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Conserved domains on  [gi|568906750|ref|XP_006496234|]
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CCR4-NOT transcription complex subunit 9 isoform X1 [Mus musculus]

Protein Classification

Rcd1-like cell differentiation family protein( domain architecture ID 10513525)

Rcd1-like cell differentiation family protein such as CCR4-NOT transcription complex subunit 9 (CNOT9), which is a component of the CCR4-NOT complex which 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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Rcd1 pfam04078
Cell differentiation family, Rcd1-like; Two of the members in this family have been ...
 1-229 6.67e-163

Cell differentiation family, Rcd1-like; Two of the members in this family have been characterized as being involved in regulation of Ste11 regulated sex genes. Mammalian Rcd1 is a novel transcriptional cofactor that mediates retinoic acid-induced cell differentiation.


:

Pssm-ID: 461160  Cd Length: 259  Bit Score: 450.88  E-value: 6.67e-163
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568906750    1 MLWHSFGTIAALLQEIVNIYPSINPPTLTAHQSNRVCNALALLQCVASHPETRSAFLAAHIPLFLYPFLHTVSKTRPFEY 80
Cdd:pfam04078  31 LLWHSFGTMAALLQEIVSIYPLLSPPTLTERESNRVCNALALLQCVASHPETRSLFLRAHIPLYLYPFLNTTSKSRPFEY 110

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568906750   81 LRLTSLGVIGALVKTDEQEVINFLLTTEIIPLCLRIMESGSELSKTVATFILQKILLDDTGLAYICQTYERFSHVAMILG 160
Cdd:pfam04078 111 LRLTSLGVIGALVKTDDPEVINFLLDTEIVPLCLRIMESGSELSKTVATFILQKILSDDDGLNYICQTPDRFSAVAQVLN 190

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 568906750  161 KMVLQLSKEPSARLLKHVVRCYLRLSDNPRAREALRQCLPDQLKDTTFAQVLKDDTTTKRWLAQLVKNL 229
Cdd:pfam04078 191 SMVVQLVEQPSPRLLKHVIRCYLRLSDNPRAREALRSCLPELLKDGTFSSLLKDDPETKRWLKQLLHNL 259
 
Name Accession Description Interval E-value
Rcd1 pfam04078
Cell differentiation family, Rcd1-like; Two of the members in this family have been ...
 1-229 6.67e-163

Cell differentiation family, Rcd1-like; Two of the members in this family have been characterized as being involved in regulation of Ste11 regulated sex genes. Mammalian Rcd1 is a novel transcriptional cofactor that mediates retinoic acid-induced cell differentiation.


Pssm-ID: 461160  Cd Length: 259  Bit Score: 450.88  E-value: 6.67e-163
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568906750    1 MLWHSFGTIAALLQEIVNIYPSINPPTLTAHQSNRVCNALALLQCVASHPETRSAFLAAHIPLFLYPFLHTVSKTRPFEY 80
Cdd:pfam04078  31 LLWHSFGTMAALLQEIVSIYPLLSPPTLTERESNRVCNALALLQCVASHPETRSLFLRAHIPLYLYPFLNTTSKSRPFEY 110

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568906750   81 LRLTSLGVIGALVKTDEQEVINFLLTTEIIPLCLRIMESGSELSKTVATFILQKILLDDTGLAYICQTYERFSHVAMILG 160
Cdd:pfam04078 111 LRLTSLGVIGALVKTDDPEVINFLLDTEIVPLCLRIMESGSELSKTVATFILQKILSDDDGLNYICQTPDRFSAVAQVLN 190

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 568906750  161 KMVLQLSKEPSARLLKHVVRCYLRLSDNPRAREALRQCLPDQLKDTTFAQVLKDDTTTKRWLAQLVKNL 229
Cdd:pfam04078 191 SMVVQLVEQPSPRLLKHVIRCYLRLSDNPRAREALRSCLPELLKDGTFSSLLKDDPETKRWLKQLLHNL 259
RCD1 COG5209
Uncharacterized protein involved in cell differentiation/sexual development [General function ...
 2-231 7.02e-118

Uncharacterized protein involved in cell differentiation/sexual development [General function prediction only];


Pssm-ID: 227534  Cd Length: 315  Bit Score: 339.20  E-value: 7.02e-118
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568906750   2 LWHSFGTIAALLQEIVNIYPSINPPTLTAHQSNRVCNALALLQCVASHPETRSAFLAAHIPLFLYPFLHTVSKTRPFEYL 81
Cdd:COG5209   83 LWRSDGVMTFLLQEIISVYPILSPSKLDERESNRVCNALNLLQCLASHPETKKVFLDAHIPLFLYPFLNTSSSNSKFEYL 162

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568906750  82 RLTSLGVIGALVKTDEQEVINFLLTTEIIPLCLRIMESGSELSKTVATFILQKILLDDTGLAYICQTYERFSHVAMILGK 161
Cdd:COG5209  163 RLTSLGVIGALVKNDSQYVIKFLLTTEIVPLCLRIMELGSELSKTVAIFIFQKILGDDVGLQYICQTFERFYAVNLVLNS 242

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568906750 162 MVLQLSKEPSARLLKHVVRCYLRLSDNPRAREALRQCLPDQLKDTTFAQVLKDDTTTKRWLAQLVKNLQE 231
Cdd:COG5209  243 MVSQLVSLGSTRLLKHAIRCYLRLSDKPHARALLSSKLPDGLRDDTFSLVLADDGGSKECLAQLLTFLNL 312
 
Name Accession Description Interval E-value
Rcd1 pfam04078
Cell differentiation family, Rcd1-like; Two of the members in this family have been ...
 1-229 6.67e-163

Cell differentiation family, Rcd1-like; Two of the members in this family have been characterized as being involved in regulation of Ste11 regulated sex genes. Mammalian Rcd1 is a novel transcriptional cofactor that mediates retinoic acid-induced cell differentiation.


Pssm-ID: 461160  Cd Length: 259  Bit Score: 450.88  E-value: 6.67e-163
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568906750    1 MLWHSFGTIAALLQEIVNIYPSINPPTLTAHQSNRVCNALALLQCVASHPETRSAFLAAHIPLFLYPFLHTVSKTRPFEY 80
Cdd:pfam04078  31 LLWHSFGTMAALLQEIVSIYPLLSPPTLTERESNRVCNALALLQCVASHPETRSLFLRAHIPLYLYPFLNTTSKSRPFEY 110

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568906750   81 LRLTSLGVIGALVKTDEQEVINFLLTTEIIPLCLRIMESGSELSKTVATFILQKILLDDTGLAYICQTYERFSHVAMILG 160
Cdd:pfam04078 111 LRLTSLGVIGALVKTDDPEVINFLLDTEIVPLCLRIMESGSELSKTVATFILQKILSDDDGLNYICQTPDRFSAVAQVLN 190

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 568906750  161 KMVLQLSKEPSARLLKHVVRCYLRLSDNPRAREALRQCLPDQLKDTTFAQVLKDDTTTKRWLAQLVKNL 229
Cdd:pfam04078 191 SMVVQLVEQPSPRLLKHVIRCYLRLSDNPRAREALRSCLPELLKDGTFSSLLKDDPETKRWLKQLLHNL 259
RCD1 COG5209
Uncharacterized protein involved in cell differentiation/sexual development [General function ...
 2-231 7.02e-118

Uncharacterized protein involved in cell differentiation/sexual development [General function prediction only];


Pssm-ID: 227534  Cd Length: 315  Bit Score: 339.20  E-value: 7.02e-118
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568906750   2 LWHSFGTIAALLQEIVNIYPSINPPTLTAHQSNRVCNALALLQCVASHPETRSAFLAAHIPLFLYPFLHTVSKTRPFEYL 81
Cdd:COG5209   83 LWRSDGVMTFLLQEIISVYPILSPSKLDERESNRVCNALNLLQCLASHPETKKVFLDAHIPLFLYPFLNTSSSNSKFEYL 162

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568906750  82 RLTSLGVIGALVKTDEQEVINFLLTTEIIPLCLRIMESGSELSKTVATFILQKILLDDTGLAYICQTYERFSHVAMILGK 161
Cdd:COG5209  163 RLTSLGVIGALVKNDSQYVIKFLLTTEIVPLCLRIMELGSELSKTVAIFIFQKILGDDVGLQYICQTFERFYAVNLVLNS 242

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568906750 162 MVLQLSKEPSARLLKHVVRCYLRLSDNPRAREALRQCLPDQLKDTTFAQVLKDDTTTKRWLAQLVKNLQE 231
Cdd:COG5209  243 MVSQLVSLGSTRLLKHAIRCYLRLSDKPHARALLSSKLPDGLRDDTFSLVLADDGGSKECLAQLLTFLNL 312
 
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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