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Conserved domains on  [gi|156213255|gb|EDO34281|]
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predicted protein, partial [Nematostella vectensis]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DNAPKcs_CC3 pfam08163
DNA-dependent protein kinase catalytic subunit, CC3; DNA-dependent protein kinase catalytic ...
 206-594 0e+00

DNA-dependent protein kinase catalytic subunit, CC3; DNA-dependent protein kinase catalytic subunit (DNA-PKcs) is involved in DNA nonhomologous end joining (NHEJ), which is recruited by Ku70/80 heterodimer to DNA ends and required for double-strand breaks (DSBs) repair. DNA-PKcs phosphorylates a number of protein substrates, including the heat shock protein 90 (HSP90), the transcription factors p53, specificity protein 1 (Sp1), among others. It folds into three well-defined large structural units, consisting of a N-terminal region (arranged in four supersecondary alpha-helical structures, N1-N4), the Circular Cradle (consisting of five supersecondary alpha-helical structures CC1-CC5), and the C-terminal Head (comprising FAT, FRB, kinase, and FATC). The CCs form a curved elliptical ring that serves as a scaffold to maintain the integrity of the whole complex. This domain represents a region of the Circular Cradle segment (CC) from DNA-PKcs that covers the complete CC3 and part of CC4. This domain contains the Ku-binding site A and a the highly conserved region (HCR) II.


:

Pssm-ID: 462387  Cd Length: 387  Bit Score: 553.12  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156213255  206 RLAVLDRVSVTLLCNASKAGVSEFFSSHVKEIMEIIEAKQLKTYDPGFESQLVSKMCAFRMIEVLYSRLGKAELNSPQSS 285
Cdd:pfam08163   1 RLAVLDRVLLPLLRHCSLIALSEFFSSNIKEIMDTIEARLTKTNEDAFEQQLVSKMGCFQLLEIMYSRLPKDEVNSKEST 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156213255  286 INLAYCPNDNT-GKELTKAITKSAHAAKSEDMRGETVAFELRRQLHCAAYNALLALISCTQTELKFYTAFLFNENPVKGQ 364
Cdd:pfam08163  81 INKTYCGSSITeGNELTKTLTKSAHAARSEDMRGETQLLELRRQYHCAAYNCLIAIISCTQTELKFYTGFLFSENPEKNQ 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156213255  365 FLLDNLIDTDRKYEFEVELSTPLERKKQMTSIRINARvQSDQVEEALSQGRSVrYLSSQYLADSSLSEEVSQFDFSTPV- 443
Cdd:pfam08163 161 FIWENLIDCKRKYTFPQELEVPPKRKKKYVSIRKEAR-EAANGESEESQSPSY-YLSSSYLADSSLSEDISQYDFNTSVv 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156213255  444 ---------QVNIINYLKRTGKPDQLGedsyeiGEDVEMDELNSHECLTKICSLLTHMKESNISPQPDKGaLPKDMPSWM 514
Cdd:pfam08163 239 qsfsesssdPNSASSDSQRTHKATSVV------VEELEMDELNQHECMATICALLKHMQRNNITPKPEEG-VPSEMPPWM 311

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156213255  515 SALHKKLTNFETHLNIQLFIAKVIINQSQVFEPYARFWLSPLMELILKliEEEGENkrGLNYFVVDLLVTILSWATTAIP 594
Cdd:pfam08163 312 KFLHKKLGNPSTHLNIRLFIAKLIINTEEVFRPYAKFWLTPLMQLIVS--GNNGGE--GLNYFVTDIVVTLLSWHDVAIP 387
DNAPKcs_CC1-2 super family cl48656
DNA-dependent protein kinase catalytic subunit, CC1/2; DNA-dependent protein kinase catalytic ...
 28-147 5.19e-31

DNA-dependent protein kinase catalytic subunit, CC1/2; DNA-dependent protein kinase catalytic subunit (DNA-PKcs) is involved in DNA nonhomologous end joining (NHEJ) which is recruited by Ku70/80 heterodimer to DNA ends and required for double-strand break (DSB) repair. It folds into three well-defined large structural units, consisting of a N-terminal region, the Circular Cradle (consisting of five supersecondary alpha-helical structures CC1 to CC5), and the C-terminal Head (comprising FAT, FRB, kinase, and FATC). The N-terminal and CCs regions resemble HEAT repeats, and thus, they are also referred to as N-HEAT and M-HEAT ('middle'), respectively. The CCs form a curved elliptical ring that serves as a scaffold to maintain the integrity of the whole complex. This entry represents CC1 and CC2, which contain the Highly conserved region I (HCR-I).


The actual alignment was detected with superfamily member pfam20502:

Pssm-ID: 466651  Cd Length: 810  Bit Score: 128.65  E-value: 5.19e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156213255   28 ELKQALLEIMKKLLLSDPKCLIDPAKPAFQIVLKMFTSVFDDKNLTLTFKSRAVELFPYFKNLPDNYQSQLKSCIDTLVT 107
Cdd:pfam20502 691 ESKMAVLTLLSKVLQIDSSVCSDINHPAFSAVFSTYTSLLTDSKLSLNLKSQALILLPFFTNLPEDTLAQLKNALDRLVA 770

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 156213255  108 DNFPLKSTEFIPGSPRYNDYIATLDKLLVTMVTSGSLVLL 147
Cdd:pfam20502 771 SNFPMKSDEFPKGTLKYNNYVDCIKKFLDALELSQSPMLL 810
 
Name Accession Description Interval E-value
DNAPKcs_CC3 pfam08163
DNA-dependent protein kinase catalytic subunit, CC3; DNA-dependent protein kinase catalytic ...
 206-594 0e+00

DNA-dependent protein kinase catalytic subunit, CC3; DNA-dependent protein kinase catalytic subunit (DNA-PKcs) is involved in DNA nonhomologous end joining (NHEJ), which is recruited by Ku70/80 heterodimer to DNA ends and required for double-strand breaks (DSBs) repair. DNA-PKcs phosphorylates a number of protein substrates, including the heat shock protein 90 (HSP90), the transcription factors p53, specificity protein 1 (Sp1), among others. It folds into three well-defined large structural units, consisting of a N-terminal region (arranged in four supersecondary alpha-helical structures, N1-N4), the Circular Cradle (consisting of five supersecondary alpha-helical structures CC1-CC5), and the C-terminal Head (comprising FAT, FRB, kinase, and FATC). The CCs form a curved elliptical ring that serves as a scaffold to maintain the integrity of the whole complex. This domain represents a region of the Circular Cradle segment (CC) from DNA-PKcs that covers the complete CC3 and part of CC4. This domain contains the Ku-binding site A and a the highly conserved region (HCR) II.


Pssm-ID: 462387  Cd Length: 387  Bit Score: 553.12  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156213255  206 RLAVLDRVSVTLLCNASKAGVSEFFSSHVKEIMEIIEAKQLKTYDPGFESQLVSKMCAFRMIEVLYSRLGKAELNSPQSS 285
Cdd:pfam08163   1 RLAVLDRVLLPLLRHCSLIALSEFFSSNIKEIMDTIEARLTKTNEDAFEQQLVSKMGCFQLLEIMYSRLPKDEVNSKEST 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156213255  286 INLAYCPNDNT-GKELTKAITKSAHAAKSEDMRGETVAFELRRQLHCAAYNALLALISCTQTELKFYTAFLFNENPVKGQ 364
Cdd:pfam08163  81 INKTYCGSSITeGNELTKTLTKSAHAARSEDMRGETQLLELRRQYHCAAYNCLIAIISCTQTELKFYTGFLFSENPEKNQ 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156213255  365 FLLDNLIDTDRKYEFEVELSTPLERKKQMTSIRINARvQSDQVEEALSQGRSVrYLSSQYLADSSLSEEVSQFDFSTPV- 443
Cdd:pfam08163 161 FIWENLIDCKRKYTFPQELEVPPKRKKKYVSIRKEAR-EAANGESEESQSPSY-YLSSSYLADSSLSEDISQYDFNTSVv 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156213255  444 ---------QVNIINYLKRTGKPDQLGedsyeiGEDVEMDELNSHECLTKICSLLTHMKESNISPQPDKGaLPKDMPSWM 514
Cdd:pfam08163 239 qsfsesssdPNSASSDSQRTHKATSVV------VEELEMDELNQHECMATICALLKHMQRNNITPKPEEG-VPSEMPPWM 311

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156213255  515 SALHKKLTNFETHLNIQLFIAKVIINQSQVFEPYARFWLSPLMELILKliEEEGENkrGLNYFVVDLLVTILSWATTAIP 594
Cdd:pfam08163 312 KFLHKKLGNPSTHLNIRLFIAKLIINTEEVFRPYAKFWLTPLMQLIVS--GNNGGE--GLNYFVTDIVVTLLSWHDVAIP 387
DNAPKcs_CC1-2 pfam20502
DNA-dependent protein kinase catalytic subunit, CC1/2; DNA-dependent protein kinase catalytic ...
 28-147 5.19e-31

DNA-dependent protein kinase catalytic subunit, CC1/2; DNA-dependent protein kinase catalytic subunit (DNA-PKcs) is involved in DNA nonhomologous end joining (NHEJ) which is recruited by Ku70/80 heterodimer to DNA ends and required for double-strand break (DSB) repair. It folds into three well-defined large structural units, consisting of a N-terminal region, the Circular Cradle (consisting of five supersecondary alpha-helical structures CC1 to CC5), and the C-terminal Head (comprising FAT, FRB, kinase, and FATC). The N-terminal and CCs regions resemble HEAT repeats, and thus, they are also referred to as N-HEAT and M-HEAT ('middle'), respectively. The CCs form a curved elliptical ring that serves as a scaffold to maintain the integrity of the whole complex. This entry represents CC1 and CC2, which contain the Highly conserved region I (HCR-I).


Pssm-ID: 466651  Cd Length: 810  Bit Score: 128.65  E-value: 5.19e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156213255   28 ELKQALLEIMKKLLLSDPKCLIDPAKPAFQIVLKMFTSVFDDKNLTLTFKSRAVELFPYFKNLPDNYQSQLKSCIDTLVT 107
Cdd:pfam20502 691 ESKMAVLTLLSKVLQIDSSVCSDINHPAFSAVFSTYTSLLTDSKLSLNLKSQALILLPFFTNLPEDTLAQLKNALDRLVA 770

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 156213255  108 DNFPLKSTEFIPGSPRYNDYIATLDKLLVTMVTSGSLVLL 147
Cdd:pfam20502 771 SNFPMKSDEFPKGTLKYNNYVDCIKKFLDALELSQSPMLL 810
 
Name Accession Description Interval E-value
DNAPKcs_CC3 pfam08163
DNA-dependent protein kinase catalytic subunit, CC3; DNA-dependent protein kinase catalytic ...
 206-594 0e+00

DNA-dependent protein kinase catalytic subunit, CC3; DNA-dependent protein kinase catalytic subunit (DNA-PKcs) is involved in DNA nonhomologous end joining (NHEJ), which is recruited by Ku70/80 heterodimer to DNA ends and required for double-strand breaks (DSBs) repair. DNA-PKcs phosphorylates a number of protein substrates, including the heat shock protein 90 (HSP90), the transcription factors p53, specificity protein 1 (Sp1), among others. It folds into three well-defined large structural units, consisting of a N-terminal region (arranged in four supersecondary alpha-helical structures, N1-N4), the Circular Cradle (consisting of five supersecondary alpha-helical structures CC1-CC5), and the C-terminal Head (comprising FAT, FRB, kinase, and FATC). The CCs form a curved elliptical ring that serves as a scaffold to maintain the integrity of the whole complex. This domain represents a region of the Circular Cradle segment (CC) from DNA-PKcs that covers the complete CC3 and part of CC4. This domain contains the Ku-binding site A and a the highly conserved region (HCR) II.


Pssm-ID: 462387  Cd Length: 387  Bit Score: 553.12  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156213255  206 RLAVLDRVSVTLLCNASKAGVSEFFSSHVKEIMEIIEAKQLKTYDPGFESQLVSKMCAFRMIEVLYSRLGKAELNSPQSS 285
Cdd:pfam08163   1 RLAVLDRVLLPLLRHCSLIALSEFFSSNIKEIMDTIEARLTKTNEDAFEQQLVSKMGCFQLLEIMYSRLPKDEVNSKEST 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156213255  286 INLAYCPNDNT-GKELTKAITKSAHAAKSEDMRGETVAFELRRQLHCAAYNALLALISCTQTELKFYTAFLFNENPVKGQ 364
Cdd:pfam08163  81 INKTYCGSSITeGNELTKTLTKSAHAARSEDMRGETQLLELRRQYHCAAYNCLIAIISCTQTELKFYTGFLFSENPEKNQ 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156213255  365 FLLDNLIDTDRKYEFEVELSTPLERKKQMTSIRINARvQSDQVEEALSQGRSVrYLSSQYLADSSLSEEVSQFDFSTPV- 443
Cdd:pfam08163 161 FIWENLIDCKRKYTFPQELEVPPKRKKKYVSIRKEAR-EAANGESEESQSPSY-YLSSSYLADSSLSEDISQYDFNTSVv 238

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156213255  444 ---------QVNIINYLKRTGKPDQLGedsyeiGEDVEMDELNSHECLTKICSLLTHMKESNISPQPDKGaLPKDMPSWM 514
Cdd:pfam08163 239 qsfsesssdPNSASSDSQRTHKATSVV------VEELEMDELNQHECMATICALLKHMQRNNITPKPEEG-VPSEMPPWM 311

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156213255  515 SALHKKLTNFETHLNIQLFIAKVIINQSQVFEPYARFWLSPLMELILKliEEEGENkrGLNYFVVDLLVTILSWATTAIP 594
Cdd:pfam08163 312 KFLHKKLGNPSTHLNIRLFIAKLIINTEEVFRPYAKFWLTPLMQLIVS--GNNGGE--GLNYFVTDIVVTLLSWHDVAIP 387
DNAPKcs_CC1-2 pfam20502
DNA-dependent protein kinase catalytic subunit, CC1/2; DNA-dependent protein kinase catalytic ...
 28-147 5.19e-31

DNA-dependent protein kinase catalytic subunit, CC1/2; DNA-dependent protein kinase catalytic subunit (DNA-PKcs) is involved in DNA nonhomologous end joining (NHEJ) which is recruited by Ku70/80 heterodimer to DNA ends and required for double-strand break (DSB) repair. It folds into three well-defined large structural units, consisting of a N-terminal region, the Circular Cradle (consisting of five supersecondary alpha-helical structures CC1 to CC5), and the C-terminal Head (comprising FAT, FRB, kinase, and FATC). The N-terminal and CCs regions resemble HEAT repeats, and thus, they are also referred to as N-HEAT and M-HEAT ('middle'), respectively. The CCs form a curved elliptical ring that serves as a scaffold to maintain the integrity of the whole complex. This entry represents CC1 and CC2, which contain the Highly conserved region I (HCR-I).


Pssm-ID: 466651  Cd Length: 810  Bit Score: 128.65  E-value: 5.19e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156213255   28 ELKQALLEIMKKLLLSDPKCLIDPAKPAFQIVLKMFTSVFDDKNLTLTFKSRAVELFPYFKNLPDNYQSQLKSCIDTLVT 107
Cdd:pfam20502 691 ESKMAVLTLLSKVLQIDSSVCSDINHPAFSAVFSTYTSLLTDSKLSLNLKSQALILLPFFTNLPEDTLAQLKNALDRLVA 770

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 156213255  108 DNFPLKSTEFIPGSPRYNDYIATLDKLLVTMVTSGSLVLL 147
Cdd:pfam20502 771 SNFPMKSDEFPKGTLKYNNYVDCIKKFLDALELSQSPMLL 810
 
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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