breast cancer type 2 susceptibility protein homolog isoform X1 [Rattus norvegicus]
single-stranded DNA-binding protein( domain architecture ID 11101627)
single-stranded DNA (ssDNA)-binding protein plays a key role in DNA replication, recombination, and repair
List of domain hits
Name | Accession | Description | Interval | E-value | |||||
BRCA2DBD_OB2 | cd04494 | BRCA2DBD_OB2: A subfamily of OB folds corresponding to the second OB fold (OB2) of the ... |
2734-3012 | 3.39e-122 | |||||
BRCA2DBD_OB2: A subfamily of OB folds corresponding to the second OB fold (OB2) of the 800-amino acid C-terminal ssDNA binding domain (DBD) of BRCA2 (breast cancer susceptibility gene 2) protein, called BRCA2DBD. BRCA2 participates in homologous recombination-mediated repair of double-strand DNA breaks. It stimulates the displacement of Replication protein A (RPA), the most abundant eukaryotic ssDNA binding protein. It also facilitates filament formation. Mutations that map throughout the BRCA2 protein are associated with breast cancer susceptibility. BRCA2 is a large nuclear protein and its most conserved region is the C-terminal BRCA2DBD. BRCA2DBD binds ssDNA in vitro, and is composed of five structural domains, three of which are OB folds (OB1, OB2, and OB3). BRCA2DBD OB2 and OB3 are arranged in tandem, and their mode of binding can be considered qualitatively similar to two OB folds of RPA1, DBD-A and DBD-B (the major DBDs of RPA). : Pssm-ID: 239940 Cd Length: 251 Bit Score: 386.03 E-value: 3.39e-122
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BRCA-2_helical | pfam09169 | BRCA2, helical; Members of this family adopt a helical structure, consisting of a four-helix ... |
2411-2597 | 4.45e-103 | |||||
BRCA2, helical; Members of this family adopt a helical structure, consisting of a four-helix cluster core (alpha 1, alpha 8, alpha 9, alpha 10) and two successive beta-hairpins (beta 1 to beta 4). An approx. 50-amino acid segment that contains four short helices (alpha 2 to alpha 4), meanders around the surface of the core structure. In BRCA2, the alpha 9 and alpha 10 helices pack with BRCA-2_OB1 (pfam09103) through van der Waals contacts involving hydrophobic and aromatic residues, and also through side-chain and backbone hydrogen bonds. The domain binds the 70-amino acid DSS1 (deleted in split-hand/split foot syndrome) protein, which was originally identified as one of three genes that map to a 1.5-Mb locus deleted in an inherited developmental malformation syndrome. : Pssm-ID: 462700 Cd Length: 187 Bit Score: 328.53 E-value: 4.45e-103
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BRCA-2_OB1 | pfam09103 | BRCA2, oligonucleotide/oligosaccharide-binding, domain 1; Members of this family assume an OB ... |
2600-2726 | 6.09e-64 | |||||
BRCA2, oligonucleotide/oligosaccharide-binding, domain 1; Members of this family assume an OB fold, which consists of a highly curved five-stranded beta-sheet that closes on itself to form a beta-barrel. OB1 has a shallow groove formed by one face of the curved sheet and is demarcated by two loops, one between beta 1 and beta 2 and another between beta 4 and beta 5, which allows for weak single strand DNA binding. The domain also binds the 70-amino acid DSS1 (deleted in split-hand/split foot syndrome) protein, which was originally identified as one of three genes that map to a 1.5-Mb locus deleted in an inherited developmental malformation syndrome. : Pssm-ID: 462678 Cd Length: 123 Bit Score: 213.58 E-value: 6.09e-64
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BRCA-2_OB3 | pfam09104 | BRCA2, oligonucleotide/oligosaccharide-binding, domain 3; Members of this family assume an OB ... |
3010-3142 | 4.29e-55 | |||||
BRCA2, oligonucleotide/oligosaccharide-binding, domain 3; Members of this family assume an OB fold, which consists of a highly curved five-stranded beta-sheet that closes on itself to form a beta-barrel. OB3 has a pronounced groove formed by one face of the curved sheet and is demarcated by two loops, one between beta 1 and beta 2 and another between beta 4 and beta 5, which allows for strong ssDNA binding. : Pssm-ID: 462679 Cd Length: 139 Bit Score: 189.02 E-value: 4.29e-55
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BRCA2 | pfam00634 | BRCA2 repeat; The alignment covers only the most conserved region of the repeat. |
1200-1228 | 6.98e-08 | |||||
BRCA2 repeat; The alignment covers only the most conserved region of the repeat. : Pssm-ID: 459881 Cd Length: 29 Bit Score: 50.52 E-value: 6.98e-08
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BRCA2 | pfam00634 | BRCA2 repeat; The alignment covers only the most conserved region of the repeat. |
1408-1436 | 2.24e-07 | |||||
BRCA2 repeat; The alignment covers only the most conserved region of the repeat. : Pssm-ID: 459881 Cd Length: 29 Bit Score: 48.98 E-value: 2.24e-07
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BRCA2 | pfam00634 | BRCA2 repeat; The alignment covers only the most conserved region of the repeat. |
1942-1970 | 3.87e-07 | |||||
BRCA2 repeat; The alignment covers only the most conserved region of the repeat. : Pssm-ID: 459881 Cd Length: 29 Bit Score: 48.60 E-value: 3.87e-07
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BRCA2 | pfam00634 | BRCA2 repeat; The alignment covers only the most conserved region of the repeat. |
1641-1669 | 1.54e-05 | |||||
BRCA2 repeat; The alignment covers only the most conserved region of the repeat. : Pssm-ID: 459881 Cd Length: 29 Bit Score: 43.98 E-value: 1.54e-05
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BRCA2 | pfam00634 | BRCA2 repeat; The alignment covers only the most conserved region of the repeat. |
987-1015 | 5.78e-05 | |||||
BRCA2 repeat; The alignment covers only the most conserved region of the repeat. : Pssm-ID: 459881 Cd Length: 29 Bit Score: 42.43 E-value: 5.78e-05
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BRCA2 | pfam00634 | BRCA2 repeat; The alignment covers only the most conserved region of the repeat. |
1508-1534 | 6.31e-05 | |||||
BRCA2 repeat; The alignment covers only the most conserved region of the repeat. : Pssm-ID: 459881 Cd Length: 29 Bit Score: 42.05 E-value: 6.31e-05
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Name | Accession | Description | Interval | E-value | |||||
BRCA2DBD_OB2 | cd04494 | BRCA2DBD_OB2: A subfamily of OB folds corresponding to the second OB fold (OB2) of the ... |
2734-3012 | 3.39e-122 | |||||
BRCA2DBD_OB2: A subfamily of OB folds corresponding to the second OB fold (OB2) of the 800-amino acid C-terminal ssDNA binding domain (DBD) of BRCA2 (breast cancer susceptibility gene 2) protein, called BRCA2DBD. BRCA2 participates in homologous recombination-mediated repair of double-strand DNA breaks. It stimulates the displacement of Replication protein A (RPA), the most abundant eukaryotic ssDNA binding protein. It also facilitates filament formation. Mutations that map throughout the BRCA2 protein are associated with breast cancer susceptibility. BRCA2 is a large nuclear protein and its most conserved region is the C-terminal BRCA2DBD. BRCA2DBD binds ssDNA in vitro, and is composed of five structural domains, three of which are OB folds (OB1, OB2, and OB3). BRCA2DBD OB2 and OB3 are arranged in tandem, and their mode of binding can be considered qualitatively similar to two OB folds of RPA1, DBD-A and DBD-B (the major DBDs of RPA). Pssm-ID: 239940 Cd Length: 251 Bit Score: 386.03 E-value: 3.39e-122
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BRCA-2_helical | pfam09169 | BRCA2, helical; Members of this family adopt a helical structure, consisting of a four-helix ... |
2411-2597 | 4.45e-103 | |||||
BRCA2, helical; Members of this family adopt a helical structure, consisting of a four-helix cluster core (alpha 1, alpha 8, alpha 9, alpha 10) and two successive beta-hairpins (beta 1 to beta 4). An approx. 50-amino acid segment that contains four short helices (alpha 2 to alpha 4), meanders around the surface of the core structure. In BRCA2, the alpha 9 and alpha 10 helices pack with BRCA-2_OB1 (pfam09103) through van der Waals contacts involving hydrophobic and aromatic residues, and also through side-chain and backbone hydrogen bonds. The domain binds the 70-amino acid DSS1 (deleted in split-hand/split foot syndrome) protein, which was originally identified as one of three genes that map to a 1.5-Mb locus deleted in an inherited developmental malformation syndrome. Pssm-ID: 462700 Cd Length: 187 Bit Score: 328.53 E-value: 4.45e-103
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BRCA-2_OB1 | pfam09103 | BRCA2, oligonucleotide/oligosaccharide-binding, domain 1; Members of this family assume an OB ... |
2600-2726 | 6.09e-64 | |||||
BRCA2, oligonucleotide/oligosaccharide-binding, domain 1; Members of this family assume an OB fold, which consists of a highly curved five-stranded beta-sheet that closes on itself to form a beta-barrel. OB1 has a shallow groove formed by one face of the curved sheet and is demarcated by two loops, one between beta 1 and beta 2 and another between beta 4 and beta 5, which allows for weak single strand DNA binding. The domain also binds the 70-amino acid DSS1 (deleted in split-hand/split foot syndrome) protein, which was originally identified as one of three genes that map to a 1.5-Mb locus deleted in an inherited developmental malformation syndrome. Pssm-ID: 462678 Cd Length: 123 Bit Score: 213.58 E-value: 6.09e-64
|
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BRCA-2_OB3 | pfam09104 | BRCA2, oligonucleotide/oligosaccharide-binding, domain 3; Members of this family assume an OB ... |
3010-3142 | 4.29e-55 | |||||
BRCA2, oligonucleotide/oligosaccharide-binding, domain 3; Members of this family assume an OB fold, which consists of a highly curved five-stranded beta-sheet that closes on itself to form a beta-barrel. OB3 has a pronounced groove formed by one face of the curved sheet and is demarcated by two loops, one between beta 1 and beta 2 and another between beta 4 and beta 5, which allows for strong ssDNA binding. Pssm-ID: 462679 Cd Length: 139 Bit Score: 189.02 E-value: 4.29e-55
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BRCA2DBD_OB1 | cd04493 | BRCA2DBD_OB1: A subfamily of OB folds corresponding to the first OB fold (OB1) of the ... |
2612-2724 | 3.74e-47 | |||||
BRCA2DBD_OB1: A subfamily of OB folds corresponding to the first OB fold (OB1) of the 800-amino acid C-terminal ssDNA binding domain (DBD) of BRCA2 (breast cancer susceptibility gene 2) protein, called BRCA2DBD. BRCA2 participates in homologous recombination-mediated repair of double-strand DNA breaks. It stimulates the displacement of Replication protein A (RPA), the most abundant eukaryotic ssDNA binding protein. It also facilitates filament formation. Mutations that map throughout the BRCA2 protein are associated with breast cancer susceptibility. BRCA2 is a large nuclear protein and its most conserved region is the C-terminal BRCA2DBD. BRCA2DBD binds ssDNA in vitro, and is composed of five structural domains, three of which are OB folds (OB1, OB2, and OB3). BRCA2DBD OB2 and OB3 are arranged in tandem, and their mode of binding can be considered qualitatively similar to two OB folds of RPA1, DBD-A and DBD-B (the major DBDs of RPA). BRCA2DBD OB1 binds DNA weakly. Pssm-ID: 239939 Cd Length: 100 Bit Score: 164.71 E-value: 3.74e-47
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BRCA2DBD_OB3 | cd04495 | BRCA2DBD_OB3: A subfamily of OB folds corresponding to the third OB fold (OB3) of the ... |
3042-3124 | 1.98e-37 | |||||
BRCA2DBD_OB3: A subfamily of OB folds corresponding to the third OB fold (OB3) of the 800-amino acid C-terminal ssDNA binding domain (DBD) of BRCA2 (breast cancer susceptibility gene 2) protein, called BRCA2DBD. BRCA2 participates in homologous recombination-mediated repair of double-strand DNA breaks. It stimulates the displacement of Replication protein A (RPA), the most abundant eukaryotic ssDNA binding protein. It also facilitates filament formation. Mutations that map throughout the BRCA2 protein are associated with breast cancer susceptibility. BRCA2 is a large nuclear protein and its most conserved region is the C-terminal BRCA2DBD. BRCA2DBD binds ssDNA in vitro, and is composed of five structural domains, three of which are OB folds (OB1, OB2, and OB3). BRCA2DBD OB2 and OB3 are arranged in tandem, and their mode of binding can be considered qualitatively similar to two OB folds of RPA1, DBD-A and DBD-B (the major DBDs of RPA). Pssm-ID: 239941 Cd Length: 100 Bit Score: 137.15 E-value: 1.98e-37
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Tower | pfam09121 | Tower; Members of this family adopt a secondary structure consisting of a pair of long, ... |
2761-2802 | 3.34e-16 | |||||
Tower; Members of this family adopt a secondary structure consisting of a pair of long, antiparallel alpha-helices (the stem) that support a three-helix bundle (3HB) at their end. The 3HB contains a helix-turn-helix motif and is similar to the DNA binding domains of the bacterial site-specific recombinases, and of eukaryotic Myb and homeodomain transcription factors. The Tower domain has an important role in the tumour suppressor function of BRCA2, and is essential for appropriate binding of BRCA2 to DNA. Pssm-ID: 462684 Cd Length: 42 Bit Score: 74.71 E-value: 3.34e-16
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BRCA2 | pfam00634 | BRCA2 repeat; The alignment covers only the most conserved region of the repeat. |
1200-1228 | 6.98e-08 | |||||
BRCA2 repeat; The alignment covers only the most conserved region of the repeat. Pssm-ID: 459881 Cd Length: 29 Bit Score: 50.52 E-value: 6.98e-08
|
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BRCA2 | pfam00634 | BRCA2 repeat; The alignment covers only the most conserved region of the repeat. |
1408-1436 | 2.24e-07 | |||||
BRCA2 repeat; The alignment covers only the most conserved region of the repeat. Pssm-ID: 459881 Cd Length: 29 Bit Score: 48.98 E-value: 2.24e-07
|
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BRCA2 | pfam00634 | BRCA2 repeat; The alignment covers only the most conserved region of the repeat. |
1942-1970 | 3.87e-07 | |||||
BRCA2 repeat; The alignment covers only the most conserved region of the repeat. Pssm-ID: 459881 Cd Length: 29 Bit Score: 48.60 E-value: 3.87e-07
|
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BRCA2 | pfam00634 | BRCA2 repeat; The alignment covers only the most conserved region of the repeat. |
1641-1669 | 1.54e-05 | |||||
BRCA2 repeat; The alignment covers only the most conserved region of the repeat. Pssm-ID: 459881 Cd Length: 29 Bit Score: 43.98 E-value: 1.54e-05
|
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BRCA2 | pfam00634 | BRCA2 repeat; The alignment covers only the most conserved region of the repeat. |
987-1015 | 5.78e-05 | |||||
BRCA2 repeat; The alignment covers only the most conserved region of the repeat. Pssm-ID: 459881 Cd Length: 29 Bit Score: 42.43 E-value: 5.78e-05
|
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BRCA2 | pfam00634 | BRCA2 repeat; The alignment covers only the most conserved region of the repeat. |
1508-1534 | 6.31e-05 | |||||
BRCA2 repeat; The alignment covers only the most conserved region of the repeat. Pssm-ID: 459881 Cd Length: 29 Bit Score: 42.05 E-value: 6.31e-05
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Name | Accession | Description | Interval | E-value | |||||
BRCA2DBD_OB2 | cd04494 | BRCA2DBD_OB2: A subfamily of OB folds corresponding to the second OB fold (OB2) of the ... |
2734-3012 | 3.39e-122 | |||||
BRCA2DBD_OB2: A subfamily of OB folds corresponding to the second OB fold (OB2) of the 800-amino acid C-terminal ssDNA binding domain (DBD) of BRCA2 (breast cancer susceptibility gene 2) protein, called BRCA2DBD. BRCA2 participates in homologous recombination-mediated repair of double-strand DNA breaks. It stimulates the displacement of Replication protein A (RPA), the most abundant eukaryotic ssDNA binding protein. It also facilitates filament formation. Mutations that map throughout the BRCA2 protein are associated with breast cancer susceptibility. BRCA2 is a large nuclear protein and its most conserved region is the C-terminal BRCA2DBD. BRCA2DBD binds ssDNA in vitro, and is composed of five structural domains, three of which are OB folds (OB1, OB2, and OB3). BRCA2DBD OB2 and OB3 are arranged in tandem, and their mode of binding can be considered qualitatively similar to two OB folds of RPA1, DBD-A and DBD-B (the major DBDs of RPA). Pssm-ID: 239940 Cd Length: 251 Bit Score: 386.03 E-value: 3.39e-122
|
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BRCA-2_helical | pfam09169 | BRCA2, helical; Members of this family adopt a helical structure, consisting of a four-helix ... |
2411-2597 | 4.45e-103 | |||||
BRCA2, helical; Members of this family adopt a helical structure, consisting of a four-helix cluster core (alpha 1, alpha 8, alpha 9, alpha 10) and two successive beta-hairpins (beta 1 to beta 4). An approx. 50-amino acid segment that contains four short helices (alpha 2 to alpha 4), meanders around the surface of the core structure. In BRCA2, the alpha 9 and alpha 10 helices pack with BRCA-2_OB1 (pfam09103) through van der Waals contacts involving hydrophobic and aromatic residues, and also through side-chain and backbone hydrogen bonds. The domain binds the 70-amino acid DSS1 (deleted in split-hand/split foot syndrome) protein, which was originally identified as one of three genes that map to a 1.5-Mb locus deleted in an inherited developmental malformation syndrome. Pssm-ID: 462700 Cd Length: 187 Bit Score: 328.53 E-value: 4.45e-103
|
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BRCA-2_OB1 | pfam09103 | BRCA2, oligonucleotide/oligosaccharide-binding, domain 1; Members of this family assume an OB ... |
2600-2726 | 6.09e-64 | |||||
BRCA2, oligonucleotide/oligosaccharide-binding, domain 1; Members of this family assume an OB fold, which consists of a highly curved five-stranded beta-sheet that closes on itself to form a beta-barrel. OB1 has a shallow groove formed by one face of the curved sheet and is demarcated by two loops, one between beta 1 and beta 2 and another between beta 4 and beta 5, which allows for weak single strand DNA binding. The domain also binds the 70-amino acid DSS1 (deleted in split-hand/split foot syndrome) protein, which was originally identified as one of three genes that map to a 1.5-Mb locus deleted in an inherited developmental malformation syndrome. Pssm-ID: 462678 Cd Length: 123 Bit Score: 213.58 E-value: 6.09e-64
|
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BRCA-2_OB3 | pfam09104 | BRCA2, oligonucleotide/oligosaccharide-binding, domain 3; Members of this family assume an OB ... |
3010-3142 | 4.29e-55 | |||||
BRCA2, oligonucleotide/oligosaccharide-binding, domain 3; Members of this family assume an OB fold, which consists of a highly curved five-stranded beta-sheet that closes on itself to form a beta-barrel. OB3 has a pronounced groove formed by one face of the curved sheet and is demarcated by two loops, one between beta 1 and beta 2 and another between beta 4 and beta 5, which allows for strong ssDNA binding. Pssm-ID: 462679 Cd Length: 139 Bit Score: 189.02 E-value: 4.29e-55
|
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BRCA2DBD_OB1 | cd04493 | BRCA2DBD_OB1: A subfamily of OB folds corresponding to the first OB fold (OB1) of the ... |
2612-2724 | 3.74e-47 | |||||
BRCA2DBD_OB1: A subfamily of OB folds corresponding to the first OB fold (OB1) of the 800-amino acid C-terminal ssDNA binding domain (DBD) of BRCA2 (breast cancer susceptibility gene 2) protein, called BRCA2DBD. BRCA2 participates in homologous recombination-mediated repair of double-strand DNA breaks. It stimulates the displacement of Replication protein A (RPA), the most abundant eukaryotic ssDNA binding protein. It also facilitates filament formation. Mutations that map throughout the BRCA2 protein are associated with breast cancer susceptibility. BRCA2 is a large nuclear protein and its most conserved region is the C-terminal BRCA2DBD. BRCA2DBD binds ssDNA in vitro, and is composed of five structural domains, three of which are OB folds (OB1, OB2, and OB3). BRCA2DBD OB2 and OB3 are arranged in tandem, and their mode of binding can be considered qualitatively similar to two OB folds of RPA1, DBD-A and DBD-B (the major DBDs of RPA). BRCA2DBD OB1 binds DNA weakly. Pssm-ID: 239939 Cd Length: 100 Bit Score: 164.71 E-value: 3.74e-47
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BRCA2DBD_OB3 | cd04495 | BRCA2DBD_OB3: A subfamily of OB folds corresponding to the third OB fold (OB3) of the ... |
3042-3124 | 1.98e-37 | |||||
BRCA2DBD_OB3: A subfamily of OB folds corresponding to the third OB fold (OB3) of the 800-amino acid C-terminal ssDNA binding domain (DBD) of BRCA2 (breast cancer susceptibility gene 2) protein, called BRCA2DBD. BRCA2 participates in homologous recombination-mediated repair of double-strand DNA breaks. It stimulates the displacement of Replication protein A (RPA), the most abundant eukaryotic ssDNA binding protein. It also facilitates filament formation. Mutations that map throughout the BRCA2 protein are associated with breast cancer susceptibility. BRCA2 is a large nuclear protein and its most conserved region is the C-terminal BRCA2DBD. BRCA2DBD binds ssDNA in vitro, and is composed of five structural domains, three of which are OB folds (OB1, OB2, and OB3). BRCA2DBD OB2 and OB3 are arranged in tandem, and their mode of binding can be considered qualitatively similar to two OB folds of RPA1, DBD-A and DBD-B (the major DBDs of RPA). Pssm-ID: 239941 Cd Length: 100 Bit Score: 137.15 E-value: 1.98e-37
|
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Tower | pfam09121 | Tower; Members of this family adopt a secondary structure consisting of a pair of long, ... |
2761-2802 | 3.34e-16 | |||||
Tower; Members of this family adopt a secondary structure consisting of a pair of long, antiparallel alpha-helices (the stem) that support a three-helix bundle (3HB) at their end. The 3HB contains a helix-turn-helix motif and is similar to the DNA binding domains of the bacterial site-specific recombinases, and of eukaryotic Myb and homeodomain transcription factors. The Tower domain has an important role in the tumour suppressor function of BRCA2, and is essential for appropriate binding of BRCA2 to DNA. Pssm-ID: 462684 Cd Length: 42 Bit Score: 74.71 E-value: 3.34e-16
|
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BRCA2 | pfam00634 | BRCA2 repeat; The alignment covers only the most conserved region of the repeat. |
1200-1228 | 6.98e-08 | |||||
BRCA2 repeat; The alignment covers only the most conserved region of the repeat. Pssm-ID: 459881 Cd Length: 29 Bit Score: 50.52 E-value: 6.98e-08
|
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BRCA2 | pfam00634 | BRCA2 repeat; The alignment covers only the most conserved region of the repeat. |
1408-1436 | 2.24e-07 | |||||
BRCA2 repeat; The alignment covers only the most conserved region of the repeat. Pssm-ID: 459881 Cd Length: 29 Bit Score: 48.98 E-value: 2.24e-07
|
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BRCA2 | pfam00634 | BRCA2 repeat; The alignment covers only the most conserved region of the repeat. |
1942-1970 | 3.87e-07 | |||||
BRCA2 repeat; The alignment covers only the most conserved region of the repeat. Pssm-ID: 459881 Cd Length: 29 Bit Score: 48.60 E-value: 3.87e-07
|
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BRCA2 | pfam00634 | BRCA2 repeat; The alignment covers only the most conserved region of the repeat. |
1641-1669 | 1.54e-05 | |||||
BRCA2 repeat; The alignment covers only the most conserved region of the repeat. Pssm-ID: 459881 Cd Length: 29 Bit Score: 43.98 E-value: 1.54e-05
|
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BRCA2 | pfam00634 | BRCA2 repeat; The alignment covers only the most conserved region of the repeat. |
987-1015 | 5.78e-05 | |||||
BRCA2 repeat; The alignment covers only the most conserved region of the repeat. Pssm-ID: 459881 Cd Length: 29 Bit Score: 42.43 E-value: 5.78e-05
|
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BRCA2 | pfam00634 | BRCA2 repeat; The alignment covers only the most conserved region of the repeat. |
1508-1534 | 6.31e-05 | |||||
BRCA2 repeat; The alignment covers only the most conserved region of the repeat. Pssm-ID: 459881 Cd Length: 29 Bit Score: 42.05 E-value: 6.31e-05
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Blast search parameters | ||||
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