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Conserved domains on  [gi|42568400|ref|NP_199675|]
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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_rpt1 cd20571
first cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 35-141 2.35e-62

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: 190.84  E-value: 2.35e-62
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  35 DDFKLIKFHMSNHIMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKRL 114
Cdd:cd20571   1 EDVKLIKIHMSNYIKKLAQHIKVRQRVVATAITYFRRVYTRKSFTEYDPRLVAPTCLYLASKAEESTVQAKLLVFYMKRL 80

                        90       100
                ....*....|....*....|....*..
gi 42568400 115 YPDEYNKYELKDILGMEMKVLEALDYY 141
Cdd:cd20571  81 YADEYHRYEIKDILEMEMKLLEALDYY 107
CYCLIN_AtCycC_rpt2 cd20572
second cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 146-249 2.35e-59

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: 2.35e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400 146 HPYRSLSEFLQDAALndVNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIASVHREKDITAWFEDLHEDMNLVKNIAM 225
Cdd:cd20572   1 HPYRPLIQLLQDAGL--TDMTQFTWSIVNDTYRTDLILIHPPYMIALACIYIASVHKEKDITLWFEELRVDMNIIKNIAM 78

                        90       100
                ....*....|....*....|....
gi 42568400 226 EILDFYENYRTITEEKVNSAFSKL 249
Cdd:cd20572  79 EILDFYDNYRLIPEERINAALNKL 102
 
Name Accession Description Interval E-value
CYCLIN_AtCycC_rpt1 cd20571
first cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 35-141 2.35e-62

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: 190.84  E-value: 2.35e-62
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  35 DDFKLIKFHMSNHIMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKRL 114
Cdd:cd20571   1 EDVKLIKIHMSNYIKKLAQHIKVRQRVVATAITYFRRVYTRKSFTEYDPRLVAPTCLYLASKAEESTVQAKLLVFYMKRL 80

                        90       100
                ....*....|....*....|....*..
gi 42568400 115 YPDEYNKYELKDILGMEMKVLEALDYY 141
Cdd:cd20571  81 YADEYHRYEIKDILEMEMKLLEALDYY 107
CYCLIN_AtCycC_rpt2 cd20572
second cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 146-249 2.35e-59

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: 2.35e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400 146 HPYRSLSEFLQDAALndVNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIASVHREKDITAWFEDLHEDMNLVKNIAM 225
Cdd:cd20572   1 HPYRPLIQLLQDAGL--TDMTQFTWSIVNDTYRTDLILIHPPYMIALACIYIASVHKEKDITLWFEELRVDMNIIKNIAM 78

                        90       100
                ....*....|....*....|....
gi 42568400 226 EILDFYENYRTITEEKVNSAFSKL 249
Cdd:cd20572  79 EILDFYDNYRLIPEERINAALNKL 102
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 7-246 5.21e-38

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: 134.47  E-value: 5.21e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400   7 NSSHYKQLLDPEEVDVVHDLDKERGISIDDFKLIkfhmsnhiMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLV 86
Cdd:COG5333  19 DSSQNAIELDLLVLEPELTLEKELNLVIYYLKLI--------MDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSV 90

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  87 ALTCLYLASKAEESIVQARNLVFYIKRLYPDEYnKYELKDILGMEMKVLEALDYYLVVFHPYRSLSEFLQDAALND-VNM 165
Cdd:COG5333  91 VTTCVYLACKVEDTPRDISIESFEARDLWSEEP-KSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDkYKL 169

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400 166 NQITWGIVNDTYKMDLILVHPPYRIALACIYIA-SVHREKDITAWFEDLHEDMNLVKN-IAMEILDFYENYRTITEEKVN 243
Cdd:COG5333 170 LQIAWKIINDALRTDLCLLYPPHIIALAALLIAcEVLGMPIIKLLDFVSYETKEEVIAlNYKSIVKNKIKTFKAEHLSRD 249


                ...
gi 42568400 244 SAF 246
Cdd:COG5333 250 LPF 252
ccl1 TIGR00569
cyclin ccl1; All proteins in this family for which functions are known are cyclins that are ...
 39-198 4.01e-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: 81.80  E-value: 4.01e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400    39 LIKFHmSNHIMKLAQHIKVR--QRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKrlyp 116
Cdd:TIGR00569  55 LVKYY-EKRLLDFCSAFKPTmpTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLK---- 129

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400   117 dEYNKYELKDILGMEMKVLEALDYYLVVFHPYRSLSEFLQD------AALNDVNMNQITWGIVNDTYKMDLILVHPPYRI 190
Cdd:TIGR00569 130 -ETPLKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDiktrlpGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQI 208


                  ....*...
gi 42568400   191 ALACIYIA 198
Cdd:TIGR00569 209 ALAAILHT 216
Cyclin_N pfam00134
Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a ...
 48-142 1.43e-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: 68.31  E-value: 1.43e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400    48 IMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEE-SIVQARNLVFYIKrlypdeyNKYELKD 126
Cdd:pfam00134  38 LVEVHEKFKLLPETLYLAVNYLDRFLSKKSVPKNKLQLVGVTCLFIAAKYEEiYPPTVEDLVYITD-------NAYTREE 110

                          90
                  ....*....|....*.
gi 42568400   127 ILGMEMKVLEALDYYL 142
Cdd:pfam00134 111 ILRMERLILETLNFDL 126
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 46-136 9.68e-11

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: 56.45  E-value: 9.68e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400     46 NHIMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIkrlypdeyNKYELK 125
Cdd:smart00385   1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYT--------GYFTEE 72

                           90
                   ....*....|.
gi 42568400    126 DILGMEMKVLE 136
Cdd:smart00385  73 EILRMERLLLE 83
 
Name Accession Description Interval E-value
CYCLIN_AtCycC_rpt1 cd20571
first cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 35-141 2.35e-62

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: 190.84  E-value: 2.35e-62
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  35 DDFKLIKFHMSNHIMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKRL 114
Cdd:cd20571   1 EDVKLIKIHMSNYIKKLAQHIKVRQRVVATAITYFRRVYTRKSFTEYDPRLVAPTCLYLASKAEESTVQAKLLVFYMKRL 80

                        90       100
                ....*....|....*....|....*..
gi 42568400 115 YPDEYNKYELKDILGMEMKVLEALDYY 141
Cdd:cd20571  81 YADEYHRYEIKDILEMEMKLLEALDYY 107
CYCLIN_AtCycC_rpt2 cd20572
second cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 146-249 2.35e-59

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: 2.35e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400 146 HPYRSLSEFLQDAALndVNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIASVHREKDITAWFEDLHEDMNLVKNIAM 225
Cdd:cd20572   1 HPYRPLIQLLQDAGL--TDMTQFTWSIVNDTYRTDLILIHPPYMIALACIYIASVHKEKDITLWFEELRVDMNIIKNIAM 78

                        90       100
                ....*....|....*....|....
gi 42568400 226 EILDFYENYRTITEEKVNSAFSKL 249
Cdd:cd20572  79 EILDFYDNYRLIPEERINAALNKL 102
CYCLIN_CCNC_rpt2 cd20514
second cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 146-238 1.79e-41

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: 136.98  E-value: 1.79e-41
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400 146 HPYRSLSEFLQDAALNDvNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIASVHREKDITAWFEDLHEDMNLVKNIAM 225
Cdd:cd20514   1 HPYRPLTQYVQDAGLDD-ELLPLAWRIVNDSYRTDVCLLYPPYLIALACLHMACVLLQKDARQWFAELNVDMDKILEITR 79

                        90
                ....*....|...
gi 42568400 226 EILDFYENYRTIT 238
Cdd:cd20514  80 EILSLYELWKTFD 92
CYCLIN_CCNC_rpt1 cd20513
first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 40-138 5.73e-41

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: 136.19  E-value: 5.73e-41
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  40 IKFHMSNHIMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKRLYPDEY 119
Cdd:cd20513   1 LHIFFANFIQALGERLKLRQRVIATAIVYFKRFYARNSFKDIDPRLVAPTCLYLASKVEECPSHARLIVAEAKVLKTKFS 80

                        90       100
                ....*....|....*....|.
gi 42568400 120 --NKYELKDILGMEMKVLEAL 138
Cdd:cd20513  81 yeFPYRVNDILECEFYLLEAL 101
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 7-246 5.21e-38

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: 134.47  E-value: 5.21e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400   7 NSSHYKQLLDPEEVDVVHDLDKERGISIDDFKLIkfhmsnhiMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLV 86
Cdd:COG5333  19 DSSQNAIELDLLVLEPELTLEKELNLVIYYLKLI--------MDLCTRLNLPQTVLATAILFFSRFYLKNSVEEISLYSV 90

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  87 ALTCLYLASKAEESIVQARNLVFYIKRLYPDEYnKYELKDILGMEMKVLEALDYYLVVFHPYRSLSEFLQDAALND-VNM 165
Cdd:COG5333  91 VTTCVYLACKVEDTPRDISIESFEARDLWSEEP-KSSRERILEYEFELLEALDFDLHVHHPYKYLEGFLKDLQEKDkYKL 169

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400 166 NQITWGIVNDTYKMDLILVHPPYRIALACIYIA-SVHREKDITAWFEDLHEDMNLVKN-IAMEILDFYENYRTITEEKVN 243
Cdd:COG5333 170 LQIAWKIINDALRTDLCLLYPPHIIALAALLIAcEVLGMPIIKLLDFVSYETKEEVIAlNYKSIVKNKIKTFKAEHLSRD 249


                ...
gi 42568400 244 SAF 246
Cdd:COG5333 250 LPF 252
CYCLIN_CCNH_rpt1 cd20524
first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 32-142 1.87e-19

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: 81.87  E-value: 1.87e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  32 ISIDDFKLIKFHMSNHIMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYI 111
Cdd:cd20524  46 LTPEEELLLVRYYEKKLLEFCRAFKLPDSVLATALTYFKRFYLKNSVMEYHPKEIMLTCLYLACKVEEFNISIDQFVGNI 125

                        90       100       110
                ....*....|....*....|....*....|.
gi 42568400 112 KRLYPDEynkyelKDILGMEMKVLEALDYYL 142
Cdd:cd20524 126 KESEKTA------EIILEYELLLLQGLNFHL 150
CYCLIN_SpCG1C_ScCTK2-like_rpt2 cd20546
second cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1), Saccharomyces ...
 146-233 3.44e-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: 3.44e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400 146 HPYRSLSEFLQDAALNDVN-MNQITWGIVNDTYKMDLILVHPPYRIALACIYIASVHREKD--------ITAWFEDLHED 216
Cdd:cd20546   1 HPYQYLIKFAKKLGVSDPKeLAQLAWAFLNDSYRTPLCLLYPPHVIAAAAIYLAAKLLGIDlelspnekLNEWWELFGVD 80

                        90
                ....*....|....*..
gi 42568400 217 MNLVKNIAMEILDFYEN 233
Cdd:cd20546  81 EEEIADAINEILDLYSS 97
ccl1 TIGR00569
cyclin ccl1; All proteins in this family for which functions are known are cyclins that are ...
 39-198 4.01e-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: 81.80  E-value: 4.01e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400    39 LIKFHmSNHIMKLAQHIKVR--QRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKrlyp 116
Cdd:TIGR00569  55 LVKYY-EKRLLDFCSAFKPTmpTSVVGTAIMYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSIDQFVGNLK---- 129

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400   117 dEYNKYELKDILGMEMKVLEALDYYLVVFHPYRSLSEFLQD------AALNDVNMNQITWGIVNDTYKMDLILVHPPYRI 190
Cdd:TIGR00569 130 -ETPLKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDiktrlpGLENPEYLRKHADKFLNRTLLTDAYLLYTPSQI 208


                  ....*...
gi 42568400   191 ALACIYIA 198
Cdd:TIGR00569 209 ALAAILHT 216
Cyclin_N pfam00134
Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a ...
 48-142 1.43e-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: 68.31  E-value: 1.43e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400    48 IMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEE-SIVQARNLVFYIKrlypdeyNKYELKD 126
Cdd:pfam00134  38 LVEVHEKFKLLPETLYLAVNYLDRFLSKKSVPKNKLQLVGVTCLFIAAKYEEiYPPTVEDLVYITD-------NAYTREE 110

                          90
                  ....*....|....*.
gi 42568400   127 ILGMEMKVLEALDYYL 142
Cdd:pfam00134 111 ILRMERLILETLNFDL 126
CYCLIN_CCNK_rpt1 cd20530
first cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase ...
 48-138 1.19e-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: 65.33  E-value: 1.19e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  48 IMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKRLYPDEY--NKYE-- 123
Cdd:cd20530  18 IQDVGTKLGLPYDTIATGIVYFHRFYMFHSFKDFDRYVTAACCLFLAGKVEETPKKCKDIIKTARSLLNDKQfaQFGDdp 97

                        90
                ....*....|....*
gi 42568400 124 LKDILGMEMKVLEAL 138
Cdd:cd20530  98 KEEVMVLERILLQTI 112
CYCLIN_AcCycH_rpt1 cd20585
first cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; CycH ...
 32-142 2.85e-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: 60.23  E-value: 2.85e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  32 ISIDDFKLIKFHMSNHIMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVfyi 111
Cdd:cd20585  69 LSADEELLMLKYYEQKIQEVCRALRLPNKIQATALLYFKRFYLQWSVMEHDPKRIMLTCIYLACKVEEYHVSAEELG--- 145

                        90       100       110
                ....*....|....*....|....*....|.
gi 42568400 112 KRLYPDEynkyelKDILGMEMKVLEALDYYL 142
Cdd:cd20585 146 KGIQQDH------QLILKNELALLQGLNFDL 170
CYCLIN_SpCG1C-like_rpt1 cd20545
first cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1) and similar ...
 46-108 4.24e-11

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: 58.59  E-value: 4.24e-11
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 42568400  46 NHIMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLV 108
Cdd:cd20545  10 NFIIRVGSRLKLPQTTLFTAATYFHRFYMRNSLKKYHYYEIAATCLFLATKVEESGRKLRDIV 72
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 46-136 9.68e-11

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: 56.45  E-value: 9.68e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400     46 NHIMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIkrlypdeyNKYELK 125
Cdd:smart00385   1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPPWTKELVHYT--------GYFTEE 72

                           90
                   ....*....|.
gi 42568400    126 DILGMEMKVLE 136
Cdd:smart00385  73 EILRMERLLLE 83
CYCLIN_CCNM_CCNQ_rpt1 cd20534
first cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ...
 37-140 1.15e-10

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: 57.18  E-value: 1.15e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  37 FKLIKFhmsnhIMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNL--VFYI--- 111
Cdd:cd20534   3 FKVLRF-----IREAGLKLELSSVTIATACVLYHRFYRELSLEDYDPYLVAMACLYLAGKAEEQPRRLRDIinVSYRilh 77

                        90       100       110
                ....*....|....*....|....*....|....
gi 42568400 112 ---KRLYP-DEYnkYELKD-ILGMEMKVLEALDY 140
Cdd:cd20534  78 pdkPPLELdDEY--WELRDsIVNCELLLLRILKF 109
CYCLIN_AcCycT_rpt1 cd20587
first cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
 51-109 1.20e-09

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: 54.83  E-value: 1.20e-09
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 42568400  51 LAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVF 109
Cdd:cd20587  22 LGMRLKVPQVTIATAIVFCHRFFLRQSHAKNDRQTIATVCMFLAGKVEETPRPLKDVIV 80
CYCLIN_CCNL_rpt1 cd20532
first cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 ...
 56-138 1.49e-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: 54.49  E-value: 1.49e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  56 KVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNL--VFY---------IKRLYPDEYNK--- 121
Cdd:cd20532  27 KLPQVVMATAQVLFHRFYYRKSLRKFDVKIVAMACLFLASKIEETPRRLRDVinVFHrllqrrlgkPAEVLPLDIGSaey 106

                        90
                ....*....|....*...
gi 42568400 122 YELK-DILGMEMKVLEAL 138
Cdd:cd20532 107 EELKnDIIKAERRILKEL 124
CYCLIN_CCNM_CCNQ_rpt2 cd20535
second cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ...
 145-233 1.78e-09

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: 53.80  E-value: 1.78e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400 145 FHPY-----RSLSEFLQDAALNDVNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIA-SVHR------EKDITAWFED 212
Cdd:cd20535   2 PHKYllhylKSLRDWLNPEFWSRSPIAKTAWSLLRDFYHSPLCLQFKPQHIALAVIYLAlQVYGvkvppeEEAEKPWWQA 81

                        90       100
                ....*....|....*....|...
gi 42568400 213 LHED--MNLVKNIAMEILDFYEN 233
Cdd:cd20535  82 FCEDltKETIDEIIEDIINVYDL 104
CYCLIN_CCNT_rpt1 cd20538
first cyclin box found in cyclin-T (CCNT) family; The CCNT family includes two C-type cyclins, ...
 31-112 2.16e-09

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: 54.32  E-value: 2.16e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  31 GISIDDFKLIKFHMSNHIMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEEsivQARNLVFY 110
Cdd:cd20538  18 GVDPDKELSYRQQAANLIQEMGQRLQVSQLCINTAIVYMHRFYMFHSFTKFHRNSIAAAALFLAAKVEE---QPRKLEHV 94


                ..
gi 42568400 111 IK 112
Cdd:cd20538  95 IK 96
CYCLIN_CCNT2_rpt1 cd20596
first cyclin box found in cyclin-T2 (CCNT2); CCNT2, also termed CycT2, is a regulatory subunit ...
 45-112 3.83e-09

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: 53.90  E-value: 3.83e-09
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 42568400  45 SNHIMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEEsivQARNLVFYIK 112
Cdd:cd20596  34 ANLIQDMGQRLNVSQLTINTAIVYMHRFYMHHSFTKFHRNIISPTALFLAAKVEE---QPRKLEHVIK 98
CYCLIN_ScCTK2-like_rpt1 cd20547
first cyclin box found in Saccharomyces cerevisiae CTD kinase subunit 2 (ScCTK2) and similar ...
 47-140 2.86e-08

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: 50.42  E-value: 2.86e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  47 HIMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQAR-------NLVFYIKRLYPDEY 119
Cdd:cd20547   8 FISQLCKKLKFPRRTLGTAMLLYQRFHLFNPFTDSSNYEVALACLFLASKIEDTQKKSKdilaasyNLRHPDKISVDDQM 87

                        90       100
                ....*....|....*....|.
gi 42568400 120 NKYELKDILGMEMKVLEALDY 140
Cdd:cd20547  88 LEEFRKAILGLERLLLETICF 108
CYCLIN_CCNT1_rpt1 cd20595
first cyclin box found in cyclin-T1 (CCNT1); CCNT1, also termed CycT1, is a host factor ...
 31-140 6.86e-08

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: 50.44  E-value: 6.86e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  31 GISIDDFKLIKFHMSNHIMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEEsivQARNLVFY 110
Cdd:cd20595  19 GVDPDKELSYRQQAANLLQDMGQRLNVSQLTINTAIVYMHRFYMIQSFTQFHRNSVAPAALFLAAKVEE---QPKKLEHV 95

                        90       100       110       120
                ....*....|....*....|....*....|....*....|..
gi 42568400 111 IKRLY---------PD---EYNKYELKDILGMEMKVLEALDY 140
Cdd:cd20595  96 IKVAHtclhpqeslPDtrsEAYLQQVQDLVILESIILQTLGF 137
CYCLIN_SF cd00043
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 43-110 7.11e-08

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: 48.56  E-value: 7.11e-08
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 42568400  43 HMSNHIMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFY 110
Cdd:cd00043   1 KAVDFIRRLCSKLGLPEEVLELAIELLDRFLSKGLLLGRSPELIAAACLYLACKLEELPRTLKEIAKV 68
CYCLIN_CCNL_rpt2 cd20533
second cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 ...
 146-231 7.52e-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: 7.52e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400 146 HPYRSLSEFLQDAAL-NDVNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIASVHREKDI---TAWFEDLHEDMNLVK 221
Cdd:cd20533   1 HPHKFILMYLQVLEGeDNKKLAQTAWNYMNDSLRTDLCVRYPPEVIACACIYLAARELGIPLplpPPWWELFDVSKEDIE 80

                        90
                ....*....|
gi 42568400 222 NIAMEILDFY 231
Cdd:cd20533  81 EICLTILELY 90
CYCLIN_AcCycL_rpt1 cd20591
first cyclin box found in Arabidopsis thaliana L-type cyclins (CycL) and similar proteins; ...
 55-114 1.13e-06

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: 46.75  E-value: 1.13e-06
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  55 IKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKRL 114
Cdd:cd20591  29 LKLPQAVMATGQVLFQRFYCKKSFARFNVKRVAASCVWLAAKLEESPRKIRQVLMVFHRM 88
CYCLIN_CCNK_rpt2 cd20531
second cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA ...
 146-231 1.33e-05

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: 42.71  E-value: 1.33e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400 146 HPYRSLSEF---LQDAALNDVNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIASVHREKDITA---------WFEDL 213
Cdd:cd20531   2 HPYKYLLKYakqLKGDKNKIQKLVQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAAKLSKFDLQDwtskppgkrWWEQF 81

                        90       100
                ....*....|....*....|
gi 42568400 214 HEDMN--LVKNIAMEILDFY 231
Cdd:cd20531  82 VEDVSleVLEDICHQVLDLY 101
CYCLIN_AcCycT_rpt2 cd20588
second cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
 146-232 1.98e-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: 1.98e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400 146 HPYRSLSEFLQDAALNDVNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIASVHREKDI-----TAWFEDLHEDMNLV 220
Cdd:cd20588   2 HPYKPLVAAIKKFNVAQNALAQAAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLKVKLpcdgrKVWWQEFDVTPRQL 81

                        90
                ....*....|..
gi 42568400 221 KNIAMEILDFYE 232
Cdd:cd20588  82 EEVSNQMLELYE 93
CYCLIN_CCNH_rpt2 cd20525
second cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 145-213 7.37e-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: 41.51  E-value: 7.37e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 42568400 145 FHPYRSLSEFLQD-----AALNDVNMNQITWG---IVNDTYKMDLILVHPPYRIALACIYIASVHREKDITAWFEDL 213
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 ...
 146-243 1.22e-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: 40.72  E-value: 1.22e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400 146 HPYRSLSEFLQDAAL-NDVNMNQITWGIVNDTYKMDLILVHPPYRIALACIYIASVHREKDITA---WFEDLHEDMNLVK 221
Cdd:cd20593   1 HPHKIIVMYLQVLECeRNRHLVQTSWNYMNDSLRTDVFVRFNPETIACACIYLAARTLEIPLPNrphWFLLFGATEEEIQ 80

                        90       100
                ....*....|....*....|..
gi 42568400 222 NIAMEILDFYenyrtiTEEKVN 243
Cdd:cd20593  81 EICLKILQLY------TRKKVD 96
CYCLIN_AtCycD-like_rpt1 cd20543
first cyclin box found in plant cyclin-delta family; This subfamily is composed of plant delta ...
 48-140 2.85e-04

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: 39.22  E-value: 2.85e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  48 IMKLAQHIKVRQRVVATAITYMRR---VYIRKSMVEFEPRLVALTCLYLASKAEESIVQArnLVFYikRLYPDEYNkYEL 124
Cdd:cd20543   9 ILKVRSRYGFGPLTAYLAVNYLDRflsSYDLPKDKPWMLQLLAVACLSLAAKMEETDVPL--LVDL--QVEEPKYV-FEA 83

                        90
                ....*....|....*.
gi 42568400 125 KDILGMEMKVLEALDY 140
Cdd:cd20543  84 KTIQRMELLVLSTLEW 99
CYCLIN_ScCLN_like cd20559
cyclin box found in Saccharomyces cerevisiae G1/S-specific cyclins (ScCLNs) and similar ...
 46-140 3.71e-04

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: 38.52  E-value: 3.71e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  46 NHIMKLAQHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESivQARNLVFYIKRLYPDeyNKYELK 125
Cdd:cd20559   4 DFLFELHVELRLSPQTFFLSVNLIDRYCSKRIVLKKHYQLVGCTCLWIASKFWES--KARVPLLSELSKMCC--NSYGEE 79

                        90
                ....*....|....*
gi 42568400 126 DILGMEMKVLEALDY 140
Cdd:cd20559  80 LFIQMEMHILNTLNW 94
CYCLIN_CCNB1-like_rpt1 cd20507
first cyclin box found in cyclin-B1 (CCNB1)-like family; The CCNB1-like family includes two ...
 85-140 9.59e-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: 38.28  E-value: 9.59e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 42568400  85 LVALTCLYLASKAEEsivqarnlvfyikrLYPDEY--------NKYELKDILGMEMKVLEALDY 140
Cdd:cd20507  81 LVGVTALLIASKYEE--------------IYPPEIkdfvyitdNAYTREEILQMERDILKTLDF 130
CYCLIN_CNTD2 cd20542
cyclin box found in Cyclin N-terminal domain-containing protein 2 (CNTD2) and similar proteins; ...
 53-142 1.04e-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: 37.30  E-value: 1.04e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  53 QHIKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYikrLYPDEYNKyelKDILGMEM 132
Cdd:cd20542  13 EHLELSTQTLHLAVALLDRYLSRQKISLSLLQLLGITCLFIACKFEERFPPEVATLCY---LTDDSYSK---KQVLRMER 86

                        90
                ....*....|
gi 42568400 133 KVLEALDYYL 142
Cdd:cd20542  87 RVLRRLRFDL 96
CYCLIN_CCNL2_rpt1 cd20590
first cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA ...
 55-114 5.63e-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: 36.52  E-value: 5.63e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  55 IKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLVFYIKRL 114
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 ...
 55-108 6.89e-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: 35.88  E-value: 6.89e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....
gi 42568400  55 IKVRQRVVATAITYMRRVYIRKSMVEFEPRLVALTCLYLASKAEESIVQARNLV 108
Cdd:cd20589  26 LRLPQVAMATGQVLFQRFFYSKSFVKHSMEIVAMACINLASKIEEAPRRIRDVI 79
CYCLIN_ScPCL1-like cd20557
cyclin box found in Saccharomyces cerevisiae G1/S-specific cyclin PCL1, PCL2 and similar ...
 43-140 9.65e-03

cyclin box found in Saccharomyces cerevisiae G1/S-specific cyclin PCL1, PCL2 and similar proteins; The family includes a group of cyclin-like proteins that interact with the Pho85 cyclin-dependent kinase, such as Saccharomyces cerevisiae G1/S-specific cyclin PCL1, PCL2, PCL9 and their vertebrate counterparts, cyclin Pas1/PHO80 domain-containing protein 1 (CNPPD1). PCL1 (also called PHO85 cyclin-1, or cyclin HCS26) and PCL2 (also called PHO85 cyclin-1, or cyclin HCS26 homolog) are G1/S-specific cyclin partners of the cyclin-dependent kinase (CDK) PHO85. They are essential for the control of the cell cycle at the G1/S (start) transition. The PCL1-PHO85 cyclin-CDK holoenzyme is involved in phosphorylation of the CDK inhibitor (CKI) SIC1, which is required for its ubiquitination and degradation, releasing repression of b-type cyclins and promoting exit from mitosis. Together with cyclin PCL2, it positively controls degradation of sphingoid long chain base kinase LCB4. PCL1-PHO85 also phosphorylates HMS1, NCP1 and NPA3, which may all have a role in mitotic exit. PCL2-PHO85 also phosphorylates RVS167, linking cyclin-CDK activity with organization of the actin cytoskeleton. PCL9 is an M/G1-specific cyclin partner of the cyclin-dependent kinase (CDK) PHO85. It may have a role in bud site selection in the G1 phase. The family also includes cyclin Pas1/PHO80 domain-containing protein 1 (CNPPD1) and similar proteins. Their biological functions remain unclear. Members of this family contain one cyclin box. The cyclin box is a protein binding domain.


Pssm-ID: 410260  Cd Length: 94  Bit Score: 34.56  E-value: 9.65e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42568400  43 HMSNHIMKLAQHIKVRQRVVATAITYMRRVYIRKSM----VEFEPRLVALTCLYLASKAeesivqarnlvfyikrLYPDE 118
Cdd:cd20557   1 SLRSFIARLLRRTRLSPSVVLLALVYLERLRRRLPEallgQEGSPYRLFLVALMLASKY----------------LDDES 64

                        90       100       110
                ....*....|....*....|....*....|
gi 42568400 119 YN--------KYELKDILGMEMKVLEALDY 140
Cdd:cd20557  65 YSnkswaeisGLPVRELNAMEREFLEALDW 94
 
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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