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Conserved domains on  [gi|57164127|ref|NP_001009357|]
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CCR4-NOT transcription complex subunit 9 [Rattus norvegicus]

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 ...
 25-283 0e+00

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: 503.65  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 57164127    25 WINELSSPETRENALLELSKKRESVPDLAPMLWHSFGTIAALLQEIVNIYPSINPPTLTAHQSNRVCNALALLQCVASHP 104
Cdd:pfam04078   1 LILDLTDPEKREEALLELSKKRESFPDLAPLLWHSFGTMAALLQEIVSIYPLLSPPTLTERESNRVCNALALLQCVASHP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 57164127   105 ETRSAFLAAHIPLFLYPFLHTVSKTRPFEYLRLTSLGVIGALVKTDEQEVINFLLTTEIIPLCLRIMESGSELSKTVATF 184
Cdd:pfam04078  81 ETRSLFLRAHIPLYLYPFLNTTSKSRPFEYLRLTSLGVIGALVKTDDPEVINFLLDTEIVPLCLRIMESGSELSKTVATF 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 57164127   185 ILQKILLDDTGLAYICQTYERFSHVAMILGKMVLQLSKEPSARLLKHVVRCYLRLSDNPRAREALRQCLPDQLKDTTFAQ 264
Cdd:pfam04078 161 ILQKILSDDDGLNYICQTPDRFSAVAQVLNSMVVQLVEQPSPRLLKHVIRCYLRLSDNPRAREALRSCLPELLKDGTFSS 240

                         250
                  ....*....|....*....
gi 57164127   265 VLKDDTTTKRWLAQLVKNL 283
Cdd:pfam04078 241 LLKDDPETKRWLKQLLHNL 259
 
Name Accession Description Interval E-value
Rcd1 pfam04078
Cell differentiation family, Rcd1-like; Two of the members in this family have been ...
 25-283 0e+00

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: 503.65  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 57164127    25 WINELSSPETRENALLELSKKRESVPDLAPMLWHSFGTIAALLQEIVNIYPSINPPTLTAHQSNRVCNALALLQCVASHP 104
Cdd:pfam04078   1 LILDLTDPEKREEALLELSKKRESFPDLAPLLWHSFGTMAALLQEIVSIYPLLSPPTLTERESNRVCNALALLQCVASHP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 57164127   105 ETRSAFLAAHIPLFLYPFLHTVSKTRPFEYLRLTSLGVIGALVKTDEQEVINFLLTTEIIPLCLRIMESGSELSKTVATF 184
Cdd:pfam04078  81 ETRSLFLRAHIPLYLYPFLNTTSKSRPFEYLRLTSLGVIGALVKTDDPEVINFLLDTEIVPLCLRIMESGSELSKTVATF 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 57164127   185 ILQKILLDDTGLAYICQTYERFSHVAMILGKMVLQLSKEPSARLLKHVVRCYLRLSDNPRAREALRQCLPDQLKDTTFAQ 264
Cdd:pfam04078 161 ILQKILSDDDGLNYICQTPDRFSAVAQVLNSMVVQLVEQPSPRLLKHVIRCYLRLSDNPRAREALRSCLPELLKDGTFSS 240

                         250
                  ....*....|....*....
gi 57164127   265 VLKDDTTTKRWLAQLVKNL 283
Cdd:pfam04078 241 LLKDDPETKRWLKQLLHNL 259
RCD1 COG5209
Uncharacterized protein involved in cell differentiation/sexual development [General function ...
 22-285 4.74e-129

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


Pssm-ID: 227534  Cd Length: 315  Bit Score: 369.63  E-value: 4.74e-129
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 57164127  22 IYQWINELSSPETRENALLELSKKRESVPDLAPMLWHSFGTIAALLQEIVNIYPSINPPTLTAHQSNRVCNALALLQCVA 101
Cdd:COG5209  49 VYSWICQLVVGNPKEQALDELFRKREQSPDLALELWRSDGVMTFLLQEIISVYPILSPSKLDERESNRVCNALNLLQCLA 128

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 57164127 102 SHPETRSAFLAAHIPLFLYPFLHTVSKTRPFEYLRLTSLGVIGALVKTDEQEVINFLLTTEIIPLCLRIMESGSELSKTV 181
Cdd:COG5209 129 SHPETKKVFLDAHIPLFLYPFLNTSSSNSKFEYLRLTSLGVIGALVKNDSQYVIKFLLTTEIVPLCLRIMELGSELSKTV 208

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 57164127 182 ATFILQKILLDDTGLAYICQTYERFSHVAMILGKMVLQLSKEPSARLLKHVVRCYLRLSDNPRAREALRQCLPDQLKDTT 261
Cdd:COG5209 209 AIFIFQKILGDDVGLQYICQTFERFYAVNLVLNSMVSQLVSLGSTRLLKHAIRCYLRLSDKPHARALLSSKLPDGLRDDT 288

                       250       260
                ....*....|....*....|....
gi 57164127 262 FAQVLKDDTTTKRWLAQLVKNLQE 285
Cdd:COG5209 289 FSLVLADDGGSKECLAQLLTFLNL 312
 
Name Accession Description Interval E-value
Rcd1 pfam04078
Cell differentiation family, Rcd1-like; Two of the members in this family have been ...
 25-283 0e+00

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: 503.65  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 57164127    25 WINELSSPETRENALLELSKKRESVPDLAPMLWHSFGTIAALLQEIVNIYPSINPPTLTAHQSNRVCNALALLQCVASHP 104
Cdd:pfam04078   1 LILDLTDPEKREEALLELSKKRESFPDLAPLLWHSFGTMAALLQEIVSIYPLLSPPTLTERESNRVCNALALLQCVASHP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 57164127   105 ETRSAFLAAHIPLFLYPFLHTVSKTRPFEYLRLTSLGVIGALVKTDEQEVINFLLTTEIIPLCLRIMESGSELSKTVATF 184
Cdd:pfam04078  81 ETRSLFLRAHIPLYLYPFLNTTSKSRPFEYLRLTSLGVIGALVKTDDPEVINFLLDTEIVPLCLRIMESGSELSKTVATF 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 57164127   185 ILQKILLDDTGLAYICQTYERFSHVAMILGKMVLQLSKEPSARLLKHVVRCYLRLSDNPRAREALRQCLPDQLKDTTFAQ 264
Cdd:pfam04078 161 ILQKILSDDDGLNYICQTPDRFSAVAQVLNSMVVQLVEQPSPRLLKHVIRCYLRLSDNPRAREALRSCLPELLKDGTFSS 240

                         250
                  ....*....|....*....
gi 57164127   265 VLKDDTTTKRWLAQLVKNL 283
Cdd:pfam04078 241 LLKDDPETKRWLKQLLHNL 259
RCD1 COG5209
Uncharacterized protein involved in cell differentiation/sexual development [General function ...
 22-285 4.74e-129

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


Pssm-ID: 227534  Cd Length: 315  Bit Score: 369.63  E-value: 4.74e-129
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 57164127  22 IYQWINELSSPETRENALLELSKKRESVPDLAPMLWHSFGTIAALLQEIVNIYPSINPPTLTAHQSNRVCNALALLQCVA 101
Cdd:COG5209  49 VYSWICQLVVGNPKEQALDELFRKREQSPDLALELWRSDGVMTFLLQEIISVYPILSPSKLDERESNRVCNALNLLQCLA 128

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 57164127 102 SHPETRSAFLAAHIPLFLYPFLHTVSKTRPFEYLRLTSLGVIGALVKTDEQEVINFLLTTEIIPLCLRIMESGSELSKTV 181
Cdd:COG5209 129 SHPETKKVFLDAHIPLFLYPFLNTSSSNSKFEYLRLTSLGVIGALVKNDSQYVIKFLLTTEIVPLCLRIMELGSELSKTV 208

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 57164127 182 ATFILQKILLDDTGLAYICQTYERFSHVAMILGKMVLQLSKEPSARLLKHVVRCYLRLSDNPRAREALRQCLPDQLKDTT 261
Cdd:COG5209 209 AIFIFQKILGDDVGLQYICQTFERFYAVNLVLNSMVSQLVSLGSTRLLKHAIRCYLRLSDKPHARALLSSKLPDGLRDDT 288

                       250       260
                ....*....|....*....|....
gi 57164127 262 FAQVLKDDTTTKRWLAQLVKNLQE 285
Cdd:COG5209 289 FSLVLADDGGSKECLAQLLTFLNL 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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