFC1_like cd04483
hOBFC1_like: A subfamily of OB folds similar to that found in human OB fold containing protein ...
 58-158 6.23e-36

hOBFC1_like: A subfamily of OB folds similar to that found in human OB fold containing protein 1 (hOBFC1). Members of this group belong to the Replication protein A subunit 2 (RPA2) family of OB folds. RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The OB fold domain of RPA2 has dual roles in ssDNA binding and trimerization.


Pssm-ID: 239929  Cd Length: 92  Bit Score: 126.01  E-value: 6.23e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2414833358  58 DIMGTVISVRERDAFYSYGVDDATGVVNCTCWKKGSNPESSpdpvAPSTArelsvTSQLKKLQETIEQKTKIEIGDVIRV 137
Cdd:cd04483     1 DILGTVVSRRERETFYSFGVDDGTGVVNCVCWKNLSYAEVS----SRSDA-----ARILKSALMALKQAKVLEIGDLLRV 71

                          90       100
                  ....*....|....*....|.
gi 2414833358 138 RGYVHMFREEREIRASMYYKV 158
Cdd:cd04483    72 RGSIRTYRGEREINASVVYKV 92
RFA2 COG5235
Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [DNA ...
 29-160 8.63e-05

Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [DNA replication, recombination, and repair];


Pssm-ID: 227560 [Multi-domain]  Cd Length: 258  Bit Score: 43.81  E-value: 8.63e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2414833358  29 LYIKDILEMKESHQiSGIYLYNGHPIRRVDIMGTVISVRERDAFYSYGVDDATGVVNCTCWKKGSNPEsspdpvapstar 108
Cdd:COG5235    42 VTIKQILSCDQDET-DSTFLVDSAEVTNVQFVGVVRNIKTSTTNSMFVIEDGTGSIEVRFWPGNSYEE------------ 108

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2414833358 109 elsvtsqlkklqetiEQKTKIEIGDVIRVRGYVHMFREEREIRASMYYKVDD 160
Cdd:COG5235   109 ---------------EQCKDLEEQNYVKVNGSLKTFNGKRSISASHISAIED 145
 
Name Accession Description Interval E-value
STN1_2 pfam09170
CST, complex subunit STN1, C terminal; STN1 is a component of the CST complex, a complex that ...
 205-371 7.07e-98

CST, complex subunit STN1, C terminal; STN1 is a component of the CST complex, a complex that binds to single-stranded DNA and is required for protecting telomeres from DNA degradation. The CST complex binds single-stranded DNA with high affinity in a sequence-independent manner, while isolated subunits bind DNA with low affinity on their own. In addition to telomere protection, the CST complex probably has a more general role in DNA metabolism at non-telomeric sites. This entry represents the C-terminal region of Stn1 which has two winged helix-turn-helix (wHTH) motifs, wHTH1 and wHTH2. wHTH1 is structurally similar to that in RPA32 with a large insertion between helices alpha2 and alpha3, unique to Stn1, that may allow interaction with a different set of proteins that function at telomeres such as Ctc1. wHTH2 is most similar to the DNA-binding wHTH motifs of the pur operon repressor and RepE replication initiator, but it does not bind double-stranded DNA.


Pssm-ID: 462701  Cd Length: 167  Bit Score: 287.66  E-value: 7.07e-98
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2414833358 205 AGLTSLLSEKIKEFLQDKKVQTFYQQELEMVESLQSLASQPVLHSACSDQVGSKSSTTSNTVHSVFKNAIQLLREKGLLF 284
Cdd:pfam09170   1 PGLVSLLSEKIKEFLLENKVQTFYQQELETVESLVSLASRPVQHSSCSQQVDSKGPSTSKQIHSLFKEAIQLLQEKGLVF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2414833358 285 QKDGGYDKLYYVTNKDKDLHQKIYQIVKEECQKPNHVEKGCHLMHILSCVHLNLRWDLNKAVLQQVLEFLEDQSDIVSTG 364
Cdd:pfam09170  81 QKDSSFDDLYYVTDQDKDLHKKILDIIREDCQKPKHAEKGCHFLHILSCVRQSYSPNLSEAVLQQVLDLLEDNSDIVSTM 160


                  ....*..
gi 2414833358 365 AHYYTAF 371
Cdd:pfam09170 161 EGYYTAF 167
hOBFC1_like cd04483
hOBFC1_like: A subfamily of OB folds similar to that found in human OB fold containing protein ...
 58-158 6.23e-36

hOBFC1_like: A subfamily of OB folds similar to that found in human OB fold containing protein 1 (hOBFC1). Members of this group belong to the Replication protein A subunit 2 (RPA2) family of OB folds. RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The OB fold domain of RPA2 has dual roles in ssDNA binding and trimerization.


Pssm-ID: 239929  Cd Length: 92  Bit Score: 126.01  E-value: 6.23e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2414833358  58 DIMGTVISVRERDAFYSYGVDDATGVVNCTCWKKGSNPESSpdpvAPSTArelsvTSQLKKLQETIEQKTKIEIGDVIRV 137
Cdd:cd04483     1 DILGTVVSRRERETFYSFGVDDGTGVVNCVCWKNLSYAEVS----SRSDA-----ARILKSALMALKQAKVLEIGDLLRV 71

                          90       100
                  ....*....|....*....|.
gi 2414833358 138 RGYVHMFREEREIRASMYYKV 158
Cdd:cd04483    72 RGSIRTYRGEREINASVVYKV 92
RFA2 COG5235
Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [DNA ...
 29-160 8.63e-05

Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [DNA replication, recombination, and repair];


Pssm-ID: 227560 [Multi-domain]  Cd Length: 258  Bit Score: 43.81  E-value: 8.63e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2414833358  29 LYIKDILEMKESHQiSGIYLYNGHPIRRVDIMGTVISVRERDAFYSYGVDDATGVVNCTCWKKGSNPEsspdpvapstar 108
Cdd:COG5235    42 VTIKQILSCDQDET-DSTFLVDSAEVTNVQFVGVVRNIKTSTTNSMFVIEDGTGSIEVRFWPGNSYEE------------ 108

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2414833358 109 elsvtsqlkklqetiEQKTKIEIGDVIRVRGYVHMFREEREIRASMYYKVDD 160
Cdd:COG5235   109 ---------------EQCKDLEEQNYVKVNGSLKTFNGKRSISASHISAIED 145
 
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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