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Conserved domains on  [gi|998614163|ref|NP_956501|]
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cell cycle checkpoint control protein RAD9A [Danio rerio]

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 ...
13-261 2.26e-82

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: 251.90  E-value: 2.26e-82
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 998614163   13 LAKAIHSLSRIGEELYLEPVDDGLALRSVNSSRSAFASFQLSPLFFQRYQAPT---DQSFRCKMPIKSVQAVFKSLSSLE 89
Cdd:pfam04139   1 FSRALQCLSRIGDELYIEISEDGLALTTVNSSRSAYGVVTFSKDFFDKYQMLStdvPPQINCKILVKSILSIFRSLSALE 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 998614163   90 RSVEKCRIQLNSEKSRLTITLHCKHGLLKTHNLSFQDCESLQAVFDKESCTNVLQAQPRLMVDTVLHFPPSLEEVNLSVS 169
Cdd:pfam04139  81 VTVEKCKIQIDGDKSKVIFQFLCKHGVIKTHKIHYEQSQPLHAVFDKNTCPSTLVINPRVLSDLLVHFTSSTEEITIQLT 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 998614163  170 SDRVWLRNHVEDDADSSRAMMTELCLSSEEFDHFAISSQTSITFCLKELRGLLGFAESSCLPISMYFDEPGSPVILNVTD 249
Cdd:pfam04139 161 PDRVLIKSYTDEVNDLTSSLYTELSIDPEEFDQYQLNGDVEITFCFKEFKAILAFAEVLHAPIAMYFSFPGKPLLLTFKK 240
                         250
                  ....*....|...
gi 998614163  250 -SVLEANFVLATL 261
Cdd:pfam04139 241 sSLIEANFILATL 253
 
Name Accession Description Interval E-value
Rad9 pfam04139
Rad9; Rad9 is required for transient cell-cycle arrests and transcriptional induction of DNA ...
13-261 2.26e-82

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: 251.90  E-value: 2.26e-82
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 998614163   13 LAKAIHSLSRIGEELYLEPVDDGLALRSVNSSRSAFASFQLSPLFFQRYQAPT---DQSFRCKMPIKSVQAVFKSLSSLE 89
Cdd:pfam04139   1 FSRALQCLSRIGDELYIEISEDGLALTTVNSSRSAYGVVTFSKDFFDKYQMLStdvPPQINCKILVKSILSIFRSLSALE 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 998614163   90 RSVEKCRIQLNSEKSRLTITLHCKHGLLKTHNLSFQDCESLQAVFDKESCTNVLQAQPRLMVDTVLHFPPSLEEVNLSVS 169
Cdd:pfam04139  81 VTVEKCKIQIDGDKSKVIFQFLCKHGVIKTHKIHYEQSQPLHAVFDKNTCPSTLVINPRVLSDLLVHFTSSTEEITIQLT 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 998614163  170 SDRVWLRNHVEDDADSSRAMMTELCLSSEEFDHFAISSQTSITFCLKELRGLLGFAESSCLPISMYFDEPGSPVILNVTD 249
Cdd:pfam04139 161 PDRVLIKSYTDEVNDLTSSLYTELSIDPEEFDQYQLNGDVEITFCFKEFKAILAFAEVLHAPIAMYFSFPGKPLLLTFKK 240
                         250
                  ....*....|...
gi 998614163  250 -SVLEANFVLATL 261
Cdd:pfam04139 241 sSLIEANFILATL 253
PCNA cd00577
Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea. These ...
5-263 3.55e-46

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: 158.18  E-value: 3.55e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 998614163   5 ATGANVKVLAKAIHSLSRIGEELYLEPVDDGLALRSVNSSRSAFASFQLSPLFFQRYQAptDQSFRCKMPIKSVQAVFKS 84
Cdd:cd00577    1 ATLSNAKLLKKIVDALSKLVDEANFDITEDGISLQAMDSSHVALVSLFLPKELFEEYRC--DEEISLGVNLKSLLKILKC 78
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 998614163  85 LSSlersvEKCRIQLNSEKSRLTITLHCKH-GLLKTHNLSFQDCESLQAVFDKESCTNVLQAQPRLMVDTVLHFPPSLEE 163
Cdd:cd00577   79 AGN-----EDCVTLRADDEDPLKILFESSKgDVTSEFSLKLMDIDSEQLPIPELEYDATVTLPSDELKDIVRDLESISDS 153
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 998614163 164 VNLSVSSDRVwlRNHVEDdaDSSRAMMTELCLSSEEFDHFAISSQTSITFCLKELRGLLGFAESSClPISMYFDEPGsPV 243
Cdd:cd00577  154 VTISASKDGF--KFSAEG--ELGGASVTLLPKDSDLLVTIECSEPVSSTYSLKYLKDFTKAAPLSD-KVTLSFGSDG-PL 227
                        250       260
                 ....*....|....*....|.
gi 998614163 244 ILNVT-DSVLEANFVLATLSE 263
Cdd:cd00577  228 SLEFKiADGGHLTFYLAPKIE 248
PRK01115 PRK01115
DNA polymerase sliding clamp; Validated
9-111 7.21e-03

DNA polymerase sliding clamp; Validated


Pssm-ID: 234903 [Multi-domain]  Cd Length: 247  Bit Score: 37.88  E-value: 7.21e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 998614163   9 NVKVLAKAIHSLSRIGEELYLEPVDDGLALRSVNSSRSAFASFQLSPLFFQRYQAPTDQSFrckmpIKSVQAVFKSLSSL 88
Cdd:PRK01115   8 DAKDFKYIIDAISKLVDEAKFKFTEDGIRLRALDPAKVAMVDLELPKEAFEEYEVDEEEKI-----GVDLEDLKKILKRA 82
                         90       100
                 ....*....|....*....|...
gi 998614163  89 ERSvEKCRIQLNSEKSRLTITLH 111
Cdd:PRK01115  83 KKG-DKLELELDEEENKLKITFG 104
 
Name Accession Description Interval E-value
Rad9 pfam04139
Rad9; Rad9 is required for transient cell-cycle arrests and transcriptional induction of DNA ...
13-261 2.26e-82

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: 251.90  E-value: 2.26e-82
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 998614163   13 LAKAIHSLSRIGEELYLEPVDDGLALRSVNSSRSAFASFQLSPLFFQRYQAPT---DQSFRCKMPIKSVQAVFKSLSSLE 89
Cdd:pfam04139   1 FSRALQCLSRIGDELYIEISEDGLALTTVNSSRSAYGVVTFSKDFFDKYQMLStdvPPQINCKILVKSILSIFRSLSALE 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 998614163   90 RSVEKCRIQLNSEKSRLTITLHCKHGLLKTHNLSFQDCESLQAVFDKESCTNVLQAQPRLMVDTVLHFPPSLEEVNLSVS 169
Cdd:pfam04139  81 VTVEKCKIQIDGDKSKVIFQFLCKHGVIKTHKIHYEQSQPLHAVFDKNTCPSTLVINPRVLSDLLVHFTSSTEEITIQLT 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 998614163  170 SDRVWLRNHVEDDADSSRAMMTELCLSSEEFDHFAISSQTSITFCLKELRGLLGFAESSCLPISMYFDEPGSPVILNVTD 249
Cdd:pfam04139 161 PDRVLIKSYTDEVNDLTSSLYTELSIDPEEFDQYQLNGDVEITFCFKEFKAILAFAEVLHAPIAMYFSFPGKPLLLTFKK 240
                         250
                  ....*....|...
gi 998614163  250 -SVLEANFVLATL 261
Cdd:pfam04139 241 sSLIEANFILATL 253
PCNA cd00577
Proliferating Cell Nuclear Antigen (PCNA) domain found in eukaryotes and archaea. These ...
5-263 3.55e-46

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: 158.18  E-value: 3.55e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 998614163   5 ATGANVKVLAKAIHSLSRIGEELYLEPVDDGLALRSVNSSRSAFASFQLSPLFFQRYQAptDQSFRCKMPIKSVQAVFKS 84
Cdd:cd00577    1 ATLSNAKLLKKIVDALSKLVDEANFDITEDGISLQAMDSSHVALVSLFLPKELFEEYRC--DEEISLGVNLKSLLKILKC 78
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 998614163  85 LSSlersvEKCRIQLNSEKSRLTITLHCKH-GLLKTHNLSFQDCESLQAVFDKESCTNVLQAQPRLMVDTVLHFPPSLEE 163
Cdd:cd00577   79 AGN-----EDCVTLRADDEDPLKILFESSKgDVTSEFSLKLMDIDSEQLPIPELEYDATVTLPSDELKDIVRDLESISDS 153
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 998614163 164 VNLSVSSDRVwlRNHVEDdaDSSRAMMTELCLSSEEFDHFAISSQTSITFCLKELRGLLGFAESSClPISMYFDEPGsPV 243
Cdd:cd00577  154 VTISASKDGF--KFSAEG--ELGGASVTLLPKDSDLLVTIECSEPVSSTYSLKYLKDFTKAAPLSD-KVTLSFGSDG-PL 227
                        250       260
                 ....*....|....*....|.
gi 998614163 244 ILNVT-DSVLEANFVLATLSE 263
Cdd:cd00577  228 SLEFKiADGGHLTFYLAPKIE 248
PRK01115 PRK01115
DNA polymerase sliding clamp; Validated
9-111 7.21e-03

DNA polymerase sliding clamp; Validated


Pssm-ID: 234903 [Multi-domain]  Cd Length: 247  Bit Score: 37.88  E-value: 7.21e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 998614163   9 NVKVLAKAIHSLSRIGEELYLEPVDDGLALRSVNSSRSAFASFQLSPLFFQRYQAPTDQSFrckmpIKSVQAVFKSLSSL 88
Cdd:PRK01115   8 DAKDFKYIIDAISKLVDEAKFKFTEDGIRLRALDPAKVAMVDLELPKEAFEEYEVDEEEKI-----GVDLEDLKKILKRA 82
                         90       100
                 ....*....|....*....|...
gi 998614163  89 ERSvEKCRIQLNSEKSRLTITLH 111
Cdd:PRK01115  83 KKG-DKLELELDEEENKLKITFG 104
 
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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