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Conserved domains on  [gi|220584|dbj|BAA00693|]
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30-kDa subunit of replication protein A [Mus musculus]

Protein Classification

RPA2_DBD_D and RPA_C domain-containing protein( domain architecture ID 13423533)

RPA2_DBD_D and RPA_C domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RPA2_DBD_D cd04478
RPA2_DBD_D: A subfamily of OB folds corresponding to the OB fold of the central ssDNA-binding ...
 73-167 5.47e-42

RPA2_DBD_D: A subfamily of OB folds corresponding to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). 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 major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle dependent manner in response to DNA damage. RPA2 interacts physically with menin; the gene encoding menin is a tumor suppressor gene disrupted in multiple endocrine neoplasia type I. This subfamily also includes RPA2 from Cryptosporidium parvum (CpRPA2). CpRPA2 is an SSB, which can be phosphorylated by DNA-PK in vitro.


:

Pssm-ID: 239924  Cd Length: 95  Bit Score: 139.27  E-value: 5.47e-42
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 220584    73 QVTIVGIIRHAEKAPTNIVYKIDDMTaPPMDVRQWVDTDDASG-ENAVVPPETYVKVAGHLRSFQNKKSLVAFKIIPLED 151
Cdd:cd04478   1 QVTLVGVVRNVEEQSTNITYTIDDGT-GTIEVRQWLDDDNDDSsEVEPIEEGTYVRVFGNLKSFQGKKSIMAFSIRPVTD 79

                        90
                ....*....|....*.
gi 220584   152 MNEFTAHILEVVNSHM 167
Cdd:cd04478  80 FNEVTYHLLEVIYVHL 95
RFA2 super family cl34949
Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [DNA ...
 25-267 1.08e-33

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


The actual alignment was detected with superfamily member COG5235:

Pssm-ID: 227560 [Multi-domain]  Cd Length: 258  Bit Score: 122.78  E-value: 1.08e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 220584    25 GGF---GSPTPSQaEKKSRVRAQHIVPCTISQLLSAT--LTDEVFRIGDVEISQVTIVGIIRHAEKAPTNIVYKIDDMTA 99
Cdd:COG5235  16 GQIfgtGSPPPMD-RSEGGYIVNTLRPVTIKQILSCDqdETDSTFLVDSAEVTNVQFVGVVRNIKTSTTNSMFVIEDGTG 94

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 220584   100 PpMDVRQWVDTDDASGENAVVPPETYVKVAGHLRSFQNKKSLVAFKIIPLEDMNEFTAHILEVVNSHM----MLSKPNSQ 175
Cdd:COG5235  95 S-IEVRFWPGNSYEEEQCKDLEEQNYVKVNGSLKTFNGKRSISASHISAIEDSNEVTYHFLECIYQHLfytrQLQRPLEE 173

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 220584   176 ASagrpsmSNPGMSesfNFSGNNFMPANRLTVVQNQVLNLIKACPRPEGLNFqdlrsqlqHMPVPSIKQAV--------- 246
Cdd:COG5235 174 EV------KNDGQS---LFAKLDNDTSSGSSRLQEDILECYRRNQDENGLHI--------NVVIKMLSQSYsedetrvni 236

                       250       260
                ....*....|....*....|.
gi 220584   247 DFLCNEGHIYSTVDDDHFKST 267
Cdd:COG5235 237 DVLLRDGHIYPTVDGNEFKTT 257
 
Name Accession Description Interval E-value
RPA2_DBD_D cd04478
RPA2_DBD_D: A subfamily of OB folds corresponding to the OB fold of the central ssDNA-binding ...
 73-167 5.47e-42

RPA2_DBD_D: A subfamily of OB folds corresponding to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). 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 major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle dependent manner in response to DNA damage. RPA2 interacts physically with menin; the gene encoding menin is a tumor suppressor gene disrupted in multiple endocrine neoplasia type I. This subfamily also includes RPA2 from Cryptosporidium parvum (CpRPA2). CpRPA2 is an SSB, which can be phosphorylated by DNA-PK in vitro.


Pssm-ID: 239924  Cd Length: 95  Bit Score: 139.27  E-value: 5.47e-42
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 220584    73 QVTIVGIIRHAEKAPTNIVYKIDDMTaPPMDVRQWVDTDDASG-ENAVVPPETYVKVAGHLRSFQNKKSLVAFKIIPLED 151
Cdd:cd04478   1 QVTLVGVVRNVEEQSTNITYTIDDGT-GTIEVRQWLDDDNDDSsEVEPIEEGTYVRVFGNLKSFQGKKSIMAFSIRPVTD 79

                        90
                ....*....|....*.
gi 220584   152 MNEFTAHILEVVNSHM 167
Cdd:cd04478  80 FNEVTYHLLEVIYVHL 95
RFA2 COG5235
Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [DNA ...
 25-267 1.08e-33

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: 122.78  E-value: 1.08e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 220584    25 GGF---GSPTPSQaEKKSRVRAQHIVPCTISQLLSAT--LTDEVFRIGDVEISQVTIVGIIRHAEKAPTNIVYKIDDMTA 99
Cdd:COG5235  16 GQIfgtGSPPPMD-RSEGGYIVNTLRPVTIKQILSCDqdETDSTFLVDSAEVTNVQFVGVVRNIKTSTTNSMFVIEDGTG 94

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 220584   100 PpMDVRQWVDTDDASGENAVVPPETYVKVAGHLRSFQNKKSLVAFKIIPLEDMNEFTAHILEVVNSHM----MLSKPNSQ 175
Cdd:COG5235  95 S-IEVRFWPGNSYEEEQCKDLEEQNYVKVNGSLKTFNGKRSISASHISAIEDSNEVTYHFLECIYQHLfytrQLQRPLEE 173

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 220584   176 ASagrpsmSNPGMSesfNFSGNNFMPANRLTVVQNQVLNLIKACPRPEGLNFqdlrsqlqHMPVPSIKQAV--------- 246
Cdd:COG5235 174 EV------KNDGQS---LFAKLDNDTSSGSSRLQEDILECYRRNQDENGLHI--------NVVIKMLSQSYsedetrvni 236

                       250       260
                ....*....|....*....|.
gi 220584   247 DFLCNEGHIYSTVDDDHFKST 267
Cdd:COG5235 237 DVLLRDGHIYPTVDGNEFKTT 257
RPA_C pfam08784
Replication protein A C terminal; This domain corresponds to the C terminal of the single ...
 166-262 5.56e-28

Replication protein A C terminal; This domain corresponds to the C terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints.


Pssm-ID: 400920  Cd Length: 106  Bit Score: 103.23  E-value: 5.56e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 220584     166 HMMLSKPNSQASAG-----RPSMSNPGMSESFNFSGNNFMPANR----LTVVQNQVLNLIK-ACPRPEGLNFQDLRSQLq 235
Cdd:pfam08784   1 HLFLTKGASGSSGGgattpAVSNGGSSMGTQGAYSGGDASVVNAnnggLTPLQDQVLNLIKqPPNGNEGVHVDEIAQRL- 79

                          90       100
                  ....*....|....*....|....*..
gi 220584     236 HMPVPSIKQAVDFLCNEGHIYSTVDDD 262
Cdd:pfam08784  80 GLPVNDVKQAVDFLSNEGHIYSTIDDD 106
 
Name Accession Description Interval E-value
RPA2_DBD_D cd04478
RPA2_DBD_D: A subfamily of OB folds corresponding to the OB fold of the central ssDNA-binding ...
 73-167 5.47e-42

RPA2_DBD_D: A subfamily of OB folds corresponding to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). 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 major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle dependent manner in response to DNA damage. RPA2 interacts physically with menin; the gene encoding menin is a tumor suppressor gene disrupted in multiple endocrine neoplasia type I. This subfamily also includes RPA2 from Cryptosporidium parvum (CpRPA2). CpRPA2 is an SSB, which can be phosphorylated by DNA-PK in vitro.


Pssm-ID: 239924  Cd Length: 95  Bit Score: 139.27  E-value: 5.47e-42
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 220584    73 QVTIVGIIRHAEKAPTNIVYKIDDMTaPPMDVRQWVDTDDASG-ENAVVPPETYVKVAGHLRSFQNKKSLVAFKIIPLED 151
Cdd:cd04478   1 QVTLVGVVRNVEEQSTNITYTIDDGT-GTIEVRQWLDDDNDDSsEVEPIEEGTYVRVFGNLKSFQGKKSIMAFSIRPVTD 79

                        90
                ....*....|....*.
gi 220584   152 MNEFTAHILEVVNSHM 167
Cdd:cd04478  80 FNEVTYHLLEVIYVHL 95
RFA2 COG5235
Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [DNA ...
 25-267 1.08e-33

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: 122.78  E-value: 1.08e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 220584    25 GGF---GSPTPSQaEKKSRVRAQHIVPCTISQLLSAT--LTDEVFRIGDVEISQVTIVGIIRHAEKAPTNIVYKIDDMTA 99
Cdd:COG5235  16 GQIfgtGSPPPMD-RSEGGYIVNTLRPVTIKQILSCDqdETDSTFLVDSAEVTNVQFVGVVRNIKTSTTNSMFVIEDGTG 94

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 220584   100 PpMDVRQWVDTDDASGENAVVPPETYVKVAGHLRSFQNKKSLVAFKIIPLEDMNEFTAHILEVVNSHM----MLSKPNSQ 175
Cdd:COG5235  95 S-IEVRFWPGNSYEEEQCKDLEEQNYVKVNGSLKTFNGKRSISASHISAIEDSNEVTYHFLECIYQHLfytrQLQRPLEE 173

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 220584   176 ASagrpsmSNPGMSesfNFSGNNFMPANRLTVVQNQVLNLIKACPRPEGLNFqdlrsqlqHMPVPSIKQAV--------- 246
Cdd:COG5235 174 EV------KNDGQS---LFAKLDNDTSSGSSRLQEDILECYRRNQDENGLHI--------NVVIKMLSQSYsedetrvni 236

                       250       260
                ....*....|....*....|.
gi 220584   247 DFLCNEGHIYSTVDDDHFKST 267
Cdd:COG5235 237 DVLLRDGHIYPTVDGNEFKTT 257
RPA_C pfam08784
Replication protein A C terminal; This domain corresponds to the C terminal of the single ...
 166-262 5.56e-28

Replication protein A C terminal; This domain corresponds to the C terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints.


Pssm-ID: 400920  Cd Length: 106  Bit Score: 103.23  E-value: 5.56e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 220584     166 HMMLSKPNSQASAG-----RPSMSNPGMSESFNFSGNNFMPANR----LTVVQNQVLNLIK-ACPRPEGLNFQDLRSQLq 235
Cdd:pfam08784   1 HLFLTKGASGSSGGgattpAVSNGGSSMGTQGAYSGGDASVVNAnnggLTPLQDQVLNLIKqPPNGNEGVHVDEIAQRL- 79

                          90       100
                  ....*....|....*....|....*..
gi 220584     236 HMPVPSIKQAVDFLCNEGHIYSTVDDD 262
Cdd:pfam08784  80 GLPVNDVKQAVDFLSNEGHIYSTIDDD 106
 
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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