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.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943834  40 LQIFFTNVIQALGEHLKLRQQVIATATVYFKRFYARYSLKSIDPVLMAPTCVFLASKVEEFgvVSNTRLIAAATSVLKTR 119
Cdd:cd20513    1 LHIFFANFIQALGERLKLRQRVIATAIVYFKRFYARNSFKDIDPRLVAPTCLYLASKVEEC--PSHARLIVAEAKVLKTK 78

                         90       100
                 ....*....|....*....|....*..
gi 767943834 120 FSYafpkEFPYRMNHILECEFYLLELM 146
Cdd:cd20513   79 FSY----EFPYRVNDILECEFYLLEAL 101

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.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943834  40 LQIFFTNVIQALGEHLKLRQQVIATATVYFKRFYARYSLKSIDPVLMAPTCVFLASKVEEFgvVSNTRLIAAATSVLKTR 119
Cdd:cd20513    1 LHIFFANFIQALGERLKLRQRVIATAIVYFKRFYARNSFKDIDPRLVAPTCLYLASKVEEC--PSHARLIVAEAKVLKTK 78

                         90       100
                 ....*....|....*....|....*..
gi 767943834 120 FSYafpkEFPYRMNHILECEFYLLELM 146
Cdd:cd20513   79 FSY----EFPYRVNDILECEFYLLEAL 101

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]

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943834    8 SSHYLQWILDKQDLLKERQKDLK-------------------FLSEEEYWKLQIFFTNVIQALGEHLK--LRQQVIATAT 66
Cdd:TIGR00569   4 SSQKRHWTFTSEEQLQEKRADANakfreaheeeekvleakpiFLTPEEELDLVKYYEKRLLDFCSAFKptMPTSVVGTAI 83

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 767943834   67 VYFKRFYARYSLKSIDPVLMAPTCVFLASKVEEFGVVSNtrliaaatsvlktRFSYAFPKEFPYRMNHILECEFYLLE 144
Cdd:TIGR00569  84 MYFKRFYLNNSVMEYHPKIIMLTCVFLACKVEEFNVSID-------------QFVGNLKETPLKALEQVLEYELLLIQ 148

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.

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 767943834   51 LGEHLKLRQQVIATATVYFKRFYARYSLKSIDPVLMAPTCVFLASKVEE 99
Cdd:pfam00134  41 VHEKFKLLPETLYLAVNYLDRFLSKKSVPKNKLQLVGVTCLFIAAKYEE 89

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.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943834  40 LQIFFTNVIQALGEHLKLRQQVIATATVYFKRFYARYSLKSIDPVLMAPTCVFLASKVEEFgvVSNTRLIAAATSVLKTR 119
Cdd:cd20513    1 LHIFFANFIQALGERLKLRQRVIATAIVYFKRFYARNSFKDIDPRLVAPTCLYLASKVEEC--PSHARLIVAEAKVLKTK 78

                         90       100
                 ....*....|....*....|....*..
gi 767943834 120 FSYafpkEFPYRMNHILECEFYLLELM 146
Cdd:cd20513   79 FSY----EFPYRVNDILECEFYLLEAL 101

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.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943834  35 EEYWKLQIFFTNVIQALGEHLKLRQQVIATATVYFKRFYARYSLKSIDPVLMAPTCVFLASKVEEfgvvsntRLIAAATS 114
Cdd:cd20571    1 EDVKLIKIHMSNYIKKLAQHIKVRQRVVATAITYFRRVYTRKSFTEYDPRLVAPTCLYLASKAEE-------STVQAKLL 73

                         90       100       110
                 ....*....|....*....|....*....|
gi 767943834 115 VLKTRFSYAfPKEFPYRMNHILECEFYLLE 144
Cdd:cd20571   74 VFYMKRLYA-DEYHRYEIKDILEMEMKLLE 102

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.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 767943834  48 IQALGEHLKLRQQVIATATVYFKRFYARYSLKSIDPVLMAPTCVFLASKVEEF 100
Cdd:cd20530   18 IQDVGTKLGLPYDTIATGIVYFHRFYMFHSFKDFDRYVTAACCLFLAGKVEET 70

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.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 767943834  45 TNVIQALGEHLKLRQQVIATATVYFKRFYARYSLKSIDPVLMAPTCVFLASKVEE 99
Cdd:cd20538   32 ANLIQEMGQRLQVSQLCINTAIVYMHRFYMFHSFTKFHRNSIAAAALFLAAKVEE 86

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.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943834   4 NFWQSSHYLQWILDKQDLLKERQ----------------------------------------KDLKFLSEEEYWKLQIF 43
Cdd:cd20585    1 DFATSTHRQRWIFTPQDLTEKREaanqravdalqqcgatrveaqaagslgggaevggsngkaaKLPEPLSADEELLMLKY 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 767943834  44 FTNVIQALGEHLKLRQQVIATATVYFKRFYARYSLKSIDPVLMAPTCVFLASKVEEFGV 102
Cdd:cd20585   81 YEQKIQEVCRALRLPNKIQATALLYFKRFYLQWSVMEHDPKRIMLTCIYLACKVEEYHV 139

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.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 767943834  48 IQALGEHLKLRQQVIATATVYFKRFYARYSLKSIDPVLMAPTCVFLASKVEE 99
Cdd:cd20534    9 IREAGLKLELSSVTIATACVLYHRFYRELSLEDYDPYLVAMACLYLAGKAEE 60

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.

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943834  40 LQIFFTNVIQALGEHLKLRQQVIATATVYFKRFYARYSLKSIDPVLMAPTCVFLASKVEE 99
Cdd:cd20591   14 LRIFGCELIQESGILLKLPQAVMATGQVLFQRFYCKKSFARFNVKRVAASCVWLAAKLEE 73

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.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 767943834  46 NVIQALGEHLKLRQQVIATATVYFKRFYARYSLKSIDPVLMAPTCVFLASKVEE 99
Cdd:cd20595   34 NLLQDMGQRLNVSQLTINTAIVYMHRFYMIQSFTQFHRNSVAPAALFLAAKVEE 87

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.

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943834    48 IQALGEHLKLRQQVIATATVYFKRFYARYSLKSIDPVLMAPTCVFLASKVEEFGVvsNTRLIAAATSVlktrfsyafpke 127
Cdd:smart00385   3 LRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPP--WTKELVHYTGY------------ 68

                           90
                   ....*....|....*..
gi 767943834   128 fpYRMNHILECEFYLLE 144
Cdd:smart00385  69 --FTEEEILRMERLLLE 83

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.

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767943834  32 LSEEEYWKLQIFFTNVIQALGEHLKLRQQVIATATVYFKRFYARYSL--KSIDPVLMAptCVFLASKVEE 99
Cdd:cd20589    3 LDHETETDLRILGCELIQTAGILLRLPQVAMATGQVLFQRFFYSKSFvkHSMEIVAMA--CINLASKIEE 70

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.

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 767943834  40 LQIFFTNVIQALGEHLKLRQQVIATATVYFKRFYARYSL--KSIDPVLMAptCVFLASKVEE 99
Cdd:cd20590   43 LRVVGCELIQAAGILLRLPQVAMATGQVLFQRFFYTKSFvkHSMEHVSMA--CVHLASKIEE 102

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.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 767943834  46 NVIQALGEHLKLRQQVIATATVYFKRFYARYSLKSIDP---VLMAPTCVFLASKVEE 99
Cdd:cd20543    7 DWILKVRSRYGFGPLTAYLAVNYLDRFLSSYDLPKDKPwmlQLLAVACLSLAAKMEE 63