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Conserved domains on  [gi|1039017504|gb|ANM66869|]
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BREAST CANCER 2 like 2A [Arabidopsis thaliana]

Protein Classification

Graphical summary

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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 ...
 755-983 2.12e-92

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: 293.59  E-value: 2.12e-92
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039017504 755 ALNCIKCNGGPVPKTLAGIKRIYPILYKERLGEKKSIVRSERIESRIIQLHNQRRSALVEGIMCEYQRGINGVH------ 828
Cdd:cd04494     1 PLSSLYDSGGLVGCVDVIILRVYPLQWVEKTSEGGSVFRSERAEEREARLHAQRQQKKLEALFSKIQEEFEKEEednnqr 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039017504 829 --------SQNDTDSEEGAKIFKLLETAAEPEFLMAEMSPEQLRSFTTYKAKF----EAAQQMRKEKSVAETLEDAGLGE 896
Cdd:cd04494    81 rprsrtrtRQNVTDLQDGAELYEALEAAADPSFLEAELSEEQLEALSNYQQLQnekkQARLQEEFRKAVEEALKEEGLSK 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039017504 897 RNVTPFMRIRLVGLTSlsyegeHNPKEGIVTIWDPTERQRTELTEGKIYMMKGLVPINSDS----EILYLHARGsSSRWQ 972
Cdd:cd04494   161 RDVTPVWKLRVTDYRS------KPEKSGLLSIWRPTEDLRSLLTEGKRYRIYGLATSNSKKrsgnEEVQLTATK-KTRYQ 233

                         250
                  ....*....|.
gi 1039017504 973 PLSPKDSENFQ 983
Cdd:cd04494   234 PLPVSQRELFQ 244
BRCA-2_OB1 pfam09103
BRCA2, oligonucleotide/oligosaccharide-binding, domain 1; Members of this family assume an OB ...
 624-748 6.56e-52

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: 177.76  E-value: 6.56e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039017504 624 SAIKRILSGDAPASSMMVLCISAINPKTDNDSQEAHCSDSCSNVKVELTDGWYSMNAALDVVLTKQLNAGKLFVGQKLRI 703
Cdd:pfam09103   1 SALRKILERDDSASKPMVLCVSAIISSESNSEETGSGTVDNTKAILELTDGWYSIKAVLDAPLTRLVRRGKIRVGQKLAI 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1039017504 704 LGAGLSGWATPTSPLEAviSSTICLLLNINGTYRAHWADRLGFCK 748
Cdd:pfam09103  81 CGAELVGSKEPCSPLEA--PDSVRLKISANSTRRARWDAKLGFQR 123
BRCA-2_helical super family cl20058
BRCA2, helical; Members of this family adopt a helical structure, consisting of a four-helix ...
 524-620 6.44e-10

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.


The actual alignment was detected with superfamily member pfam09169:

Pssm-ID: 462700  Cd Length: 187  Bit Score: 59.67  E-value: 6.44e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039017504 524 VPDHVRRIKSSNADKYVFCDE------------------------SSSNKVGAETFLQML-AESGASLQHASRKWVTNHY 578
Cdd:pfam09169  65 VCKVSLIIASENAESFQFFDDdffgkefllngggiqladggllipNDGGVAGKEEFYRALcDTPGVDPKLISAWWVYNHY 144

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1039017504 579 RWIVWKLACYDIYYPAKCRGNFLTITNVLEELKYRYEREVNH 620
Cdd:pfam09169 145 RWIVWKLAAMERFFPKEFGRRCLTPERVLLQLKYRYDVEIDK 186
BRCA2 pfam00634
BRCA2 repeat; The alignment covers only the most conserved region of the repeat.
 260-288 5.34e-06

BRCA2 repeat; The alignment covers only the most conserved region of the repeat.


:

Pssm-ID: 459881  Cd Length: 29  Bit Score: 43.59  E-value: 5.34e-06
                          10        20
                  ....*....|....*....|....*....
gi 1039017504 260 PPTKFQTAGGKSLSVSAEALKRARNLLGD 288
Cdd:pfam00634   1 SFLGFQTASGKKISVSEESLQKAKKLFRD 29
BRCA2 pfam00634
BRCA2 repeat; The alignment covers only the most conserved region of the repeat.
 166-193 2.11e-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: 2.11e-05
                          10        20
                  ....*....|....*....|....*...
gi 1039017504 166 SNSLFQTASNKKVNVSSAGLARAKALLG 193
Cdd:pfam00634   1 SFLGFQTASGKKISVSEESLQKAKKLFR 28
BRCA2 super family cl02912
BRCA2 repeat; The alignment covers only the most conserved region of the repeat.
 122-146 8.19e-04

BRCA2 repeat; The alignment covers only the most conserved region of the repeat.


The actual alignment was detected with superfamily member pfam00634:

Pssm-ID: 459881  Cd Length: 29  Bit Score: 37.43  E-value: 8.19e-04
                          10        20
                  ....*....|....*....|....*
gi 1039017504 122 MFRTASGKSVPLKESSIAKAMSILG 146
Cdd:pfam00634   4 GFQTASGKKISVSEESLQKAKKLFR 28
BRCA2 super family cl02912
BRCA2 repeat; The alignment covers only the most conserved region of the repeat.
 69-94 5.30e-03

BRCA2 repeat; The alignment covers only the most conserved region of the repeat.


The actual alignment was detected with superfamily member pfam00634:

Pssm-ID: 459881  Cd Length: 29  Bit Score: 35.12  E-value: 5.30e-03
                          10        20
                  ....*....|....*....|....*.
gi 1039017504  69 MFRTGLGKSVVLKESSIAKAKSILAE 94
Cdd:pfam00634   4 GFQTASGKKISVSEESLQKAKKLFRD 29
 
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 ...
 755-983 2.12e-92

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: 293.59  E-value: 2.12e-92
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039017504 755 ALNCIKCNGGPVPKTLAGIKRIYPILYKERLGEKKSIVRSERIESRIIQLHNQRRSALVEGIMCEYQRGINGVH------ 828
Cdd:cd04494     1 PLSSLYDSGGLVGCVDVIILRVYPLQWVEKTSEGGSVFRSERAEEREARLHAQRQQKKLEALFSKIQEEFEKEEednnqr 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039017504 829 --------SQNDTDSEEGAKIFKLLETAAEPEFLMAEMSPEQLRSFTTYKAKF----EAAQQMRKEKSVAETLEDAGLGE 896
Cdd:cd04494    81 rprsrtrtRQNVTDLQDGAELYEALEAAADPSFLEAELSEEQLEALSNYQQLQnekkQARLQEEFRKAVEEALKEEGLSK 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039017504 897 RNVTPFMRIRLVGLTSlsyegeHNPKEGIVTIWDPTERQRTELTEGKIYMMKGLVPINSDS----EILYLHARGsSSRWQ 972
Cdd:cd04494   161 RDVTPVWKLRVTDYRS------KPEKSGLLSIWRPTEDLRSLLTEGKRYRIYGLATSNSKKrsgnEEVQLTATK-KTRYQ 233

                         250
                  ....*....|.
gi 1039017504 973 PLSPKDSENFQ 983
Cdd:cd04494   234 PLPVSQRELFQ 244
BRCA-2_OB1 pfam09103
BRCA2, oligonucleotide/oligosaccharide-binding, domain 1; Members of this family assume an OB ...
 624-748 6.56e-52

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: 177.76  E-value: 6.56e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039017504 624 SAIKRILSGDAPASSMMVLCISAINPKTDNDSQEAHCSDSCSNVKVELTDGWYSMNAALDVVLTKQLNAGKLFVGQKLRI 703
Cdd:pfam09103   1 SALRKILERDDSASKPMVLCVSAIISSESNSEETGSGTVDNTKAILELTDGWYSIKAVLDAPLTRLVRRGKIRVGQKLAI 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1039017504 704 LGAGLSGWATPTSPLEAviSSTICLLLNINGTYRAHWADRLGFCK 748
Cdd:pfam09103  81 CGAELVGSKEPCSPLEA--PDSVRLKISANSTRRARWDAKLGFQR 123
BRCA2DBD_OB1 cd04493
BRCA2DBD_OB1: A subfamily of OB folds corresponding to the first OB fold (OB1) of the ...
 636-746 1.90e-39

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: 141.21  E-value: 1.90e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039017504 636 ASSMMVLCISAINPKTDndsqeahcsDSCSNVKVELTDGWYSMNAALDVVLTKQLNAGKLFVGQKLRILGAGLSGWATPT 715
Cdd:cd04493     1 ASRLMVLCVSGINSEER---------LSPHMPIIELTDGWYSIRAQLDPPLTNLVRKGKLRVGQKLRICGAELLGSANPC 71

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1039017504 716 SPLEAviSSTICLLLNINGTYRAHWADRLGF 746
Cdd:cd04493    72 SPLEA--PDSVRLKINANSTRRARWDARLGF 100
BRCA-2_helical pfam09169
BRCA2, helical; Members of this family adopt a helical structure, consisting of a four-helix ...
 524-620 6.44e-10

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: 59.67  E-value: 6.44e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039017504 524 VPDHVRRIKSSNADKYVFCDE------------------------SSSNKVGAETFLQML-AESGASLQHASRKWVTNHY 578
Cdd:pfam09169  65 VCKVSLIIASENAESFQFFDDdffgkefllngggiqladggllipNDGGVAGKEEFYRALcDTPGVDPKLISAWWVYNHY 144

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1039017504 579 RWIVWKLACYDIYYPAKCRGNFLTITNVLEELKYRYEREVNH 620
Cdd:pfam09169 145 RWIVWKLAAMERFFPKEFGRRCLTPERVLLQLKYRYDVEIDK 186
BRCA2 pfam00634
BRCA2 repeat; The alignment covers only the most conserved region of the repeat.
 260-288 5.34e-06

BRCA2 repeat; The alignment covers only the most conserved region of the repeat.


Pssm-ID: 459881  Cd Length: 29  Bit Score: 43.59  E-value: 5.34e-06
                          10        20
                  ....*....|....*....|....*....
gi 1039017504 260 PPTKFQTAGGKSLSVSAEALKRARNLLGD 288
Cdd:pfam00634   1 SFLGFQTASGKKISVSEESLQKAKKLFRD 29
BRCA2 pfam00634
BRCA2 repeat; The alignment covers only the most conserved region of the repeat.
 166-193 2.11e-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: 2.11e-05
                          10        20
                  ....*....|....*....|....*...
gi 1039017504 166 SNSLFQTASNKKVNVSSAGLARAKALLG 193
Cdd:pfam00634   1 SFLGFQTASGKKISVSEESLQKAKKLFR 28
BRCA2 pfam00634
BRCA2 repeat; The alignment covers only the most conserved region of the repeat.
 122-146 8.19e-04

BRCA2 repeat; The alignment covers only the most conserved region of the repeat.


Pssm-ID: 459881  Cd Length: 29  Bit Score: 37.43  E-value: 8.19e-04
                          10        20
                  ....*....|....*....|....*
gi 1039017504 122 MFRTASGKSVPLKESSIAKAMSILG 146
Cdd:pfam00634   4 GFQTASGKKISVSEESLQKAKKLFR 28
BRCA2 pfam00634
BRCA2 repeat; The alignment covers only the most conserved region of the repeat.
 69-94 5.30e-03

BRCA2 repeat; The alignment covers only the most conserved region of the repeat.


Pssm-ID: 459881  Cd Length: 29  Bit Score: 35.12  E-value: 5.30e-03
                          10        20
                  ....*....|....*....|....*.
gi 1039017504  69 MFRTGLGKSVVLKESSIAKAKSILAE 94
Cdd:pfam00634   4 GFQTASGKKISVSEESLQKAKKLFRD 29
 
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 ...
 755-983 2.12e-92

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: 293.59  E-value: 2.12e-92
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039017504 755 ALNCIKCNGGPVPKTLAGIKRIYPILYKERLGEKKSIVRSERIESRIIQLHNQRRSALVEGIMCEYQRGINGVH------ 828
Cdd:cd04494     1 PLSSLYDSGGLVGCVDVIILRVYPLQWVEKTSEGGSVFRSERAEEREARLHAQRQQKKLEALFSKIQEEFEKEEednnqr 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039017504 829 --------SQNDTDSEEGAKIFKLLETAAEPEFLMAEMSPEQLRSFTTYKAKF----EAAQQMRKEKSVAETLEDAGLGE 896
Cdd:cd04494    81 rprsrtrtRQNVTDLQDGAELYEALEAAADPSFLEAELSEEQLEALSNYQQLQnekkQARLQEEFRKAVEEALKEEGLSK 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039017504 897 RNVTPFMRIRLVGLTSlsyegeHNPKEGIVTIWDPTERQRTELTEGKIYMMKGLVPINSDS----EILYLHARGsSSRWQ 972
Cdd:cd04494   161 RDVTPVWKLRVTDYRS------KPEKSGLLSIWRPTEDLRSLLTEGKRYRIYGLATSNSKKrsgnEEVQLTATK-KTRYQ 233

                         250
                  ....*....|.
gi 1039017504 973 PLSPKDSENFQ 983
Cdd:cd04494   234 PLPVSQRELFQ 244
BRCA-2_OB1 pfam09103
BRCA2, oligonucleotide/oligosaccharide-binding, domain 1; Members of this family assume an OB ...
 624-748 6.56e-52

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: 177.76  E-value: 6.56e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039017504 624 SAIKRILSGDAPASSMMVLCISAINPKTDNDSQEAHCSDSCSNVKVELTDGWYSMNAALDVVLTKQLNAGKLFVGQKLRI 703
Cdd:pfam09103   1 SALRKILERDDSASKPMVLCVSAIISSESNSEETGSGTVDNTKAILELTDGWYSIKAVLDAPLTRLVRRGKIRVGQKLAI 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1039017504 704 LGAGLSGWATPTSPLEAviSSTICLLLNINGTYRAHWADRLGFCK 748
Cdd:pfam09103  81 CGAELVGSKEPCSPLEA--PDSVRLKISANSTRRARWDAKLGFQR 123
BRCA2DBD_OB1 cd04493
BRCA2DBD_OB1: A subfamily of OB folds corresponding to the first OB fold (OB1) of the ...
 636-746 1.90e-39

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: 141.21  E-value: 1.90e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039017504 636 ASSMMVLCISAINPKTDndsqeahcsDSCSNVKVELTDGWYSMNAALDVVLTKQLNAGKLFVGQKLRILGAGLSGWATPT 715
Cdd:cd04493     1 ASRLMVLCVSGINSEER---------LSPHMPIIELTDGWYSIRAQLDPPLTNLVRKGKLRVGQKLRICGAELLGSANPC 71

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1039017504 716 SPLEAviSSTICLLLNINGTYRAHWADRLGF 746
Cdd:cd04493    72 SPLEA--PDSVRLKINANSTRRARWDARLGF 100
BRCA-2_helical pfam09169
BRCA2, helical; Members of this family adopt a helical structure, consisting of a four-helix ...
 524-620 6.44e-10

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: 59.67  E-value: 6.44e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039017504 524 VPDHVRRIKSSNADKYVFCDE------------------------SSSNKVGAETFLQML-AESGASLQHASRKWVTNHY 578
Cdd:pfam09169  65 VCKVSLIIASENAESFQFFDDdffgkefllngggiqladggllipNDGGVAGKEEFYRALcDTPGVDPKLISAWWVYNHY 144

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1039017504 579 RWIVWKLACYDIYYPAKCRGNFLTITNVLEELKYRYEREVNH 620
Cdd:pfam09169 145 RWIVWKLAAMERFFPKEFGRRCLTPERVLLQLKYRYDVEIDK 186
BRCA2 pfam00634
BRCA2 repeat; The alignment covers only the most conserved region of the repeat.
 260-288 5.34e-06

BRCA2 repeat; The alignment covers only the most conserved region of the repeat.


Pssm-ID: 459881  Cd Length: 29  Bit Score: 43.59  E-value: 5.34e-06
                          10        20
                  ....*....|....*....|....*....
gi 1039017504 260 PPTKFQTAGGKSLSVSAEALKRARNLLGD 288
Cdd:pfam00634   1 SFLGFQTASGKKISVSEESLQKAKKLFRD 29
BRCA2 pfam00634
BRCA2 repeat; The alignment covers only the most conserved region of the repeat.
 166-193 2.11e-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: 2.11e-05
                          10        20
                  ....*....|....*....|....*...
gi 1039017504 166 SNSLFQTASNKKVNVSSAGLARAKALLG 193
Cdd:pfam00634   1 SFLGFQTASGKKISVSEESLQKAKKLFR 28
BRCA2 pfam00634
BRCA2 repeat; The alignment covers only the most conserved region of the repeat.
 122-146 8.19e-04

BRCA2 repeat; The alignment covers only the most conserved region of the repeat.


Pssm-ID: 459881  Cd Length: 29  Bit Score: 37.43  E-value: 8.19e-04
                          10        20
                  ....*....|....*....|....*
gi 1039017504 122 MFRTASGKSVPLKESSIAKAMSILG 146
Cdd:pfam00634   4 GFQTASGKKISVSEESLQKAKKLFR 28
BRCA2 pfam00634
BRCA2 repeat; The alignment covers only the most conserved region of the repeat.
 69-94 5.30e-03

BRCA2 repeat; The alignment covers only the most conserved region of the repeat.


Pssm-ID: 459881  Cd Length: 29  Bit Score: 35.12  E-value: 5.30e-03
                          10        20
                  ....*....|....*....|....*.
gi 1039017504  69 MFRTGLGKSVVLKESSIAKAKSILAE 94
Cdd:pfam00634   4 GFQTASGKKISVSEESLQKAKKLFRD 29
 
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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