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Conserved domains on  [gi|1063742220|ref|NP_001329955|]
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VIRE2 interacting protein 2 [Arabidopsis thaliana]

Protein Classification

NOT2/NOT3/NOT5 family protein( domain architecture ID 602)

NOT2/NOT3/NOT5 family protein similar to Homo sapiens CCR4-NOT transcription complex subunit 2 (CNOT2), which is a component of the CCR4-NOT complex that is one of the major cellular mRNA deadenylases and is linked to various cellular processes including bulk mRNA degradation, miRNA-mediated repression, translational repression during translational initiation and general transcription regulation

Gene Ontology:  GO:0003712|GO:0006357|GO:0030015
PubMed:  10637334|12957374|7926748

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
NOT2_3_5 super family cl02384
NOT2 / NOT3 / NOT5 family; NOT1, NOT2, NOT3, NOT4 and NOT5 form a nuclear complex that ...
 484-550 3.40e-20

NOT2 / NOT3 / NOT5 family; NOT1, NOT2, NOT3, NOT4 and NOT5 form a nuclear complex that negatively regulates the basal and activated transcription of many genes. This family includes NOT2, NOT3 and NOT5.


The actual alignment was detected with superfamily member pfam04153:

Pssm-ID: 470561  Cd Length: 121  Bit Score: 86.11  E-value: 3.40e-20
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063742220 484 YKTFASPWTNEPAKS-EVEFTVPNCYyATEPPPLTRAS--FKRFSYELLFYTFYSMPKDEAQLYAADELY 550
Cdd:pfam04153   1 YSTFNSPWPLDAERPyEPDFRNPACY-PQEPLPRLESPekFSKFDDETLFYIFYSMPGDYAQYLAAKELK 69
 
Name Accession Description Interval E-value
NOT2_3_5 pfam04153
NOT2 / NOT3 / NOT5 family; NOT1, NOT2, NOT3, NOT4 and NOT5 form a nuclear complex that ...
 484-550 3.40e-20

NOT2 / NOT3 / NOT5 family; NOT1, NOT2, NOT3, NOT4 and NOT5 form a nuclear complex that negatively regulates the basal and activated transcription of many genes. This family includes NOT2, NOT3 and NOT5.


Pssm-ID: 461199  Cd Length: 121  Bit Score: 86.11  E-value: 3.40e-20
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063742220 484 YKTFASPWTNEPAKS-EVEFTVPNCYyATEPPPLTRAS--FKRFSYELLFYTFYSMPKDEAQLYAADELY 550
Cdd:pfam04153   1 YSTFNSPWPLDAERPyEPDFRNPACY-PQEPLPRLESPekFSKFDDETLFYIFYSMPGDYAQYLAAKELK 69
CDC36 COG5601
General negative regulator of transcription subunit [Transcription];
450-552 9.81e-14

General negative regulator of transcription subunit [Transcription];


Pssm-ID: 227888  Cd Length: 172  Bit Score: 69.24  E-value: 9.81e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063742220 450 LLDVLNRSNPELTSLALGIDLTTLGLDL----NSTGNLYKTFASPWTnEPAKSEVE--FTVPNCYYATEPPPLTRASFKR 523
Cdd:COG5601     5 LKPLEQIEDEEQSIHDLGKDLLSEILSLvrpkKYQDRPSTTLYSPWA-ESTKKPVQpmFMLPNCYPNAPNPPIFKVNIED 83

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1063742220 524 -----FSYELLFYTFYSMPKDEAQLYAADEL----YVF 552
Cdd:COG5601    84 mkmdnFHDETLFYIFYSFPNDVLQEKAYDELlkrnWRF 121
 
Name Accession Description Interval E-value
NOT2_3_5 pfam04153
NOT2 / NOT3 / NOT5 family; NOT1, NOT2, NOT3, NOT4 and NOT5 form a nuclear complex that ...
 484-550 3.40e-20

NOT2 / NOT3 / NOT5 family; NOT1, NOT2, NOT3, NOT4 and NOT5 form a nuclear complex that negatively regulates the basal and activated transcription of many genes. This family includes NOT2, NOT3 and NOT5.


Pssm-ID: 461199  Cd Length: 121  Bit Score: 86.11  E-value: 3.40e-20
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063742220 484 YKTFASPWTNEPAKS-EVEFTVPNCYyATEPPPLTRAS--FKRFSYELLFYTFYSMPKDEAQLYAADELY 550
Cdd:pfam04153   1 YSTFNSPWPLDAERPyEPDFRNPACY-PQEPLPRLESPekFSKFDDETLFYIFYSMPGDYAQYLAAKELK 69
CDC36 COG5601
General negative regulator of transcription subunit [Transcription];
450-552 9.81e-14

General negative regulator of transcription subunit [Transcription];


Pssm-ID: 227888  Cd Length: 172  Bit Score: 69.24  E-value: 9.81e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1063742220 450 LLDVLNRSNPELTSLALGIDLTTLGLDL----NSTGNLYKTFASPWTnEPAKSEVE--FTVPNCYYATEPPPLTRASFKR 523
Cdd:COG5601     5 LKPLEQIEDEEQSIHDLGKDLLSEILSLvrpkKYQDRPSTTLYSPWA-ESTKKPVQpmFMLPNCYPNAPNPPIFKVNIED 83

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1063742220 524 -----FSYELLFYTFYSMPKDEAQLYAADEL----YVF 552
Cdd:COG5601    84 mkmdnFHDETLFYIFYSFPNDVLQEKAYDELlkrnWRF 121
 
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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