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Conserved domains on  [gi|568929782|ref|XP_006503476|]
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single-stranded DNA-binding protein 3 isoform X3 [Mus musculus]

Protein Classification

single-stranded DNA-binding protein( domain architecture ID 12218102)

single-stranded DNA-binding protein interacts with Lim domain binding proteins (LBDs) and stabilize LDBs by preventing their proteasomal degradation, thus promoting their functions in gene regulation

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SSDP pfam04503
Single-stranded DNA binding protein, SSDP; This is a family of eukaryotic single-stranded DNA ...
 81-373 8.97e-71

Single-stranded DNA binding protein, SSDP; This is a family of eukaryotic single-stranded DNA binding proteins with specificity to a pyrimidine-rich element found in the promoter region of the alpha2(I) collagen gene.


:

Pssm-ID: 461334 [Multi-domain]  Cd Length: 293  Bit Score: 224.07  E-value: 8.97e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929782   81 EHSSEAKAFHDYSA---AAAPSPVLGNIPPNDGMPGGPIPPGFFQGPPG---SQPSPHAQPPPHNPSSMMGPHSQPFMSP 154
Cdd:pfam04503   1 EHSSEAKAFHDYSFvssAAAPSPVMGQMPPGDGMPGGPMPPGFFQSPPShpsSQPSPHAQPPPHNPATMMGPHSQPFMGP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929782  155 RYAGGPRPPIRMGNQPP--GGVPGTQPLLPNSMDPTRQQGHPNMGGSMQRMNPPRG--MGPMGPgpqtdpwlslQNYGSG 230
Cdd:pfam04503  81 RYPGGPRPSVRMPQQGNdfNGPPGQQPMMPNSMDPTRPGGHPNMGGPMQRMNPPRGpgMGPMGP----------QSYGPG 150

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929782  231 MR-PPPNSLGP--AMPGINMGPGAGRPWPNPNSANSIPYSSSSPGT-YVGPPGGGGPPGTPIMPSPADSTNSSDNIYTMI 306
Cdd:pfam04503 151 MRgPPPNSTDGpgGMPPMNMGPGGRRPWPQPNASNPLPYSSSSPGSyGGPPGGGGPPGPTPIMPSPQDSTNSGENMYTLM 230

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 568929782  307 NPVPPGGSRSNFPMGPGSDgPMGGMGGMEPHHMNGSLGSGDIDGLpKNSPNNIsgISNPPGTPRDDG 373
Cdd:pfam04503 231 NPVGPGGNRANFPMGPGLE-GPMGPNGMEPHHSNGSLGSGDMDGM-KNSPANV--LSNGPGTPREDG 293
LisH smart00667
Lissencephaly type-1-like homology motif; Alpha-helical motif present in Lis1, treacle, ...
 17-43 7.62e-03

Lissencephaly type-1-like homology motif; Alpha-helical motif present in Lis1, treacle, Nopp140, some katanin p60 subunits, muskelin, tonneau, LEUNIG and numerous WD40 repeat-containing proteins. It is suggested that LisH motifs contribute to the regulation of microtubule dynamics, either by mediating dimerisation, or else by binding cytoplasmic dynein heavy chain or microtubules directly.


:

Pssm-ID: 128913  Cd Length: 34  Bit Score: 33.95  E-value: 7.62e-03
                           10        20
                   ....*....|....*....|....*..
gi 568929782    17 REKLALYVYEYLLHVGAQKSAQTFLSE 43
Cdd:smart00667   3 RSELNRLILEYLLRNGYEETAETLQKE 29
 
Name Accession Description Interval E-value
SSDP pfam04503
Single-stranded DNA binding protein, SSDP; This is a family of eukaryotic single-stranded DNA ...
 81-373 8.97e-71

Single-stranded DNA binding protein, SSDP; This is a family of eukaryotic single-stranded DNA binding proteins with specificity to a pyrimidine-rich element found in the promoter region of the alpha2(I) collagen gene.


Pssm-ID: 461334 [Multi-domain]  Cd Length: 293  Bit Score: 224.07  E-value: 8.97e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929782   81 EHSSEAKAFHDYSA---AAAPSPVLGNIPPNDGMPGGPIPPGFFQGPPG---SQPSPHAQPPPHNPSSMMGPHSQPFMSP 154
Cdd:pfam04503   1 EHSSEAKAFHDYSFvssAAAPSPVMGQMPPGDGMPGGPMPPGFFQSPPShpsSQPSPHAQPPPHNPATMMGPHSQPFMGP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929782  155 RYAGGPRPPIRMGNQPP--GGVPGTQPLLPNSMDPTRQQGHPNMGGSMQRMNPPRG--MGPMGPgpqtdpwlslQNYGSG 230
Cdd:pfam04503  81 RYPGGPRPSVRMPQQGNdfNGPPGQQPMMPNSMDPTRPGGHPNMGGPMQRMNPPRGpgMGPMGP----------QSYGPG 150

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929782  231 MR-PPPNSLGP--AMPGINMGPGAGRPWPNPNSANSIPYSSSSPGT-YVGPPGGGGPPGTPIMPSPADSTNSSDNIYTMI 306
Cdd:pfam04503 151 MRgPPPNSTDGpgGMPPMNMGPGGRRPWPQPNASNPLPYSSSSPGSyGGPPGGGGPPGPTPIMPSPQDSTNSGENMYTLM 230

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 568929782  307 NPVPPGGSRSNFPMGPGSDgPMGGMGGMEPHHMNGSLGSGDIDGLpKNSPNNIsgISNPPGTPRDDG 373
Cdd:pfam04503 231 NPVGPGGNRANFPMGPGLE-GPMGPNGMEPHHSNGSLGSGDMDGM-KNSPANV--LSNGPGTPREDG 293
PABP-1234 TIGR01628
polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins ...
 151-263 8.75e-07

polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed and of unknown tissue range.


Pssm-ID: 130689 [Multi-domain]  Cd Length: 562  Bit Score: 50.96  E-value: 8.75e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929782  151 FMSPRyAGGPRPPIRMGNQPPGGVPGTQPLLPNSMDPTRQQGHP---NMGGSMQRMNPPRGMGPMGPGPQTDPWLSLQNy 227
Cdd:TIGR01628 375 FMQLQ-PRMRQLPMGSPMGGAMGQPPYYGQGPQQQFNGQPLGWPrmsMMPTPMGPGGPLRPNGLAPMNAVRAPSRNAQN- 452

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 568929782  228 gsgmRPPPNSLGP--AMPGINMGPgAGRPWPNPNSANS 263
Cdd:TIGR01628 453 ----AAQKPPMQPvmYPPNYQSLP-LSQDLPQPQSTAS 485
LisH smart00667
Lissencephaly type-1-like homology motif; Alpha-helical motif present in Lis1, treacle, ...
 17-43 7.62e-03

Lissencephaly type-1-like homology motif; Alpha-helical motif present in Lis1, treacle, Nopp140, some katanin p60 subunits, muskelin, tonneau, LEUNIG and numerous WD40 repeat-containing proteins. It is suggested that LisH motifs contribute to the regulation of microtubule dynamics, either by mediating dimerisation, or else by binding cytoplasmic dynein heavy chain or microtubules directly.


Pssm-ID: 128913  Cd Length: 34  Bit Score: 33.95  E-value: 7.62e-03
                           10        20
                   ....*....|....*....|....*..
gi 568929782    17 REKLALYVYEYLLHVGAQKSAQTFLSE 43
Cdd:smart00667   3 RSELNRLILEYLLRNGYEETAETLQKE 29
 
Name Accession Description Interval E-value
SSDP pfam04503
Single-stranded DNA binding protein, SSDP; This is a family of eukaryotic single-stranded DNA ...
 81-373 8.97e-71

Single-stranded DNA binding protein, SSDP; This is a family of eukaryotic single-stranded DNA binding proteins with specificity to a pyrimidine-rich element found in the promoter region of the alpha2(I) collagen gene.


Pssm-ID: 461334 [Multi-domain]  Cd Length: 293  Bit Score: 224.07  E-value: 8.97e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929782   81 EHSSEAKAFHDYSA---AAAPSPVLGNIPPNDGMPGGPIPPGFFQGPPG---SQPSPHAQPPPHNPSSMMGPHSQPFMSP 154
Cdd:pfam04503   1 EHSSEAKAFHDYSFvssAAAPSPVMGQMPPGDGMPGGPMPPGFFQSPPShpsSQPSPHAQPPPHNPATMMGPHSQPFMGP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929782  155 RYAGGPRPPIRMGNQPP--GGVPGTQPLLPNSMDPTRQQGHPNMGGSMQRMNPPRG--MGPMGPgpqtdpwlslQNYGSG 230
Cdd:pfam04503  81 RYPGGPRPSVRMPQQGNdfNGPPGQQPMMPNSMDPTRPGGHPNMGGPMQRMNPPRGpgMGPMGP----------QSYGPG 150

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929782  231 MR-PPPNSLGP--AMPGINMGPGAGRPWPNPNSANSIPYSSSSPGT-YVGPPGGGGPPGTPIMPSPADSTNSSDNIYTMI 306
Cdd:pfam04503 151 MRgPPPNSTDGpgGMPPMNMGPGGRRPWPQPNASNPLPYSSSSPGSyGGPPGGGGPPGPTPIMPSPQDSTNSGENMYTLM 230

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 568929782  307 NPVPPGGSRSNFPMGPGSDgPMGGMGGMEPHHMNGSLGSGDIDGLpKNSPNNIsgISNPPGTPRDDG 373
Cdd:pfam04503 231 NPVGPGGNRANFPMGPGLE-GPMGPNGMEPHHSNGSLGSGDMDGM-KNSPANV--LSNGPGTPREDG 293
PABP-1234 TIGR01628
polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins ...
 151-263 8.75e-07

polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed and of unknown tissue range.


Pssm-ID: 130689 [Multi-domain]  Cd Length: 562  Bit Score: 50.96  E-value: 8.75e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929782  151 FMSPRyAGGPRPPIRMGNQPPGGVPGTQPLLPNSMDPTRQQGHP---NMGGSMQRMNPPRGMGPMGPGPQTDPWLSLQNy 227
Cdd:TIGR01628 375 FMQLQ-PRMRQLPMGSPMGGAMGQPPYYGQGPQQQFNGQPLGWPrmsMMPTPMGPGGPLRPNGLAPMNAVRAPSRNAQN- 452

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 568929782  228 gsgmRPPPNSLGP--AMPGINMGPgAGRPWPNPNSANS 263
Cdd:TIGR01628 453 ----AAQKPPMQPvmYPPNYQSLP-LSQDLPQPQSTAS 485
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 94-241 1.06e-03

Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate chromosome transmission during cell division.


Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 41.17  E-value: 1.06e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929782   94 AAAAPSPVLGNIPPNDGMPGGPIPPGFFQGPPGSQPSPHAQPPPHNPSSMMGPHSQPFMSPRyAGGPRPPIRMGNQPPGG 173
Cdd:pfam09770 209 KPAQQPAPAPAQPPAAPPAQQAQQQQQFPPQIQQQQQPQQQPQQPQQHPGQGHPVTILQRPQ-SPQPDPAQPSIQPQAQQ 287

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 568929782  174 VPGTQPllPNSMDPTRQQGHPNMGGSMQRMNPPRGMGPMGPGPqtdPWLSLQNYGSGMRPPPNSLGPA 241
Cdd:pfam09770 288 FHQQPP--PVPVQPTQILQNPNRLSAARVGYPQNPQPGVQPAP---AHQAHRQQGSFGRQAPIITHPQ 350
Med15 pfam09606
ARC105 or Med15 subunit of Mediator complex non-fungal; The approx. 70 residue Med15 domain of ...
 122-254 7.10e-03

ARC105 or Med15 subunit of Mediator complex non-fungal; The approx. 70 residue Med15 domain of the ARC-Mediator co-activator is a three-helix bundle with marked similarity to the KIX domain. The sterol regulatory element binding protein (SREBP) family of transcription activators use the ARC105 subunit to activate target genes in the regulation of cholesterol and fatty acid homeostasis. In addition, Med15 is a critical transducer of gene activation signals that control early metazoan development.


Pssm-ID: 312941 [Multi-domain]  Cd Length: 732  Bit Score: 38.45  E-value: 7.10e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568929782  122 QGPPGSQPSPHAQPPPHNPSSMMGPHSQPFMSPRYAGGPRPPIRMGNQPPGGVPGTQPLLPNSMDPTRQQGHPNMGGSMQ 201
Cdd:pfam09606  68 GNGGMGGGQQGMPDPINALQNLAGQGTRPQMMGPMGPGPGGPMGQQMGGPGTASNLLASLGRPQMPMGGAGFPSQMSRVG 147

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 568929782  202 RMNPPRGMGPMGPGPQTDPWLSLQNY-GSGMRPPPNSLGPAMPGINMGPGAGRP 254
Cdd:pfam09606 148 RMQPGGQAGGMMQPSSGQPGSGTPNQmGPNGGPGQGQAGGMNGGQQGPMGGQMP 201
LisH smart00667
Lissencephaly type-1-like homology motif; Alpha-helical motif present in Lis1, treacle, ...
 17-43 7.62e-03

Lissencephaly type-1-like homology motif; Alpha-helical motif present in Lis1, treacle, Nopp140, some katanin p60 subunits, muskelin, tonneau, LEUNIG and numerous WD40 repeat-containing proteins. It is suggested that LisH motifs contribute to the regulation of microtubule dynamics, either by mediating dimerisation, or else by binding cytoplasmic dynein heavy chain or microtubules directly.


Pssm-ID: 128913  Cd Length: 34  Bit Score: 33.95  E-value: 7.62e-03
                           10        20
                   ....*....|....*....|....*..
gi 568929782    17 REKLALYVYEYLLHVGAQKSAQTFLSE 43
Cdd:smart00667   3 RSELNRLILEYLLRNGYEETAETLQKE 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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