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Conserved domains on  [gi|1063736938|ref|NP_001330774|]
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Cyclin family protein [Arabidopsis thaliana]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CYCLIN_AtCycC_rpt2 cd20572
second cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 98-201 4.40e-60

second cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; CycCs are the cognate cyclin partners of cyclin-dependent kinase CDK8. They may be involved in cell cycle control. CycCs contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


:

Pssm-ID: 410275 [Multi-domain]  Cd Length: 102  Bit Score: 183.05  E-value: 4.40e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938  98 HPYRSLSEFLQDAALndVNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIASVHREKDITAWFEDLHEDMNLVKNIAM 177
Cdd:cd20572     1 HPYRPLIQLLQDAGL--TDMTQFTWSIVNDTYRTDLILIHPPYMIALACIYIASVHKEKDITLWFEELRVDMNIIKNIAM 78

                          90       100
                  ....*....|....*....|....
gi 1063736938 178 EILDFYENYRTITEEKVNSAFSKL 201
Cdd:cd20572    79 EILDFYDNYRLIPEERINAALNKL 102
CYCLIN_SF super family cl40454
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 1-93 8.30e-52

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 cd20571:

Pssm-ID: 477360 [Multi-domain]  Cd Length: 107  Bit Score: 162.33  E-value: 8.30e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   1 MKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKRLYPDEYNKYELKDIL 80
Cdd:cd20571    15 KKLAQHIKVRQRVVATAITYFRRVYTRKSFTEYDPRLVAPTCLYLASKAEESTVQAKLLVFYMKRLYADEYHRYEIKDIL 94

                          90
                  ....*....|...
gi 1063736938  81 GMEMKVLEALDYY 93
Cdd:cd20571    95 EMEMKLLEALDYY 107
 
Name Accession Description Interval E-value
CYCLIN_AtCycC_rpt2 cd20572
second cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 98-201 4.40e-60

second cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; CycCs are the cognate cyclin partners of cyclin-dependent kinase CDK8. They may be involved in cell cycle control. CycCs contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410275 [Multi-domain]  Cd Length: 102  Bit Score: 183.05  E-value: 4.40e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938  98 HPYRSLSEFLQDAALndVNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIASVHREKDITAWFEDLHEDMNLVKNIAM 177
Cdd:cd20572     1 HPYRPLIQLLQDAGL--TDMTQFTWSIVNDTYRTDLILIHPPYMIALACIYIASVHKEKDITLWFEELRVDMNIIKNIAM 78

                          90       100
                  ....*....|....*....|....
gi 1063736938 178 EILDFYENYRTITEEKVNSAFSKL 201
Cdd:cd20572    79 EILDFYDNYRLIPEERINAALNKL 102
CYCLIN_AtCycC_rpt1 cd20571
first cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 1-93 8.30e-52

first cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; Plant CycCs are the cognate cyclin partners of cyclin-dependent kinase CDK8. They may be involved in cell cycle control. CycCs contain two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410274 [Multi-domain]  Cd Length: 107  Bit Score: 162.33  E-value: 8.30e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   1 MKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKRLYPDEYNKYELKDIL 80
Cdd:cd20571    15 KKLAQHIKVRQRVVATAITYFRRVYTRKSFTEYDPRLVAPTCLYLASKAEESTVQAKLLVFYMKRLYADEYHRYEIKDIL 94

                          90
                  ....*....|...
gi 1063736938  81 GMEMKVLEALDYY 93
Cdd:cd20571    95 EMEMKLLEALDYY 107
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 1-198 6.27e-37

Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair];


Pssm-ID: 227640 [Multi-domain]  Cd Length: 297  Bit Score: 130.24  E-value: 6.27e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   1 MKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKRLYPDEYnKYELKDIL 80
Cdd:COG5333    53 MDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTPRDISIESFEARDLWSEEP-KSSRERIL 131

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938  81 GMEMKVLEALDYYLVVFHPYRSLSEFLQDAALND-VNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIA-SVHREKDI 158
Cdd:COG5333   132 EYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDkYKLLQIAWKIINDALRTDLCLLYPPHIIALAALLIAcEVLGMPII 211

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|.
gi 1063736938 159 TAWFEDLHEDMNLVKN-IAMEILDFYENYRTITEEKVNSAF 198
Cdd:COG5333   212 KLLDFVSYETKEEVIAlNYKSIVKNKIKTFKAEHLSRDLPF 252
ccl1 TIGR00569
cyclin ccl1; All proteins in this family for which functions are known are cyclins that are ...
 13-150 2.37e-18

cyclin ccl1; All proteins in this family for which functions are known are cyclins that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, StanfordUniversity). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129660 [Multi-domain]  Cd Length: 305  Bit Score: 81.03  E-value: 2.37e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938  13 VVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKrlypdEYNKYELKDILGMEMKVLEALDY 92
Cdd:TIGR00569  78 VVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLK-----ETPLKALEQVLEYELLLIQQLNF 152

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1063736938  93 YLVVFHPYRSLSEFLQD------AALNDVNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIA 150
Cdd:TIGR00569 153 HLIVHNPYRPLEGFLIDiktrlpGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHT 216
Cyclin_N pfam00134
Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a ...
 1-94 5.76e-14

Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a Uracil-DNA glycosylase that is related to other cyclins. Cyclins contain two domains of similar all-alpha fold, of which this family corresponds with the N-terminal domain.


Pssm-ID: 459686 [Multi-domain]  Cd Length: 127  Bit Score: 65.62  E-value: 5.76e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   1 MKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEE-SIVQARNLVFYIKrlypdeyNKYELKDI 79
Cdd:pfam00134  39 VEVHEKFKLLPETLYLAVNYLDRFLSKKSVPKNKLQLVGVTCLFIAAKYEEiYPPTVEDLVYITD-------NAYTREEI 111

                          90
                  ....*....|....*
gi 1063736938  80 LGMEMKVLEALDYYL 94
Cdd:pfam00134 112 LRMERLILETLNFDL 126
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 1-88 8.36e-10

domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.


Pssm-ID: 214641 [Multi-domain]  Cd Length: 83  Bit Score: 53.37  E-value: 8.36e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938    1 MKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIkrlypdeyNKYELKDIL 80
Cdd:smart00385   4 RRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYT--------GYFTEEEIL 75


                   ....*...
gi 1063736938   81 GMEMKVLE 88
Cdd:smart00385  76 RMERLLLE 83
 
Name Accession Description Interval E-value
CYCLIN_AtCycC_rpt2 cd20572
second cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 98-201 4.40e-60

second cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; CycCs are the cognate cyclin partners of cyclin-dependent kinase CDK8. They may be involved in cell cycle control. CycCs contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410275 [Multi-domain]  Cd Length: 102  Bit Score: 183.05  E-value: 4.40e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938  98 HPYRSLSEFLQDAALndVNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIASVHREKDITAWFEDLHEDMNLVKNIAM 177
Cdd:cd20572     1 HPYRPLIQLLQDAGL--TDMTQFTWSIVNDTYRTDLILIHPPYMIALACIYIASVHKEKDITLWFEELRVDMNIIKNIAM 78

                          90       100
                  ....*....|....*....|....
gi 1063736938 178 EILDFYENYRTITEEKVNSAFSKL 201
Cdd:cd20572    79 EILDFYDNYRLIPEERINAALNKL 102
CYCLIN_AtCycC_rpt1 cd20571
first cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 1-93 8.30e-52

first cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; Plant CycCs are the cognate cyclin partners of cyclin-dependent kinase CDK8. They may be involved in cell cycle control. CycCs contain two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410274 [Multi-domain]  Cd Length: 107  Bit Score: 162.33  E-value: 8.30e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   1 MKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKRLYPDEYNKYELKDIL 80
Cdd:cd20571    15 KKLAQHIKVRQRVVATAITYFRRVYTRKSFTEYDPRLVAPTCLYLASKAEESTVQAKLLVFYMKRLYADEYHRYEIKDIL 94

                          90
                  ....*....|...
gi 1063736938  81 GMEMKVLEALDYY 93
Cdd:cd20571    95 EMEMKLLEALDYY 107
CYCLIN_CCNC_rpt2 cd20514
second cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 98-190 5.95e-42

second cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or SRB11, is a component of the Mediator complex, a coactivator involved in regulated gene transcription of nearly all RNA polymerase II-dependent genes. It mediates stress-induced mitochondrial fission and apoptosis. CCNC contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410218 [Multi-domain]  Cd Length: 92  Bit Score: 136.60  E-value: 5.95e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938  98 HPYRSLSEFLQDAALNDvNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIASVHREKDITAWFEDLHEDMNLVKNIAM 177
Cdd:cd20514     1 HPYRPLTQYVQDAGLDD-ELLPLAWRIVNDSYRTDVCLLYPPYLIALACLHMACVLLQKDARQWFAELNVDMDKILEITR 79

                          90
                  ....*....|...
gi 1063736938 178 EILDFYENYRTIT 190
Cdd:cd20514    80 EILSLYELWKTFD 92
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 1-198 6.27e-37

Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair];


Pssm-ID: 227640 [Multi-domain]  Cd Length: 297  Bit Score: 130.24  E-value: 6.27e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   1 MKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKRLYPDEYnKYELKDIL 80
Cdd:COG5333    53 MDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTPRDISIESFEARDLWSEEP-KSSRERIL 131

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938  81 GMEMKVLEALDYYLVVFHPYRSLSEFLQDAALND-VNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIA-SVHREKDI 158
Cdd:COG5333   132 EYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDkYKLLQIAWKIINDALRTDLCLLYPPHIIALAALLIAcEVLGMPII 211

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|.
gi 1063736938 159 TAWFEDLHEDMNLVKN-IAMEILDFYENYRTITEEKVNSAF 198
Cdd:COG5333   212 KLLDFVSYETKEEVIAlNYKSIVKNKIKTFKAEHLSRDLPF 252
CYCLIN_CCNC_rpt1 cd20513
first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 1-90 1.00e-36

first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or SRB11, is a component of the Mediator complex, a coactivator involved in regulated gene transcription of nearly all RNA polymerase II-dependent genes. It mediates stress-induced mitochondrial fission and apoptosis. CCNC contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410217 [Multi-domain]  Cd Length: 101  Bit Score: 123.47  E-value: 1.00e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   1 MKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKRLYPDEY--NKYELKD 78
Cdd:cd20513    10 QALGERLKLRQRVIATAIVYFKRFYARNSFKDIDPRLVAPTCLYLASKVEECPSHARLIVAEAKVLKTKFSyeFPYRVND 89

                          90
                  ....*....|..
gi 1063736938  79 ILGMEMKVLEAL 90
Cdd:cd20513    90 ILECEFYLLEAL 101
CYCLIN_CCNH_rpt1 cd20524
first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 1-94 1.01e-18

first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called MO15-associated protein, p34, or p37, is normally associated with the cyclin-dependent kinase cdk7, the catalytic subunit of the CDK-activating kinase (CAK) enzymatic complex. CCNH contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410228  Cd Length: 150  Bit Score: 78.79  E-value: 1.01e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   1 MKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKRLYPDEynkyelKDIL 80
Cdd:cd20524    63 LEFCRAFKLPDSVLATALTYFKRFYLKNSVMEYHPKEIMLTCLYLACKVEEFNISIDQFVGNIKESEKTA------EIIL 136

                          90
                  ....*....|....
gi 1063736938  81 GMEMKVLEALDYYL 94
Cdd:cd20524   137 EYELLLLQGLNFHL 150
CYCLIN_SpCG1C_ScCTK2-like_rpt2 cd20546
second cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1), Saccharomyces ...
 98-185 1.15e-18

second cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1), Saccharomyces cerevisiae CTD kinase subunit 2 (ScCTK2), and similar proteins; Cyclin pch1 is essential for progression through the whole cell cycle. It is a homolog of cyclin T; it forms a heterodimer with its partner kinase, cyclin-dependent kinase 9 (CDK9), that can phosphorylate both the pol II C-terminal domain (CTD) and the CTD of transcription elongation factor Spt5. Yeast Cdk9/Pch1, with mRNA capping enzyme Pct1, may also form an elongation checkpoint for mRNA quality control. CTK2, also called CTD kinase subunit beta, CTDK-I subunit beta, or CTD kinase 38 kDa subunit, is the cyclin subunit of the CTDK-I complex, which hyperphosphorylates the C-terminal heptapeptide repeat domain (CTD) of the largest RNA polymerase II subunit. This group also includes yeast RNA polymerase II holoenzyme cyclin-like subunit, a component of the SRB8-11 complex, a regulatory module of the Mediator complex which is involved in regulation of basal and activated RNA polymerase II-dependent transcription. Members of this family contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410249 [Multi-domain]  Cd Length: 97  Bit Score: 77.02  E-value: 1.15e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938  98 HPYRSLSEFLQDAALNDVN-MNQITWGIVNDTYKMDLILVHPPYRIALACIYIASVHREKD--------ITAWFEDLHED 168
Cdd:cd20546     1 HPYQYLIKFAKKLGVSDPKeLAQLAWAFLNDSYRTPLCLLYPPHVIAAAAIYLAAKLLGIDlelspnekLNEWWELFGVD 80

                          90
                  ....*....|....*..
gi 1063736938 169 MNLVKNIAMEILDFYEN 185
Cdd:cd20546    81 EEEIADAINEILDLYSS 97
ccl1 TIGR00569
cyclin ccl1; All proteins in this family for which functions are known are cyclins that are ...
 13-150 2.37e-18

cyclin ccl1; All proteins in this family for which functions are known are cyclins that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, StanfordUniversity). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129660 [Multi-domain]  Cd Length: 305  Bit Score: 81.03  E-value: 2.37e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938  13 VVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKrlypdEYNKYELKDILGMEMKVLEALDY 92
Cdd:TIGR00569  78 VVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLK-----ETPLKALEQVLEYELLLIQQLNF 152

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1063736938  93 YLVVFHPYRSLSEFLQD------AALNDVNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIA 150
Cdd:TIGR00569 153 HLIVHNPYRPLEGFLIDiktrlpGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALAAILHT 216
Cyclin_N pfam00134
Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a ...
 1-94 5.76e-14

Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a Uracil-DNA glycosylase that is related to other cyclins. Cyclins contain two domains of similar all-alpha fold, of which this family corresponds with the N-terminal domain.


Pssm-ID: 459686 [Multi-domain]  Cd Length: 127  Bit Score: 65.62  E-value: 5.76e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   1 MKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEE-SIVQARNLVFYIKrlypdeyNKYELKDI 79
Cdd:pfam00134  39 VEVHEKFKLLPETLYLAVNYLDRFLSKKSVPKNKLQLVGVTCLFIAAKYEEiYPPTVEDLVYITD-------NAYTREEI 111

                          90
                  ....*....|....*
gi 1063736938  80 LGMEMKVLEALDYYL 94
Cdd:pfam00134 112 LRMERLILETLNFDL 126
CYCLIN_CCNK_rpt1 cd20530
first cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase ...
 1-90 7.05e-13

first cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase II-associated C-type cyclin possessing both carboxy-terminal domain kinase and Cdk-activating kinase activity. It is a regulatory subunit of cyclin-dependent kinases that mediates the activation of these target kinases. It plays a role in transcriptional regulation by controlling the phosphorylation of the C-terminal domain (CTD) of the large subunit of RNA polymerase II (POLR2A). CCNK contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410233 [Multi-domain]  Cd Length: 115  Bit Score: 62.64  E-value: 7.05e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   1 MKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKRLYPDEY--NKYE--L 76
Cdd:cd20530    19 QDVGTKLGLPYDTIATGIVYFHRFYMFHSFKDFDRYVTAACCLFLAGKVEETPKKCKDIIKTARSLLNDKQfaQFGDdpK 98

                          90
                  ....*....|....
gi 1063736938  77 KDILGMEMKVLEAL 90
Cdd:cd20530    99 EEVMVLERILLQTI 112
CYCLIN_AcCycH_rpt1 cd20585
first cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; CycH ...
 12-94 6.12e-11

first cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; CycH associates with and activates the cyclin-dependent kinases, CDK-2 and CDK-3. CycH contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410288  Cd Length: 170  Bit Score: 58.69  E-value: 6.12e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938  12 RVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVfyiKRLYPDEynkyelKDILGMEMKVLEALD 91
Cdd:cd20585    97 KIQATALLYFKRFYLQWSVMEHDPKRIMLTCIYLACKVEEYHVSAEELG---KGIQQDH------QLILKNELALLQGLN 167


                  ...
gi 1063736938  92 YYL 94
Cdd:cd20585   168 FDL 170
CYCLIN_CCNM_CCNQ_rpt2 cd20535
second cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ...
 97-185 6.47e-10

second cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ancient conserved domain proteins (ACDPs), are evolutionarily conserved Mg2+ transporters. CCNM, also called cyclin-Q (CCNQ), or CDK10-activating cyclin, or cyclin-related protein FAM58A, associates with CDK10 to promote its kinase activity. Members of this family contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410238 [Multi-domain]  Cd Length: 104  Bit Score: 54.19  E-value: 6.47e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938  97 FHPY-----RSLSEFLQDAALNDVNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIA-SVHR------EKDITAWFED 164
Cdd:cd20535     2 PHKYllhylKSLRDWLNPEFWSRSPIAKTAWSLLRDFYHSPLCLQFKPQHIALAVIYLAlQVYGvkvppeEEAEKPWWQA 81

                          90       100
                  ....*....|....*....|...
gi 1063736938 165 LHED--MNLVKNIAMEILDFYEN 185
Cdd:cd20535    82 FCEDltKETIDEIIEDIINVYDL 104
CYCLIN_SpCG1C-like_rpt1 cd20545
first cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1) and similar ...
 1-60 6.51e-10

first cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1) and similar proteins; Cyclin pch1 is essential for progression through the whole cell cycle. It is a homolog of cyclin T; it forms a heterodimer with its partner kinase, cyclin-dependent kinase 9 (CDK9), that can phosphorylate both the pol II C-terminal domain (CTD) and the CTD of transcription elongation factor Spt5. Yeast Cdk9/Pch1, with mRNA capping enzyme Pct1, may also form an elongation checkpoint for mRNA quality control. Members of this family contain two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410248 [Multi-domain]  Cd Length: 116  Bit Score: 54.74  E-value: 6.51e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   1 MKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLV 60
Cdd:cd20545    13 IRVGSRLKLPQTTLFTAATYFHRFYMRNSLKKYHYYEIAATCLFLATKVEESGRKLRDIV 72
CYCLIN_AcCycT_rpt1 cd20587
first cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
 3-61 8.33e-10

first cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; CycTs associate with their partner cyclin-dependent kinases (CDKs) to trigger their kinase activity. CycTs show high sequence similarity with metazoan cyclin-K (CCNK). CycTs contain two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410290 [Multi-domain]  Cd Length: 124  Bit Score: 54.45  E-value: 8.33e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1063736938   3 LAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVF 61
Cdd:cd20587    22 LGMRLKVPQVTIATAIVFCHRFFLRQSHAKNDRQTIATVCMFLAGKVEETPRPLKDVIV 80
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 1-88 8.36e-10

domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.


Pssm-ID: 214641 [Multi-domain]  Cd Length: 83  Bit Score: 53.37  E-value: 8.36e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938    1 MKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIkrlypdeyNKYELKDIL 80
Cdd:smart00385   4 RRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYT--------GYFTEEEIL 75


                   ....*...
gi 1063736938   81 GMEMKVLE 88
Cdd:smart00385  76 RMERLLLE 83
CYCLIN_CCNM_CCNQ_rpt1 cd20534
first cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ...
 1-92 1.27e-09

first cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ancient conserved domain proteins (ACDPs), are evolutionarily conserved Mg2+ transporters. CCNM, also called cyclin-Q (CCNQ), or CDK10-activating cyclin, or cyclin-related protein FAM58A, associates with CDK10 to promote its kinase activity. Members of this family contain two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410237 [Multi-domain]  Cd Length: 110  Bit Score: 53.71  E-value: 1.27e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   1 MKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNL--VFYI------KRLYP-DEY 71
Cdd:cd20534    10 REAGLKLELSSVTIATACVLYHRFYRELSLEDYDPYLVAMACLYLAGKAEEQPRRLRDIinVSYRilhpdkPPLELdDEY 89

                          90       100
                  ....*....|....*....|..
gi 1063736938  72 nkYELKD-ILGMEMKVLEALDY 92
Cdd:cd20534    90 --WELRDsIVNCELLLLRILKF 109
CYCLIN_CCNL_rpt1 cd20532
first cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 ...
 8-90 1.42e-09

first cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 and CCNL2. CCNL1 is involved in the regulation of RNA polymerase II (pol II) transcription. It functions in association with cyclin-dependent kinases (CDKs). CCNL2 is a novel RNA polymerase II-associated cyclin involved in pre-mRNA splicing. It may induce cell death, possibly by acting on the transcription and RNA processing of apoptosis-related factors. Members of this family contain two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410235 [Multi-domain]  Cd Length: 127  Bit Score: 53.72  E-value: 1.42e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   8 KVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNL--VFY---------IKRLYPDEYNK--- 73
Cdd:cd20532    27 KLPQVVMATAQVLFHRFYYRKSLRKFDVKIVAMACLFLASKIEETPRRLRDVinVFHrllqrrlgkPAEVLPLDIGSaey 106

                          90
                  ....*....|....*...
gi 1063736938  74 YELK-DILGMEMKVLEAL 90
Cdd:cd20532   107 EELKnDIIKAERRILKEL 124
CYCLIN_CCNT2_rpt1 cd20596
first cyclin box found in cyclin-T2 (CCNT2); CCNT2, also termed CycT2, is a regulatory subunit ...
 3-64 4.45e-08

first cyclin box found in cyclin-T2 (CCNT2); CCNT2, also termed CycT2, is a regulatory subunit of the cyclin-dependent kinase pair (CDK9/cyclin T) complex, also called positive transcription elongation factor B (P-TEFb), which is proposed to facilitate the transition from abortive to production elongation by phosphorylating the CTD (carboxy-terminal domain) of the large subunit of RNA polymerase II (RNAP II). CCNT2 contains two cyclin boxs. The model responds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410299 [Multi-domain]  Cd Length: 139  Bit Score: 50.05  E-value: 4.45e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1063736938   3 LAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEEsivQARNLVFYIK 64
Cdd:cd20596    40 MGQRLNVSQLTINTAIVYMHRFYMHHSFTKFHRNIISPTALFLAAKVEE---QPRKLEHVIK 98
CYCLIN_CCNL_rpt2 cd20533
second cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 ...
 98-183 6.26e-08

second cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 and CCNL2. CCNL1 is involved in regulation of RNA polymerase II (pol II) transcription. It functions in association with cyclin-dependent kinases (CDKs). CCNL2 is a novel RNA polymerase II-associated cyclin involved in pre-mRNA splicing. It may induce cell death, possibly by acting on the transcription and RNA processing of apoptosis-related factors. Members of this family contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410236 [Multi-domain]  Cd Length: 92  Bit Score: 48.75  E-value: 6.26e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938  98 HPYRSLSEFLQDAAL-NDVNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIASVHREKDI---TAWFEDLHEDMNLVK 173
Cdd:cd20533     1 HPHKFILMYLQVLEGeDNKKLAQTAWNYMNDSLRTDLCVRYPPEVIACACIYLAARELGIPLplpPPWWELFDVSKEDIE 80

                          90
                  ....*....|
gi 1063736938 174 NIAMEILDFY 183
Cdd:cd20533    81 EICLTILELY 90
CYCLIN_ScCTK2-like_rpt1 cd20547
first cyclin box found in Saccharomyces cerevisiae CTD kinase subunit 2 (ScCTK2) and similar ...
 3-92 1.42e-07

first cyclin box found in Saccharomyces cerevisiae CTD kinase subunit 2 (ScCTK2) and similar proteins; CTK2, also called CTD kinase subunit beta, CTDK-I subunit beta, or CTD kinase 38 kDa subunit, is the cyclin subunit of the CTDK-I complex, which hyperphosphorylates the C-terminal heptapeptide repeat domain (CTD) of the largest RNA polymerase II subunit. CTK2 contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410250 [Multi-domain]  Cd Length: 110  Bit Score: 48.11  E-value: 1.42e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   3 LAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQAR-------NLVFYIKRLYPDEYNKYE 75
Cdd:cd20547    12 LCKKLKFPRRTLGTAMLLYQRFHLFNPFTDSSNYEVALACLFLASKIEDTQKKSKdilaasyNLRHPDKISVDDQMLEEF 91

                          90
                  ....*....|....*..
gi 1063736938  76 LKDILGMEMKVLEALDY 92
Cdd:cd20547    92 RKAILGLERLLLETICF 108
CYCLIN_CCNT_rpt1 cd20538
first cyclin box found in cyclin-T (CCNT) family; The CCNT family includes two C-type cyclins, ...
 5-64 3.35e-07

first cyclin box found in cyclin-T (CCNT) family; The CCNT family includes two C-type cyclins, cyclin-T1 (CCNT1) and cyclin-T2 (CCNT2), both of which are regulatory subunits of the cyclin-dependent kinase pair (CDK9/cyclin-T) complex, also called positive transcription elongation factor B (P-TEFb), which is proposed to facilitate the transition from abortive to productive elongation by phosphorylating the CTD (C-terminal domain) of the large subunit of RNA polymerase II (RNA Pol II). Members of this family contain two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410241 [Multi-domain]  Cd Length: 137  Bit Score: 47.77  E-value: 3.35e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   5 QHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEEsivQARNLVFYIK 64
Cdd:cd20538    40 QRLQVSQLCINTAIVYMHRFYMFHSFTKFHRNSIAAAALFLAAKVEE---QPRKLEHVIK 96
CYCLIN_CCNT1_rpt1 cd20595
first cyclin box found in cyclin-T1 (CCNT1); CCNT1, also termed CycT1, is a host factor ...
 3-92 3.55e-07

first cyclin box found in cyclin-T1 (CCNT1); CCNT1, also termed CycT1, is a host factor essential for HIV-1 replication in CD4 T cells and macrophages. It is a regulatory subunit of the cyclin-dependent kinase pair (CDK9/cyclin-T1) complex, also called positive transcription elongation factor B (P-TEFb), which is proposed to facilitate the transition from abortive to productive elongation by phosphorylating the CTD (C-terminal domain) of the large subunit of RNA polymerase II (RNA Pol II). CCNT1 contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410298 [Multi-domain]  Cd Length: 138  Bit Score: 47.74  E-value: 3.55e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   3 LAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEEsivQARNLVFYIKRLY---------PD---E 70
Cdd:cd20595    39 MGQRLNVSQLTINTAIVYMHRFYMIQSFTQFHRNSVAPAALFLAAKVEE---QPKKLEHVIKVAHtclhpqeslPDtrsE 115

                          90       100
                  ....*....|....*....|..
gi 1063736938  71 YNKYELKDILGMEMKVLEALDY 92
Cdd:cd20595   116 AYLQQVQDLVILESIILQTLGF 137
CYCLIN_AcCycL_rpt1 cd20591
first cyclin box found in Arabidopsis thaliana L-type cyclins (CycL) and similar proteins; ...
 7-66 9.39e-07

first cyclin box found in Arabidopsis thaliana L-type cyclins (CycL) and similar proteins; Cyclin-L1-1 (CycL1), also called arginine-rich cyclin 1 (AtRCY1), or protein MODIFIER OF SNC1 12, is the cognate cyclin for cyclin-dependent kinase G1 (CDKG1). It is involved in regulation of DNA methylation and transcriptional silencing. It is required for synapsis and male meiosis, and for the proper splicing of specific resistance (R) genes. L-type cyclins contain two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410294 [Multi-domain]  Cd Length: 128  Bit Score: 46.37  E-value: 9.39e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   7 IKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKRL 66
Cdd:cd20591    29 LKLPQAVMATGQVLFQRFYCKKSFARFNVKRVAASCVWLAAKLEESPRKIRQVLMVFHRM 88
CYCLIN_SF cd00043
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 2-62 1.10e-06

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.


Pssm-ID: 410207 [Multi-domain]  Cd Length: 82  Bit Score: 45.09  E-value: 1.10e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1063736938   2 KLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFY 62
Cdd:cd00043     8 RLCSKLGLPEEVLELAIELLDRFLSKGLLLGRSPELIAAACLYLACKLEELPRTLKEIAKV 68
CYCLIN_CCNK_rpt2 cd20531
second cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA ...
 98-183 7.52e-06

second cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase II-associated C-type cyclin possessing both carboxy-terminal domain kinase and Cdk-activating kinase activity. It is a regulatory subunit of cyclin-dependent kinases that mediates the activation of these target kinases. It plays a role in transcriptional regulation by controlling the phosphorylation of the C-terminal domain (CTD) of the large subunit of RNA polymerase II (POLR2A). CCNK contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410234 [Multi-domain]  Cd Length: 101  Bit Score: 43.10  E-value: 7.52e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938  98 HPYRSLSEF---LQDAALNDVNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIASVHREKDITA---------WFEDL 165
Cdd:cd20531     2 HPYKYLLKYakqLKGDKNKIQKLVQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAAKLSKFDLQDwtskppgkrWWEQF 81

                          90       100
                  ....*....|....*....|
gi 1063736938 166 HEDMN--LVKNIAMEILDFY 183
Cdd:cd20531    82 VEDVSleVLEDICHQVLDLY 101
CYCLIN_AcCycT_rpt2 cd20588
second cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
 98-184 1.45e-05

second cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; CycTs associate with their partner cyclin-dependent kinases (CDKs) to trigger their kinase activity. CycTs show high sequence similarity with metazoan cyclin-K (CCNK). CycTs contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410291 [Multi-domain]  Cd Length: 93  Bit Score: 42.14  E-value: 1.45e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938  98 HPYRSLSEFLQDAALNDVNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIASVHREKDI-----TAWFEDLHEDMNLV 172
Cdd:cd20588     2 HPYKPLVAAIKKFNVAQNALAQAAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLpcdgrKVWWQEFDVTPRQL 81

                          90
                  ....*....|..
gi 1063736938 173 KNIAMEILDFYE 184
Cdd:cd20588    82 EEVSNQMLELYE 93
CYCLIN_CCNH_rpt2 cd20525
second cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 97-165 5.44e-05

second cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called MO15-associated protein, p34, or p37, is normally associated with the cyclin-dependent kinase cdk7, the catalytic subunit of the CDK-activating kinase (CAK) enzymatic complex. CCNH contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410229  Cd Length: 126  Bit Score: 41.12  E-value: 5.44e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1063736938  97 FHPYRSLSEFLQD-----AALNDVNMNQITWG---IVNDTYKMDLILVHPPYRIALACIYIASVHREKDITAWFEDL 165
Cdd:cd20525     1 HHPYRPLEGFLLDlktrlPDLKAENLEKLYKEareFLNRSLLTDAPLLYPPSQIALAALLLAASEAGIDVEEYLSEK 77
CYCLIN_CCNL2_rpt2 cd20593
second cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA ...
 98-195 1.26e-04

second cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA polymerase II-associated cyclin that is involved in pre-mRNA splicing. It may induce cell death, possibly by acting on the transcription and RNA processing of apoptosis-related factors. CCNL2 contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410296 [Multi-domain]  Cd Length: 123  Bit Score: 40.34  E-value: 1.26e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938  98 HPYRSLSEFLQDAAL-NDVNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIASVHREKDITA---WFEDLHEDMNLVK 173
Cdd:cd20593     1 HPHKIIVMYLQVLECeRNRHLVQTSWNYMNDSLRTDVFVRFNPETIACACIYLAARTLEIPLPNrphWFLLFGATEEEIQ 80

                          90       100
                  ....*....|....*....|..
gi 1063736938 174 NIAMEILDFYenyrtiTEEKVN 195
Cdd:cd20593    81 EICLKILQLY------TRKKVD 96
CYCLIN_CCNB1-like_rpt1 cd20507
first cyclin box found in cyclin-B1 (CCNB1)-like family; The CCNB1-like family includes two ...
 37-92 9.81e-04

first cyclin box found in cyclin-B1 (CCNB1)-like family; The CCNB1-like family includes two B-type cyclins, CCNB1 and CCNB2, both of which are essential for the control of the cell cycle at the G2/M (mitosis) transition. Members in this family contain two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410211 [Multi-domain]  Cd Length: 130  Bit Score: 37.89  E-value: 9.81e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1063736938  37 LVALTCLYLASKAEEsivqarnlvfyikrLYPDEY--------NKYELKDILGMEMKVLEALDY 92
Cdd:cd20507    81 LVGVTALLIASKYEE--------------IYPPEIkdfvyitdNAYTREEILQMERDILKTLDF 130
CYCLIN_CNTD2 cd20542
cyclin box found in Cyclin N-terminal domain-containing protein 2 (CNTD2) and similar proteins; ...
 5-94 1.40e-03

cyclin box found in Cyclin N-terminal domain-containing protein 2 (CNTD2) and similar proteins; CNTD2 is an atypical cyclin upregulated in human cancer tissues. It promotes cell proliferation and migration, as well as increases tumor growth in vivo. It can function as a prognostic factor and drug target. CNTD2 contains one cyclin box. The cyclin box is a protein binding domain.


Pssm-ID: 410245 [Multi-domain]  Cd Length: 96  Bit Score: 36.53  E-value: 1.40e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   5 QHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYikrLYPDEYNKyelKDILGMEM 84
Cdd:cd20542    13 EHLELSTQTLHLAVALLDRYLSRQKISLSLLQLLGITCLFIACKFEERFPPEVATLCY---LTDDSYSK---KQVLRMER 86

                          90
                  ....*....|
gi 1063736938  85 KVLEALDYYL 94
Cdd:cd20542    87 RVLRRLRFDL 96
CYCLIN_ScCLN_like cd20559
cyclin box found in Saccharomyces cerevisiae G1/S-specific cyclins (ScCLNs) and similar ...
 1-92 1.68e-03

cyclin box found in Saccharomyces cerevisiae G1/S-specific cyclins (ScCLNs) and similar proteins; ScCLNs, including ScCLN1-3, are essential for the control of the cell cycle at the G1/S (start) transition in Saccharomyces. ScCLN1 and ScCLN2 interact with the CDC28 protein kinase to form maturation promoting factor (MPF). ScCLN3 may be an upstream activator of the G1 cyclins that directly initiate G1/S transition. This family also includes Schizosaccharomyces pombe cyclin puc1, which contributes to negative regulation of the timing of sexual development in fission yeast, and functions at the transition between cycling and non-cycling cells. It interacts with protein kinase A. Members of this family contain one cyclin box. The cyclin box is a protein binding domain.


Pssm-ID: 410262 [Multi-domain]  Cd Length: 95  Bit Score: 36.59  E-value: 1.68e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   1 MKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESivQARNLVFYIKRLYPDeyNKYELKDIL 80
Cdd:cd20559     7 FELHVELRLSPQTFFLSVNLIDRYCSKRIVLKKHYQLVGCTCLWIASKFWES--KARVPLLSELSKMCC--NSYGEELFI 82

                          90
                  ....*....|..
gi 1063736938  81 GMEMKVLEALDY 92
Cdd:cd20559    83 QMEMHILNTLNW 94
CYCLIN_AtCycD-like_rpt1 cd20543
first cyclin box found in plant cyclin-delta family; This subfamily is composed of plant delta ...
 2-92 1.91e-03

first cyclin box found in plant cyclin-delta family; This subfamily is composed of plant delta family cyclins, including a group of G1/S-specific D-type cyclins from Arabidopsis thaliana which may activate the cell cycle in the root apical meristem (RAM) and promote embryonic root (radicle) protrusion. Members of this family contain two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410246  Cd Length: 99  Bit Score: 36.53  E-value: 1.91e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   2 KLAQHIKVRQRVVATAITYMRR---VYIRKSMVEFEPRLVALTCLYLASKAEESIVQArnLVFYikRLYPDEYNkYELKD 78
Cdd:cd20543    11 KVRSRYGFGPLTAYLAVNYLDRflsSYDLPKDKPWMLQLLAVACLSLAAKMEETDVPL--LVDL--QVEEPKYV-FEAKT 85

                          90
                  ....*....|....
gi 1063736938  79 ILGMEMKVLEALDY 92
Cdd:cd20543    86 IQRMELLVLSTLEW 99
CYCLIN_CCNL2_rpt1 cd20590
first cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA ...
 7-66 5.24e-03

first cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA polymerase II-associated cyclin that is involved in pre-mRNA splicing. It may induce cell death, possibly by acting on the transcription and RNA processing of apoptosis-related factors. CCNL2 contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410293 [Multi-domain]  Cd Length: 156  Bit Score: 36.14  E-value: 5.24e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063736938   7 IKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKRL 66
Cdd:cd20590    58 LRLPQVAMATGQVLFQRFFYTKSFVKHSMEHVSMACVHLASKIEEAPRRIRDVINVFHRL 117
CYCLIN_CCNL1_rpt1 cd20589
first cyclin box found in cyclin-L1 (CCNL1) and similar proteins; CCNL1 is an L-type cyclin ...
 7-60 5.68e-03

first cyclin box found in cyclin-L1 (CCNL1) and similar proteins; CCNL1 is an L-type cyclin involved in the regulation of RNA polymerase II (pol II) transcription. It functions in association with cyclin-dependent kinases (CDKs). CCNL1 contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410292 [Multi-domain]  Cd Length: 124  Bit Score: 35.49  E-value: 5.68e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1063736938   7 IKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLV 60
Cdd:cd20589    26 LRLPQVAMATGQVLFQRFFYSKSFVKHSMEIVAMACINLASKIEEAPRRIRDVI 79
 
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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