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Conserved domains on  [gi|1782320544|ref|XP_020360107|]
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CCR4-NOT transcription complex subunit 9 isoform X2 [Oncorhynchus kisutch]

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 ...
 23-281 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: 500.18  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1782320544  23 WINELSSPETRENALLELSKKRESVPDLAPMLWHSCGTIAALLQEIVNIYPSINPPTLTAHQSNRVCNALALLQCVASHP 102
Cdd:pfam04078   1 LILDLTDPEKREEALLELSKKRESFPDLAPLLWHSFGTMAALLQEIVSIYPLLSPPTLTERESNRVCNALALLQCVASHP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1782320544 103 ETRSAFLAAHIPLFLYPFLHTVSKTRPFEYLRLTSLGVIGALVKTDEQEVINFLLTTEIIPLCLRIMESGSELSKTVATF 182
Cdd:pfam04078  81 ETRSLFLRAHIPLYLYPFLNTTSKSRPFEYLRLTSLGVIGALVKTDDPEVINFLLDTEIVPLCLRIMESGSELSKTVATF 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1782320544 183 ILQKILLDDTGLAYICQTYERFSHVAMILGKMVLQLSKEPSARLLKHVVRCYLRLSDNSRAREALRQCLPDQLKDTTFAQ 262
Cdd:pfam04078 161 ILQKILSDDDGLNYICQTPDRFSAVAQVLNSMVVQLVEQPSPRLLKHVIRCYLRLSDNPRAREALRSCLPELLKDGTFSS 240

                         250
                  ....*....|....*....
gi 1782320544 263 VLKDDTTTKRWLAQLVKNL 281
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 ...
 23-281 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: 500.18  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1782320544  23 WINELSSPETRENALLELSKKRESVPDLAPMLWHSCGTIAALLQEIVNIYPSINPPTLTAHQSNRVCNALALLQCVASHP 102
Cdd:pfam04078   1 LILDLTDPEKREEALLELSKKRESFPDLAPLLWHSFGTMAALLQEIVSIYPLLSPPTLTERESNRVCNALALLQCVASHP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1782320544 103 ETRSAFLAAHIPLFLYPFLHTVSKTRPFEYLRLTSLGVIGALVKTDEQEVINFLLTTEIIPLCLRIMESGSELSKTVATF 182
Cdd:pfam04078  81 ETRSLFLRAHIPLYLYPFLNTTSKSRPFEYLRLTSLGVIGALVKTDDPEVINFLLDTEIVPLCLRIMESGSELSKTVATF 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1782320544 183 ILQKILLDDTGLAYICQTYERFSHVAMILGKMVLQLSKEPSARLLKHVVRCYLRLSDNSRAREALRQCLPDQLKDTTFAQ 262
Cdd:pfam04078 161 ILQKILSDDDGLNYICQTPDRFSAVAQVLNSMVVQLVEQPSPRLLKHVIRCYLRLSDNPRAREALRSCLPELLKDGTFSS 240

                         250
                  ....*....|....*....
gi 1782320544 263 VLKDDTTTKRWLAQLVKNL 281
Cdd:pfam04078 241 LLKDDPETKRWLKQLLHNL 259
RCD1 COG5209
Uncharacterized protein involved in cell differentiation/sexual development [General function ...
 20-283 4.01e-127

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


Pssm-ID: 227534  Cd Length: 315  Bit Score: 364.62  E-value: 4.01e-127
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1782320544  20 IYQWINELSSPETRENALLELSKKRESVPDLAPMLWHSCGTIAALLQEIVNIYPSINPPTLTAHQSNRVCNALALLQCVA 99
Cdd:COG5209    49 VYSWICQLVVGNPKEQALDELFRKREQSPDLALELWRSDGVMTFLLQEIISVYPILSPSKLDERESNRVCNALNLLQCLA 128

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1782320544 100 SHPETRSAFLAAHIPLFLYPFLHTVSKTRPFEYLRLTSLGVIGALVKTDEQEVINFLLTTEIIPLCLRIMESGSELSKTV 179
Cdd:COG5209   129 SHPETKKVFLDAHIPLFLYPFLNTSSSNSKFEYLRLTSLGVIGALVKNDSQYVIKFLLTTEIVPLCLRIMELGSELSKTV 208

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1782320544 180 ATFILQKILLDDTGLAYICQTYERFSHVAMILGKMVLQLSKEPSARLLKHVVRCYLRLSDNSRAREALRQCLPDQLKDTT 259
Cdd:COG5209   209 AIFIFQKILGDDVGLQYICQTFERFYAVNLVLNSMVSQLVSLGSTRLLKHAIRCYLRLSDKPHARALLSSKLPDGLRDDT 288

                         250       260
                  ....*....|....*....|....
gi 1782320544 260 FAQVLKDDTTTKRWLAQLVKNLQE 283
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 ...
 23-281 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: 500.18  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1782320544  23 WINELSSPETRENALLELSKKRESVPDLAPMLWHSCGTIAALLQEIVNIYPSINPPTLTAHQSNRVCNALALLQCVASHP 102
Cdd:pfam04078   1 LILDLTDPEKREEALLELSKKRESFPDLAPLLWHSFGTMAALLQEIVSIYPLLSPPTLTERESNRVCNALALLQCVASHP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1782320544 103 ETRSAFLAAHIPLFLYPFLHTVSKTRPFEYLRLTSLGVIGALVKTDEQEVINFLLTTEIIPLCLRIMESGSELSKTVATF 182
Cdd:pfam04078  81 ETRSLFLRAHIPLYLYPFLNTTSKSRPFEYLRLTSLGVIGALVKTDDPEVINFLLDTEIVPLCLRIMESGSELSKTVATF 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1782320544 183 ILQKILLDDTGLAYICQTYERFSHVAMILGKMVLQLSKEPSARLLKHVVRCYLRLSDNSRAREALRQCLPDQLKDTTFAQ 262
Cdd:pfam04078 161 ILQKILSDDDGLNYICQTPDRFSAVAQVLNSMVVQLVEQPSPRLLKHVIRCYLRLSDNPRAREALRSCLPELLKDGTFSS 240

                         250
                  ....*....|....*....
gi 1782320544 263 VLKDDTTTKRWLAQLVKNL 281
Cdd:pfam04078 241 LLKDDPETKRWLKQLLHNL 259
RCD1 COG5209
Uncharacterized protein involved in cell differentiation/sexual development [General function ...
 20-283 4.01e-127

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


Pssm-ID: 227534  Cd Length: 315  Bit Score: 364.62  E-value: 4.01e-127
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1782320544  20 IYQWINELSSPETRENALLELSKKRESVPDLAPMLWHSCGTIAALLQEIVNIYPSINPPTLTAHQSNRVCNALALLQCVA 99
Cdd:COG5209    49 VYSWICQLVVGNPKEQALDELFRKREQSPDLALELWRSDGVMTFLLQEIISVYPILSPSKLDERESNRVCNALNLLQCLA 128

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1782320544 100 SHPETRSAFLAAHIPLFLYPFLHTVSKTRPFEYLRLTSLGVIGALVKTDEQEVINFLLTTEIIPLCLRIMESGSELSKTV 179
Cdd:COG5209   129 SHPETKKVFLDAHIPLFLYPFLNTSSSNSKFEYLRLTSLGVIGALVKNDSQYVIKFLLTTEIVPLCLRIMELGSELSKTV 208

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1782320544 180 ATFILQKILLDDTGLAYICQTYERFSHVAMILGKMVLQLSKEPSARLLKHVVRCYLRLSDNSRAREALRQCLPDQLKDTT 259
Cdd:COG5209   209 AIFIFQKILGDDVGLQYICQTFERFYAVNLVLNSMVSQLVSLGSTRLLKHAIRCYLRLSDKPHARALLSSKLPDGLRDDT 288

                         250       260
                  ....*....|....*....|....
gi 1782320544 260 FAQVLKDDTTTKRWLAQLVKNLQE 283
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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