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Conserved domains on  [gi|1831507954|ref|NP_001368016|]
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Cyclin-like domain-containing protein [Caenorhabditis elegans]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CYCLIN_SF super family cl40454
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 171-263 4.39e-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.


The actual alignment was detected with superfamily member COG5024:

Pssm-ID: 477360 [Multi-domain]  Cd Length: 440  Bit Score: 47.85  E-value: 4.39e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831507954 171 RFQLkvSSEALHLGAALLDKCLDMMSVNKASLDELAAVTLVIASKLEDVNCLTI-------ENIIGVELIEKSaaqmaal 243
Cdd:COG5024   226 KFGL--LPETLFLAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIkdlvyatDGAFTRDDIIRA------- 296

                          90       100
                  ....*....|....*....|
gi 1831507954 244 ERFVLTSLSFKITIPTPLHF 263
Cdd:COG5024   297 ERYMLEVLDFNISWPSPMSF 316
 
Name Accession Description Interval E-value
COG5024 COG5024
Cyclin [Cell division and chromosome partitioning];
171-263 4.39e-06

Cyclin [Cell division and chromosome partitioning];


Pssm-ID: 227357 [Multi-domain]  Cd Length: 440  Bit Score: 47.85  E-value: 4.39e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831507954 171 RFQLkvSSEALHLGAALLDKCLDMMSVNKASLDELAAVTLVIASKLEDVNCLTI-------ENIIGVELIEKSaaqmaal 243
Cdd:COG5024   226 KFGL--LPETLFLAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIkdlvyatDGAFTRDDIIRA------- 296

                          90       100
                  ....*....|....*....|
gi 1831507954 244 ERFVLTSLSFKITIPTPLHF 263
Cdd:COG5024   297 ERYMLEVLDFNISWPSPMSF 316
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 163-248 1.25e-05

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: 42.96  E-value: 1.25e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831507954  163 VLLNIFSRRFQLkvSSEALHLGAALLDKCLDMMSVNKASLDELAAVTLVIASKLEDVN--CLTIENIIGVelieKSAAQM 240
Cdd:smart00385   1 DFLRRVCKALNL--DPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPpwTKELVHYTGY----FTEEEI 74


                   ....*...
gi 1831507954  241 AALERFVL 248
Cdd:smart00385  75 LRMERLLL 82
Cyclin_N pfam00134
Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a ...
 173-256 2.09e-05

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: 43.27  E-value: 2.09e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831507954 173 QLKVSSEALHLGAALLDKCLDMMSVNKASLDELAAVTLVIASKLEDVNCLTIEN--IIGVELIEKSaaQMAALERFVLTS 250
Cdd:pfam00134  44 KFKLLPETLYLAVNYLDRFLSKKSVPKNKLQLVGVTCLFIAAKYEEIYPPTVEDlvYITDNAYTRE--EILRMERLILET 121


                  ....*.
gi 1831507954 251 LSFKIT 256
Cdd:pfam00134 122 LNFDLS 127
CYCLIN_CCNA2_rpt1 cd20561
first cyclin box found in cyclin-A2 (CCNA2) and similar proteins; CCNA2 controls both the G1/S ...
 173-253 2.21e-04

first cyclin box found in cyclin-A2 (CCNA2) and similar proteins; CCNA2 controls both the G1/S and the G2/M transition phases of the cell cycle. It is significantly over-expressed in various cancer types, and can be used as a prognostic biomarker for estrogen receptor positive (ER+) breast cancer and tamoxifen resistance. CCNA2 contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410264 [Multi-domain]  Cd Length: 131  Bit Score: 40.43  E-value: 2.21e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831507954 173 QLKVSSEALHLGAALLDKCLDMMSVNKASLDELAAVTLVIASKLEDVNCLTIENIIGVELIEKSAAQMAALERFVLTSLS 252
Cdd:cd20561    50 EYKLQNETLHLAVNYIDRFLSSMSVLRGKLQLVGTAAMLLASKFEEIYPPEVAEFVYITDDTYTKKQVLRMEHLVLKVLT 129


                  .
gi 1831507954 253 F 253
Cdd:cd20561   130 F 130
 
Name Accession Description Interval E-value
COG5024 COG5024
Cyclin [Cell division and chromosome partitioning];
171-263 4.39e-06

Cyclin [Cell division and chromosome partitioning];


Pssm-ID: 227357 [Multi-domain]  Cd Length: 440  Bit Score: 47.85  E-value: 4.39e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831507954 171 RFQLkvSSEALHLGAALLDKCLDMMSVNKASLDELAAVTLVIASKLEDVNCLTI-------ENIIGVELIEKSaaqmaal 243
Cdd:COG5024   226 KFGL--LPETLFLAINIIDRFLSSRVVSLEKYQLVGISALFIASKYEEVNCPSIkdlvyatDGAFTRDDIIRA------- 296

                          90       100
                  ....*....|....*....|
gi 1831507954 244 ERFVLTSLSFKITIPTPLHF 263
Cdd:COG5024   297 ERYMLEVLDFNISWPSPMSF 316
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 163-248 1.25e-05

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: 42.96  E-value: 1.25e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831507954  163 VLLNIFSRRFQLkvSSEALHLGAALLDKCLDMMSVNKASLDELAAVTLVIASKLEDVN--CLTIENIIGVelieKSAAQM 240
Cdd:smart00385   1 DFLRRVCKALNL--DPETLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPpwTKELVHYTGY----FTEEEI 74


                   ....*...
gi 1831507954  241 AALERFVL 248
Cdd:smart00385  75 LRMERLLL 82
Cyclin_N pfam00134
Cyclin, N-terminal domain; Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a ...
 173-256 2.09e-05

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: 43.27  E-value: 2.09e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831507954 173 QLKVSSEALHLGAALLDKCLDMMSVNKASLDELAAVTLVIASKLEDVNCLTIEN--IIGVELIEKSaaQMAALERFVLTS 250
Cdd:pfam00134  44 KFKLLPETLYLAVNYLDRFLSKKSVPKNKLQLVGVTCLFIAAKYEEIYPPTVEDlvYITDNAYTRE--EILRMERLILET 121


                  ....*.
gi 1831507954 251 LSFKIT 256
Cdd:pfam00134 122 LNFDLS 127
CYCLIN_CCNA2_rpt1 cd20561
first cyclin box found in cyclin-A2 (CCNA2) and similar proteins; CCNA2 controls both the G1/S ...
 173-253 2.21e-04

first cyclin box found in cyclin-A2 (CCNA2) and similar proteins; CCNA2 controls both the G1/S and the G2/M transition phases of the cell cycle. It is significantly over-expressed in various cancer types, and can be used as a prognostic biomarker for estrogen receptor positive (ER+) breast cancer and tamoxifen resistance. CCNA2 contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410264 [Multi-domain]  Cd Length: 131  Bit Score: 40.43  E-value: 2.21e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831507954 173 QLKVSSEALHLGAALLDKCLDMMSVNKASLDELAAVTLVIASKLEDVNCLTIENIIGVELIEKSAAQMAALERFVLTSLS 252
Cdd:cd20561    50 EYKLQNETLHLAVNYIDRFLSSMSVLRGKLQLVGTAAMLLASKFEEIYPPEVAEFVYITDDTYTKKQVLRMEHLVLKVLT 129


                  .
gi 1831507954 253 F 253
Cdd:cd20561   130 F 130
CYCLIN_CLBs_yeast_rpt1 cd20568
first cyclin box found in yeast B-type cyclins; This subfamily includes Saccharomyces ...
 171-253 2.31e-04

first cyclin box found in yeast B-type cyclins; This subfamily includes Saccharomyces cerevisiae G2/mitotic-specific cyclins 1-4 (ScCLB1-4), S-phase entry cyclins 5-6 (ScCLB5-6), and Schizosaccharomyces pombe G2/mitotic-specific cyclins, cig1, cig2 and cdc13. ScCLB1-4 are essential for the control of the cell cycle at the G2/M (mitosis) transition. They interact with the CDC2 protein kinase to form maturation promoting factor (MPF). ScCLB5-6 interact with CDC28 and are involved in DNA replication in Saccharomyces cerevisiae. ScCLB5 is required for efficient progression through S phase and possibly for the normal progression through meiosis. ScCLB6 is involved in G1/S and or S phase progression. Cig1 is required for efficient passage of the G1/S transition. Cig2 and cdc13 are essential for the control of the cell cycle at the G2/M and G1/S (mitosis) transitions. They interact with the cdc2 protein kinase to form MPF. 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: 410271  Cd Length: 134  Bit Score: 40.36  E-value: 2.31e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831507954 171 RFQLkvSSEALHLGAALLDKCLdmmSVNKASLDELAAV---TLVIASKLEDVNCLTIENIIGVELIEKSAAQMAALERFV 247
Cdd:cd20568    54 KFRL--LPETLFLAVNIIDRFL---SKRVVSLNKLQLVgisALFIASKYEEVNSPSIKNFAYMTDGAYTVEDILRAERYM 128


                  ....*.
gi 1831507954 248 LTSLSF 253
Cdd:cd20568   129 LNTLEF 134
CYCLIN_CCNA_rpt1 cd20504
first cyclin box found in cyclin-A (CCNA) family; The CCNA family includes two A-type cyclins, ...
 175-253 2.65e-04

first cyclin box found in cyclin-A (CCNA) family; The CCNA family includes two A-type cyclins, CCNA1 and CCNA2. CCNA1 may primarily function in the control of the germline meiotic cell cycle and additionally in the control of mitotic cell cycle in some somatic cells. CCNA2 controls both the G1/S and the G2/M transition phases of the cell cycle. Members in this family contain two cyclin boxes. The model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410208 [Multi-domain]  Cd Length: 128  Bit Score: 40.31  E-value: 2.65e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1831507954 175 KVSSEALHLGAALLDKCLDMMSVNKASLDELAAVTLVIASKLEDVNCLTIENIIGVELIEKSAAQMAALERFVLTSLSF 253
Cdd:cd20504    50 KLVPETLYLAVNYIDRFLSQMSVLRSKLQLVGTACMFIAAKYEEIYPPEVEEFVYITDDTYTKKQVLRMEHLVLKVLSF 128
CYCLIN_CCNJ-like_rpt1 cd20528
first cyclin box found in cyclin-J (CCNJ) family; The CCNJ family includes two cyclins, CCNJ ...
 164-253 1.28e-03

first cyclin box found in cyclin-J (CCNJ) family; The CCNJ family includes two cyclins, CCNJ and CCNJ-like. CCNJ may regulate the cell cycle or transcription. 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: 410231 [Multi-domain]  Cd Length: 103  Bit Score: 37.58  E-value: 1.28e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831507954 164 LLNIFSRRFQLkvSSEALHLGAALLDKCLDMMSVNKASLDELAAVTLVIASKLEDVNcltiENIIGVELIEK-------S 236
Cdd:cd20528    13 WLAVVSERLKL--SDTTLHLAVYLLDRFMDRYDISEDQLHLVALTCLLLAAKFEELD----DNIPKISDLNRylcnsvyS 86

                          90
                  ....*....|....*..
gi 1831507954 237 AAQMAALERFVLTSLSF 253
Cdd:cd20528    87 KQEYLQMELLILEFFQW 103
CYCLIN_CCNB2_rpt1 cd20566
first cyclin box found in G2/mitotic-specific cyclin-B2 (CCNB2) and similar proteins; CCNB2 is ...
 157-253 1.35e-03

first cyclin box found in G2/mitotic-specific cyclin-B2 (CCNB2) and similar proteins; CCNB2 is essential for the control of the cell cycle at the G2/M (mitosis) transition. It is required for progression through meiosis. CCNB2 contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410269 [Multi-domain]  Cd Length: 133  Bit Score: 38.31  E-value: 1.35e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831507954 157 IEDRQRVLL-----NIFSRrFQLKvsSEALHLGAALLDKCLDMMSVNKASLDELAAVTLVIASKLEDVNCLTIENIIGVE 231
Cdd:cd20566    35 INERMRAILvdwlvQVHSR-FQLL--QETLYMCVAIMDRFLQVQPVSRKKLQLVGVTALLLASKYEEMYSPEIGDFVYIT 111

                          90       100
                  ....*....|....*....|..
gi 1831507954 232 LIEKSAAQMAALERFVLTSLSF 253
Cdd:cd20566   112 DNAYTKAQIREMEMLILKELNF 133
CYCLIN_SF cd00043
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 173-230 1.47e-03

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: 37.00  E-value: 1.47e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1831507954 173 QLKVSSEALHLGAALLDKCLDMMSVNKASLDELAAVTLVIASKLEDVNcLTIENIIGV 230
Cdd:cd00043    12 KLGLPEEVLELAIELLDRFLSKGLLLGRSPELIAAACLYLACKLEELP-RTLKEIAKV 68
CYCLIN_CCNB1-like_rpt1 cd20507
first cyclin box found in cyclin-B1 (CCNB1)-like family; The CCNB1-like family includes two ...
 170-253 1.50e-03

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: 1.50e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831507954 170 RRFQLKvsSEALHLGAALLDKCLDMMSVNKASLDELAAVTLVIASKLEDVNCLTIENIigVELIEK--SAAQMAALERFV 247
Cdd:cd20507    49 LKFKLL--PETLYLTVNIIDRYLSKKQVPRKKLQLVGVTALLIASKYEEIYPPEIKDF--VYITDNayTREEILQMERDI 124


                  ....*.
gi 1831507954 248 LTSLSF 253
Cdd:cd20507   125 LKTLDF 130
CYCLIN_CNTD2 cd20542
cyclin box found in Cyclin N-terminal domain-containing protein 2 (CNTD2) and similar proteins; ...
 174-255 2.57e-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: 2.57e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1831507954 174 LKVSSEALHLGAALLDKCLDMMSVNKASLDELAAVTLVIASKLEDvnCLTIENIIGVELIEK--SAAQMAALERFVLTSL 251
Cdd:cd20542    15 LELSTQTLHLAVALLDRYLSRQKISLSLLQLLGITCLFIACKFEE--RFPPEVATLCYLTDDsySKKQVLRMERRVLRRL 92


                  ....
gi 1831507954 252 SFKI 255
Cdd:cd20542    93 RFDL 96
 
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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