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Conserved domains on  [gi|1002270397|ref|XP_015639522|]
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cyclin-P4-1-like isoform X1 [Oryza sativa Japonica Group]

Protein Classification

cyclin family protein( domain architecture ID 1750054)

cyclin family protein may associate with and activate its cognate cyclin-dependent kinase (CDK)

CATH:  1.10.472.10
Gene Ontology:  GO:0000079|GO:0019901|GO:0007049
PubMed:  14744433|30185601|15269391|15840440
SCOP:  4001102

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CYCLIN_SF super family cl40454
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 55-196 5.10e-12

Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in cell-cycle and transcriptional control. It is about 100 amino acids in length, composed of five helices, and is present in cyclins, transcription initiation factor IIB (TFIIB), and retinoblastoma tumour suppressor protein (Rb). Cyclins consist of 8 classes of cell cycle regulators that function as regulatory subunits of cyclin-dependent kinases (CDKs), which are serine/threonine kinases. The catalytic activities of CDKs are modulated not only by their interactions with cyclins but also by CDK inhibitors (CKIs). CDKs, cyclins and CKIs play key roles in transcription, epigenetic regulation, metabolism, stem cell self-renewal, neuronal functions, and spermatogenesis. TFIIB is a transcription factor that binds the TATA box. Members in this superfamily contain one or two copies of the cyclin box.


The actual alignment was detected with superfamily member cd20604:

Pssm-ID: 477360  Cd Length: 126  Bit Score: 61.25  E-value: 5.10e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002270397  55 IRAFRGGATPTVRIGEFLERIHTFIQQESvrhvieiqgACYVLAGIYLIRFIRsgaaREAGILIDPSTAHRLVAVAIFVG 134
Cdd:cd20604     2 VTVFHGVRAPSISIASYLERIFKYTNCSP---------SCFVVAYVYIDRFIH----KQPGLPISSLNVHRLLITSVMVA 68

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1002270397 135 AKFGGPIYRLPTRWTVVfetssdAAIRAREMAGLERRFLIAVDYRLFVRADQFDWFCRVLER 196
Cdd:cd20604    69 AKFLDDLYYNNAYYAKV------GGVSTEELNRLELEFLFLLDFKLNVTVSVFESYCCHLER 124
 
Name Accession Description Interval E-value
CYCLIN_AtCycU-like cd20604
cyclin box found in Arabidopsis thaliana U-type cyclins (CycUs) and similar proteins; CycUs ...
 55-196 5.10e-12

cyclin box found in Arabidopsis thaliana U-type cyclins (CycUs) and similar proteins; CycUs interact with cyclin-dependent kinase A-1 (CDKA-1) to trigger its kinase activity. CycUs contain one cyclin box. The cyclin box is a protein binding domain.


Pssm-ID: 410307  Cd Length: 126  Bit Score: 61.25  E-value: 5.10e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002270397  55 IRAFRGGATPTVRIGEFLERIHTFIQQESvrhvieiqgACYVLAGIYLIRFIRsgaaREAGILIDPSTAHRLVAVAIFVG 134
Cdd:cd20604     2 VTVFHGVRAPSISIASYLERIFKYTNCSP---------SCFVVAYVYIDRFIH----KQPGLPISSLNVHRLLITSVMVA 68

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1002270397 135 AKFGGPIYRLPTRWTVVfetssdAAIRAREMAGLERRFLIAVDYRLFVRADQFDWFCRVLER 196
Cdd:cd20604    69 AKFLDDLYYNNAYYAKV------GGVSTEELNRLELEFLFLLDFKLNVTVSVFESYCCHLER 124
Cyclin pfam08613
Cyclin; This family includes many different cyclin proteins. Members include the G1/S-specific ...
 55-180 2.93e-09

Cyclin; This family includes many different cyclin proteins. Members include the G1/S-specific cyclin pas1, and the phosphate system cyclin PHO80/PHO85.


Pssm-ID: 400780  Cd Length: 149  Bit Score: 53.99  E-value: 2.93e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002270397  55 IRAFRGGATPTVRIGEFLERIHTFIQQESvrhvieiqgACYVLAGIYLIRFIRSGAAREagILIDPSTAHRLVAVAIFVG 134
Cdd:pfam08613  41 ELSFYSKAVPAISIGAYLSRIQKFCPSSP---------AVLLSALIYLDRLVKRCDSEA--FVVTSANAHRLLITAVTVA 109

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 1002270397 135 AKFGGPIYRLPTRWTVVfetssdAAIRAREMAGLERRFLIAVDYRL 180
Cdd:pfam08613 110 TKFLSDGFYSNSRFAKV------GGISLHELNHLEIDFLFLVDFDL 149
 
Name Accession Description Interval E-value
CYCLIN_AtCycU-like cd20604
cyclin box found in Arabidopsis thaliana U-type cyclins (CycUs) and similar proteins; CycUs ...
 55-196 5.10e-12

cyclin box found in Arabidopsis thaliana U-type cyclins (CycUs) and similar proteins; CycUs interact with cyclin-dependent kinase A-1 (CDKA-1) to trigger its kinase activity. CycUs contain one cyclin box. The cyclin box is a protein binding domain.


Pssm-ID: 410307  Cd Length: 126  Bit Score: 61.25  E-value: 5.10e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002270397  55 IRAFRGGATPTVRIGEFLERIHTFIQQESvrhvieiqgACYVLAGIYLIRFIRsgaaREAGILIDPSTAHRLVAVAIFVG 134
Cdd:cd20604     2 VTVFHGVRAPSISIASYLERIFKYTNCSP---------SCFVVAYVYIDRFIH----KQPGLPISSLNVHRLLITSVMVA 68

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1002270397 135 AKFGGPIYRLPTRWTVVfetssdAAIRAREMAGLERRFLIAVDYRLFVRADQFDWFCRVLER 196
Cdd:cd20604    69 AKFLDDLYYNNAYYAKV------GGVSTEELNRLELEFLFLLDFKLNVTVSVFESYCCHLER 124
CYCLIN_ScPCL7-like cd20558
cyclin box found in Saccharomyces cerevisiae PHO85 cyclin-7 (ScPCL7) and similar proteins; ...
 64-182 7.31e-10

cyclin box found in Saccharomyces cerevisiae PHO85 cyclin-7 (ScPCL7) and similar proteins; ScPCL7, also called PHO85-associated protein 1, is a cyclin partner of the cyclin-dependent kinase (CDK) PHO85. Together with cyclin PCL6, ScPCL7 controls glycogen phosphorylase and glycogen synthase activities in response to nutrient availablility. This family also includes Schizosaccharomyces pombe PHO85 cyclin-like protein Psl1 (SpPsl1) and Arabidopsis thaliana PHO80-like proteins, P-type cyclins (CYCPs). SpPsl1 is the cyclin partner of the CDK pef1 (PHO85 homolog). CYCPs may be involved in cell division, cell differentiation, and the nutritional status of the cell in Arabidopsis thaliana. Members of this family contain one cyclin box. The cyclin box is a protein binding domain.


Pssm-ID: 410261  Cd Length: 101  Bit Score: 54.49  E-value: 7.31e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002270397  64 PTVRIGEFLERIHTFiqqesvRHVieiQGACYVLAGIYLIRFIrsgaAREAGILIDPSTAHRLVAVAIFVGAKFGGPIYR 143
Cdd:cd20558     1 PSISILDYLERIVKY------CPC---SPECFLLALIYIDRLI----ATINGFVVTSLNVHRLLITALTLAAKFLDDRYY 67

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1002270397 144 LPTRWTVVfetssdAAIRAREMAGLERRFLIAVDYRLFV 182
Cdd:cd20558    68 SNAYYAKV------GGVSVSELNKLELEFLFLLDFDLHV 100
Cyclin pfam08613
Cyclin; This family includes many different cyclin proteins. Members include the G1/S-specific ...
 55-180 2.93e-09

Cyclin; This family includes many different cyclin proteins. Members include the G1/S-specific cyclin pas1, and the phosphate system cyclin PHO80/PHO85.


Pssm-ID: 400780  Cd Length: 149  Bit Score: 53.99  E-value: 2.93e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002270397  55 IRAFRGGATPTVRIGEFLERIHTFIQQESvrhvieiqgACYVLAGIYLIRFIRSGAAREagILIDPSTAHRLVAVAIFVG 134
Cdd:pfam08613  41 ELSFYSKAVPAISIGAYLSRIQKFCPSSP---------AVLLSALIYLDRLVKRCDSEA--FVVTSANAHRLLITAVTVA 109

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 1002270397 135 AKFGGPIYRLPTRWTVVfetssdAAIRAREMAGLERRFLIAVDYRL 180
Cdd:pfam08613 110 TKFLSDGFYSNSRFAKV------GGISLHELNHLEIDFLFLVDFDL 149
 
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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