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Conserved domains on  [gi|1845974324|ref|NP_001370391|]
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Cyclin-T1.2 [Caenorhabditis elegans]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CYCLIN_CCNT_rpt2 cd20539
second cyclin box found in cyclin-T (CCNT) family; The CCNT family includes two C-type cyclins, ...
 1-89 1.29e-28

second 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 in this family contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


:

Pssm-ID: 410242 [Multi-domain]  Cd Length: 92  Bit Score: 106.97  E-value: 1.29e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845974324   1 MRDVEKGrnvYKDMVKTAYYMATDVLIITDWSVRYSCASIATACVNIAAFFHNINMDdivPFELSDRWYRLEDQSMTREE 80
Cdd:cd20539    10 CNLVKAG---SKDLAQTAYFLATNSLHLTTFCLQYKPTVIACVCIHLACKWSNWEIP---RSSEGKDWYEYVDPSLTLEE 83


                  ....*....
gi 1845974324  81 VEAMTKEFL 89
Cdd:cd20539    84 LDELTSEFL 92
 
Name Accession Description Interval E-value
CYCLIN_CCNT_rpt2 cd20539
second cyclin box found in cyclin-T (CCNT) family; The CCNT family includes two C-type cyclins, ...
 1-89 1.29e-28

second 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 in this family contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410242 [Multi-domain]  Cd Length: 92  Bit Score: 106.97  E-value: 1.29e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845974324   1 MRDVEKGrnvYKDMVKTAYYMATDVLIITDWSVRYSCASIATACVNIAAFFHNINMDdivPFELSDRWYRLEDQSMTREE 80
Cdd:cd20539    10 CNLVKAG---SKDLAQTAYFLATNSLHLTTFCLQYKPTVIACVCIHLACKWSNWEIP---RSSEGKDWYEYVDPSLTLEE 83


                  ....*....
gi 1845974324  81 VEAMTKEFL 89
Cdd:cd20539    84 LDELTSEFL 92
 
Name Accession Description Interval E-value
CYCLIN_CCNT_rpt2 cd20539
second cyclin box found in cyclin-T (CCNT) family; The CCNT family includes two C-type cyclins, ...
 1-89 1.29e-28

second 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 in this family contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410242 [Multi-domain]  Cd Length: 92  Bit Score: 106.97  E-value: 1.29e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845974324   1 MRDVEKGrnvYKDMVKTAYYMATDVLIITDWSVRYSCASIATACVNIAAFFHNINMDdivPFELSDRWYRLEDQSMTREE 80
Cdd:cd20539    10 CNLVKAG---SKDLAQTAYFLATNSLHLTTFCLQYKPTVIACVCIHLACKWSNWEIP---RSSEGKDWYEYVDPSLTLEE 83


                  ....*....
gi 1845974324  81 VEAMTKEFL 89
Cdd:cd20539    84 LDELTSEFL 92
CYCLIN_CCNT1_rpt2 cd20597
second cyclin box found in cyclin-T1 (CCNT1); CCNT1, also termed CycT1, is a host factor ...
 12-96 5.26e-08

second 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 second one. The cyclin box is a protein binding domain.


Pssm-ID: 410300 [Multi-domain]  Cd Length: 109  Bit Score: 50.85  E-value: 5.26e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845974324  12 KDMVKTAYYMATDVLIITDWSVRYSCASIATACVNIAAFFHNINmddiVPFELSDR-WYRLEDQSMTREEVEAMTKEFLD 90
Cdd:cd20597    18 KDLAQTSYFMATNSLHLTTFSLQYTPPVVACVCIHLACKWSNWE----IPVSTDGKhWWEYVDATVTLELLDELTHEFLQ 93


                  ....*.
gi 1845974324  91 IFSRNP 96
Cdd:cd20597    94 ILEKTP 99
CYCLIN_CCNT2_rpt2 cd20598
second cyclin box found in cyclin-T2 (CCNT2); CCNT2, also termed CycT2, is a regulatory ...
 12-106 2.70e-07

second 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 second one. The cyclin box is a protein binding domain.


Pssm-ID: 410301 [Multi-domain]  Cd Length: 114  Bit Score: 48.92  E-value: 2.70e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845974324  12 KDMVKTAYYMATDVLIITDWSVRYSCASIATACVNIAAFFHNINmddiVPFELSDR-WYRLEDQSMTREEVEAMTKEFLD 90
Cdd:cd20598    18 KDLAQTSYFMATNSLHLTTFCLQYKPTVIACVCIHLACKWSNWE----IPVSTDGKhWWEYVDPTVTLELLDELTHEFLQ 93

                          90
                  ....*....|....*.
gi 1845974324  91 IFSRNPQfhigSLKKI 106
Cdd:cd20598    94 ILEKTPS----RLKRI 105
CYCLIN_CCNL_rpt2 cd20533
second cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 ...
 12-94 5.11e-05

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: 41.43  E-value: 5.11e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845974324  12 KDMVKTAYYMATDVLIiTDWSVRYSCASIATACVNIAAFFHNInmddivPFELSDRWYRLEDQSMtrEEVEAMTKEFLDI 91
Cdd:cd20533    19 KKLAQTAWNYMNDSLR-TDLCVRYPPEVIACACIYLAARELGI------PLPLPPPWWELFDVSK--EDIEEICLTILEL 89


                  ...
gi 1845974324  92 FSR 94
Cdd:cd20533    90 YTR 92
CYCLIN_SpCG1C_ScCTK2-like_rpt2 cd20546
second cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1), Saccharomyces ...
 12-94 1.35e-03

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: 37.73  E-value: 1.35e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1845974324  12 KDMVKTAYYMATDVLIiTDWSVRYSCASIATACVNIAAFFHNINMDDIvPFELSDRWYRLEDQSMtrEEVEAMTKEFLDI 91
Cdd:cd20546    19 KELAQLAWAFLNDSYR-TPLCLLYPPHVIAAAAIYLAAKLLGIDLELS-PNEKLNEWWELFGVDE--EEIADAINEILDL 94


                  ...
gi 1845974324  92 FSR 94
Cdd:cd20546    95 YSS 97
 
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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