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Conserved domains on  [gi|18424242|ref|NP_568908|]
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scarecrow-like transcription factor 11 (SCL11) [Arabidopsis thaliana]

Protein Classification

MPP6 family protein( domain architecture ID 7458)

MPP6 family protein similar to Saccharomyces cerevisiae M-phase phosphoprotein 6 (MPP6) homolog that is involved in surveillance of pre-rRNAs and pre-mRNAs, and the degradation of cryptic non-coding RNAs (ncRNA) derived from intergenic regions and the ribosomal DNA spacer heterochromatin

Gene Ontology:  GO:0000460|GO:0003723

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
MPP6 super family cl10869
M-phase phosphoprotein 6; This family represents the M-phase phosphoprotein 6 (MPP6) which is ...
 5-81 8.62e-05

M-phase phosphoprotein 6; This family represents the M-phase phosphoprotein 6 (MPP6) which is involved in the generation of the 3' end of the 5.8S rRNA precursor. MPP6 is required for the integrity maintenance of the rRNA processing complex as it mediates the interaction between MTR4 (RNA helicase) and RRP6 (an 3'-5' exonuclease), and the recruitment of Nuclear VCP-like 2 (NVL2) to the nuclear exosome.


The actual alignment was detected with superfamily member pfam10175:

Pssm-ID: 462978  Cd Length: 131  Bit Score: 40.49  E-value: 8.62e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18424242     5 EISSTLRNLKFMQRSSLKVEKKKADEEEPNGSF----------PSLRTVAKKCVVITDWDPQPGALLGRMSFQSFNPSIE 74
Cdd:pfam10175   1 KLSSRVLNMKFMQRAKDAEEKEQLEEEESDKKLidesewvldgPELLEKKLKIKSEPSYVGCENLIFGRMSFGGFNPEIE 80


                  ....*..
gi 18424242    75 KLHEEAI 81
Cdd:pfam10175  81 KLMKKEE 87
 
Name Accession Description Interval E-value
MPP6 pfam10175
M-phase phosphoprotein 6; This family represents the M-phase phosphoprotein 6 (MPP6) which is ...
 5-81 8.62e-05

M-phase phosphoprotein 6; This family represents the M-phase phosphoprotein 6 (MPP6) which is involved in the generation of the 3' end of the 5.8S rRNA precursor. MPP6 is required for the integrity maintenance of the rRNA processing complex as it mediates the interaction between MTR4 (RNA helicase) and RRP6 (an 3'-5' exonuclease), and the recruitment of Nuclear VCP-like 2 (NVL2) to the nuclear exosome.


Pssm-ID: 462978  Cd Length: 131  Bit Score: 40.49  E-value: 8.62e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18424242     5 EISSTLRNLKFMQRSSLKVEKKKADEEEPNGSF----------PSLRTVAKKCVVITDWDPQPGALLGRMSFQSFNPSIE 74
Cdd:pfam10175   1 KLSSRVLNMKFMQRAKDAEEKEQLEEEESDKKLidesewvldgPELLEKKLKIKSEPSYVGCENLIFGRMSFGGFNPEIE 80


                  ....*..
gi 18424242    75 KLHEEAI 81
Cdd:pfam10175  81 KLMKKEE 87
 
Name Accession Description Interval E-value
MPP6 pfam10175
M-phase phosphoprotein 6; This family represents the M-phase phosphoprotein 6 (MPP6) which is ...
 5-81 8.62e-05

M-phase phosphoprotein 6; This family represents the M-phase phosphoprotein 6 (MPP6) which is involved in the generation of the 3' end of the 5.8S rRNA precursor. MPP6 is required for the integrity maintenance of the rRNA processing complex as it mediates the interaction between MTR4 (RNA helicase) and RRP6 (an 3'-5' exonuclease), and the recruitment of Nuclear VCP-like 2 (NVL2) to the nuclear exosome.


Pssm-ID: 462978  Cd Length: 131  Bit Score: 40.49  E-value: 8.62e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18424242     5 EISSTLRNLKFMQRSSLKVEKKKADEEEPNGSF----------PSLRTVAKKCVVITDWDPQPGALLGRMSFQSFNPSIE 74
Cdd:pfam10175   1 KLSSRVLNMKFMQRAKDAEEKEQLEEEESDKKLidesewvldgPELLEKKLKIKSEPSYVGCENLIFGRMSFGGFNPEIE 80


                  ....*..
gi 18424242    75 KLHEEAI 81
Cdd:pfam10175  81 KLMKKEE 87
 
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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