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Conserved domains on  [gi|672073036|ref|XP_008767466|]
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cell cycle checkpoint control protein RAD9B isoform X1 [Rattus norvegicus]

Protein Classification

cell cycle checkpoint control RAD9 family protein( domain architecture ID 707160)

cell cycle checkpoint control RAD9 family protein, similar to RAD9 which is a component of the 9-1-1 cell-cycle checkpoint response complex that plays a major role in DNA repair; may be partial

Gene Ontology:  GO:0006281|GO:0000077
PubMed:  16365875|9687277

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Rad9 super family cl27191
Rad9; Rad9 is required for transient cell-cycle arrests and transcriptional induction of DNA ...
 1-165 2.84e-76

Rad9; Rad9 is required for transient cell-cycle arrests and transcriptional induction of DNA repair in response to DNA damage. It contains a Bcl-2 homology domain 3 (BH3).


The actual alignment was detected with superfamily member pfam04139:

Pssm-ID: 427739  Cd Length: 253  Bit Score: 233.03  E-value: 2.84e-76
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073036    1 MVARSDRCRVVIQFFGRHGIKRTHNVYFQDCQPLKILFEKSLCANILMIKPRLLAEAIALLTSNQEEVTFSVTPENFCLK 80
Cdd:pfam04139  88 IQIDGDKSKVIFQFLCKHGVIKTHKIHYEQSQPLHAVFDKNTCPSTLVINPRVLSDLLVHFTSSTEEITIQLTPDRVLIK 167

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073036   81 SSSGESLDLTSSVYSEMSFGPEEFDFFQVGLDTEITFCFKELKGILTFSEVMHAPIAIYFDFPGKPVVLSVED-MLLEAS 159
Cdd:pfam04139 168 SYTDEVNDLTSSLYTELSIDPEEFDQYQLNGDVEITFCFKEFKAILAFAEVLHAPIAMYFSFPGKPLLLTFKKsSLIEAN 247


                  ....*.
gi 672073036  160 FILATL 165
Cdd:pfam04139 248 FILATL 253
 
Name Accession Description Interval E-value
Rad9 pfam04139
Rad9; Rad9 is required for transient cell-cycle arrests and transcriptional induction of DNA ...
 1-165 2.84e-76

Rad9; Rad9 is required for transient cell-cycle arrests and transcriptional induction of DNA repair in response to DNA damage. It contains a Bcl-2 homology domain 3 (BH3).


Pssm-ID: 427739  Cd Length: 253  Bit Score: 233.03  E-value: 2.84e-76
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073036    1 MVARSDRCRVVIQFFGRHGIKRTHNVYFQDCQPLKILFEKSLCANILMIKPRLLAEAIALLTSNQEEVTFSVTPENFCLK 80
Cdd:pfam04139  88 IQIDGDKSKVIFQFLCKHGVIKTHKIHYEQSQPLHAVFDKNTCPSTLVINPRVLSDLLVHFTSSTEEITIQLTPDRVLIK 167

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073036   81 SSSGESLDLTSSVYSEMSFGPEEFDFFQVGLDTEITFCFKELKGILTFSEVMHAPIAIYFDFPGKPVVLSVED-MLLEAS 159
Cdd:pfam04139 168 SYTDEVNDLTSSLYTELSIDPEEFDQYQLNGDVEITFCFKEFKAILAFAEVLHAPIAMYFSFPGKPLLLTFKKsSLIEAN 247


                  ....*.
gi 672073036  160 FILATL 165
Cdd:pfam04139 248 FILATL 253
PCNA cd00577
Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea. These ...
 6-167 1.75e-16

Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea. These polymerase processivity factors play a role in DNA replication and repair. PCNA encircles duplex DNA in its central cavity, providing a DNA-bound platform for the attachment of the polymerase. The trimeric PCNA ring is structurally similar to the dimeric ring formed by the DNA polymerase processivity factors in bacteria (beta subunit DNA polymerase III holoenzyme) and in bacteriophages (catalytic subunits in T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds. PCNA is also involved with proteins involved in cell cycle processes such as DNA repair and apoptosis. Many of these proteins contain a highly conserved motif known as the PIP-box (PCNA interacting protein box) which contains the sequence Qxx[LIM]xxF[FY].


Pssm-ID: 238322 [Multi-domain]  Cd Length: 248  Bit Score: 76.90  E-value: 1.75e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073036   6 DRCRVVIQFFGRH-GIKRTHNVYFQDCQPLKILFEKSLCANILMIKPRLLAEAIALLTSNQEEVTFSVTPENFCLKSSSg 84
Cdd:cd00577   91 DEDPLKILFESSKgDVTSEFSLKLMDIDSEQLPIPELEYDATVTLPSDELKDIVRDLESISDSVTISASKDGFKFSAEG- 169

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073036  85 eslDLTSSVYSEMSFGPEEFDFFQVGLDTEITFCFKELKGILTFSEVmHAPIAIYFDFPGkPVVLSVEDM-LLEASFILA 163
Cdd:cd00577  170 ---ELGGASVTLLPKDSDLLVTIECSEPVSSTYSLKYLKDFTKAAPL-SDKVTLSFGSDG-PLSLEFKIAdGGHLTFYLA 244


                 ....
gi 672073036 164 TLLD 167
Cdd:cd00577  245 PKIE 248
 
Name Accession Description Interval E-value
Rad9 pfam04139
Rad9; Rad9 is required for transient cell-cycle arrests and transcriptional induction of DNA ...
 1-165 2.84e-76

Rad9; Rad9 is required for transient cell-cycle arrests and transcriptional induction of DNA repair in response to DNA damage. It contains a Bcl-2 homology domain 3 (BH3).


Pssm-ID: 427739  Cd Length: 253  Bit Score: 233.03  E-value: 2.84e-76
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073036    1 MVARSDRCRVVIQFFGRHGIKRTHNVYFQDCQPLKILFEKSLCANILMIKPRLLAEAIALLTSNQEEVTFSVTPENFCLK 80
Cdd:pfam04139  88 IQIDGDKSKVIFQFLCKHGVIKTHKIHYEQSQPLHAVFDKNTCPSTLVINPRVLSDLLVHFTSSTEEITIQLTPDRVLIK 167

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073036   81 SSSGESLDLTSSVYSEMSFGPEEFDFFQVGLDTEITFCFKELKGILTFSEVMHAPIAIYFDFPGKPVVLSVED-MLLEAS 159
Cdd:pfam04139 168 SYTDEVNDLTSSLYTELSIDPEEFDQYQLNGDVEITFCFKEFKAILAFAEVLHAPIAMYFSFPGKPLLLTFKKsSLIEAN 247


                  ....*.
gi 672073036  160 FILATL 165
Cdd:pfam04139 248 FILATL 253
PCNA cd00577
Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea. These ...
 6-167 1.75e-16

Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea. These polymerase processivity factors play a role in DNA replication and repair. PCNA encircles duplex DNA in its central cavity, providing a DNA-bound platform for the attachment of the polymerase. The trimeric PCNA ring is structurally similar to the dimeric ring formed by the DNA polymerase processivity factors in bacteria (beta subunit DNA polymerase III holoenzyme) and in bacteriophages (catalytic subunits in T4 and RB69). This structural correspondence further substantiates the mechanistic connection between eukaryotic and prokaryotic DNA replication that has been suggested on biochemical grounds. PCNA is also involved with proteins involved in cell cycle processes such as DNA repair and apoptosis. Many of these proteins contain a highly conserved motif known as the PIP-box (PCNA interacting protein box) which contains the sequence Qxx[LIM]xxF[FY].


Pssm-ID: 238322 [Multi-domain]  Cd Length: 248  Bit Score: 76.90  E-value: 1.75e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073036   6 DRCRVVIQFFGRH-GIKRTHNVYFQDCQPLKILFEKSLCANILMIKPRLLAEAIALLTSNQEEVTFSVTPENFCLKSSSg 84
Cdd:cd00577   91 DEDPLKILFESSKgDVTSEFSLKLMDIDSEQLPIPELEYDATVTLPSDELKDIVRDLESISDSVTISASKDGFKFSAEG- 169

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672073036  85 eslDLTSSVYSEMSFGPEEFDFFQVGLDTEITFCFKELKGILTFSEVmHAPIAIYFDFPGkPVVLSVEDM-LLEASFILA 163
Cdd:cd00577  170 ---ELGGASVTLLPKDSDLLVTIECSEPVSSTYSLKYLKDFTKAAPL-SDKVTLSFGSDG-PLSLEFKIAdGGHLTFYLA 244


                 ....
gi 672073036 164 TLLD 167
Cdd:cd00577  245 PKIE 248
 
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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