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Conserved domains on  [gi|30685342|ref|NP_180814|]
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Cell differentiation, Rcd1-like protein [Arabidopsis thaliana]

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 ...
 52-320 5.97e-101

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: 297.18  E-value: 5.97e-101
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30685342    52 WVCDIHKPKSymSDFALHNLAYHRNDFEFLPSLLWESKNTVYIMLQEVFEAYRHLA-GHISLRLfphplnPLRVYNVFLL 130
Cdd:pfam04078   1 LILDLTDPEK--REEALLELSKKRESFPDLAPLLWHSFGTMAALLQEIVSIYPLLSpPTLTERE------SNRVCNALAL 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30685342   131 FQSMACHPDTSRQFLRAKMPNYFYPLMDTGLIDKSDECMRLAALGVIAHMLKaSEDGAVNRYLMESGVVGFCVKPIEFGS 210
Cdd:pfam04078  73 LQCVASHPETRSLFLRAHIPLYLYPFLNTTSKSRPFEYLRLTSLGVIGALVK-TDDPEVINFLLDTEIVPLCLRIMESGS 151

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30685342   211 TETKKVALYILDKIMSTDQGLYYCCVLADRFYVIDELLKKVLFYLSnmVRPPSSLFSLVTGCYVKLSQNSRARNGIRRYT 290
Cdd:pfam04078 152 ELSKTVATFILQKILSDDDGLNYICQTPDRFSAVAQVLNSMVVQLV--EQPSPRLLKHVIRCYLRLSDNPRAREALRSCL 229

                         250       260       270
                  ....*....|....*....|....*....|
gi 30685342   291 PFLLFDGTFSRLYAEDPVAANNRIQLLQNL 320
Cdd:pfam04078 230 PELLKDGTFSSLLKDDPETKRWLKQLLHNL 259
 
Name Accession Description Interval E-value
Rcd1 pfam04078
Cell differentiation family, Rcd1-like; Two of the members in this family have been ...
 52-320 5.97e-101

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: 297.18  E-value: 5.97e-101
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30685342    52 WVCDIHKPKSymSDFALHNLAYHRNDFEFLPSLLWESKNTVYIMLQEVFEAYRHLA-GHISLRLfphplnPLRVYNVFLL 130
Cdd:pfam04078   1 LILDLTDPEK--REEALLELSKKRESFPDLAPLLWHSFGTMAALLQEIVSIYPLLSpPTLTERE------SNRVCNALAL 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30685342   131 FQSMACHPDTSRQFLRAKMPNYFYPLMDTGLIDKSDECMRLAALGVIAHMLKaSEDGAVNRYLMESGVVGFCVKPIEFGS 210
Cdd:pfam04078  73 LQCVASHPETRSLFLRAHIPLYLYPFLNTTSKSRPFEYLRLTSLGVIGALVK-TDDPEVINFLLDTEIVPLCLRIMESGS 151

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30685342   211 TETKKVALYILDKIMSTDQGLYYCCVLADRFYVIDELLKKVLFYLSnmVRPPSSLFSLVTGCYVKLSQNSRARNGIRRYT 290
Cdd:pfam04078 152 ELSKTVATFILQKILSDDDGLNYICQTPDRFSAVAQVLNSMVVQLV--EQPSPRLLKHVIRCYLRLSDNPRAREALRSCL 229

                         250       260       270
                  ....*....|....*....|....*....|
gi 30685342   291 PFLLFDGTFSRLYAEDPVAANNRIQLLQNL 320
Cdd:pfam04078 230 PELLKDGTFSSLLKDDPETKRWLKQLLHNL 259
RCD1 COG5209
Uncharacterized protein involved in cell differentiation/sexual development [General function ...
 67-321 1.67e-37

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


Pssm-ID: 227534  Cd Length: 315  Bit Score: 135.81  E-value: 1.67e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30685342  67 ALHNLAYHRNDFEFLPSLLWESKNTVYIMLQEVFEAYRHLaghiSLRLFPHPLNPlRVYNVFLLFQSMACHPDTSRQFLR 146
Cdd:COG5209  65 ALDELFRKREQSPDLALELWRSDGVMTFLLQEIISVYPIL----SPSKLDERESN-RVCNALNLLQCLASHPETKKVFLD 139

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30685342 147 AKMPNYFYPLMDTGLIDKSDECMRLAALGVIAHMLKaSEDGAVNRYLMESGVVGFCVKPIEFGSTETKKVALYILDKIMS 226
Cdd:COG5209 140 AHIPLFLYPFLNTSSSNSKFEYLRLTSLGVIGALVK-NDSQYVIKFLLTTEIVPLCLRIMELGSELSKTVAIFIFQKILG 218

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30685342 227 TDQGLYYCCVLADRFYVIDELLKKVLFYLSNMvrPPSSLFSLVTGCYVKLSQNSRARNGIRRYTPFLLFDGTFSRLYAED 306
Cdd:COG5209 219 DDVGLQYICQTFERFYAVNLVLNSMVSQLVSL--GSTRLLKHAIRCYLRLSDKPHARALLSSKLPDGLRDDTFSLVLADD 296

                       250
                ....*....|....*
gi 30685342 307 PVAANNRIQLLQNLD 321
Cdd:COG5209 297 GGSKECLAQLLTFLN 311
 
Name Accession Description Interval E-value
Rcd1 pfam04078
Cell differentiation family, Rcd1-like; Two of the members in this family have been ...
 52-320 5.97e-101

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: 297.18  E-value: 5.97e-101
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30685342    52 WVCDIHKPKSymSDFALHNLAYHRNDFEFLPSLLWESKNTVYIMLQEVFEAYRHLA-GHISLRLfphplnPLRVYNVFLL 130
Cdd:pfam04078   1 LILDLTDPEK--REEALLELSKKRESFPDLAPLLWHSFGTMAALLQEIVSIYPLLSpPTLTERE------SNRVCNALAL 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30685342   131 FQSMACHPDTSRQFLRAKMPNYFYPLMDTGLIDKSDECMRLAALGVIAHMLKaSEDGAVNRYLMESGVVGFCVKPIEFGS 210
Cdd:pfam04078  73 LQCVASHPETRSLFLRAHIPLYLYPFLNTTSKSRPFEYLRLTSLGVIGALVK-TDDPEVINFLLDTEIVPLCLRIMESGS 151

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30685342   211 TETKKVALYILDKIMSTDQGLYYCCVLADRFYVIDELLKKVLFYLSnmVRPPSSLFSLVTGCYVKLSQNSRARNGIRRYT 290
Cdd:pfam04078 152 ELSKTVATFILQKILSDDDGLNYICQTPDRFSAVAQVLNSMVVQLV--EQPSPRLLKHVIRCYLRLSDNPRAREALRSCL 229

                         250       260       270
                  ....*....|....*....|....*....|
gi 30685342   291 PFLLFDGTFSRLYAEDPVAANNRIQLLQNL 320
Cdd:pfam04078 230 PELLKDGTFSSLLKDDPETKRWLKQLLHNL 259
RCD1 COG5209
Uncharacterized protein involved in cell differentiation/sexual development [General function ...
 67-321 1.67e-37

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


Pssm-ID: 227534  Cd Length: 315  Bit Score: 135.81  E-value: 1.67e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30685342  67 ALHNLAYHRNDFEFLPSLLWESKNTVYIMLQEVFEAYRHLaghiSLRLFPHPLNPlRVYNVFLLFQSMACHPDTSRQFLR 146
Cdd:COG5209  65 ALDELFRKREQSPDLALELWRSDGVMTFLLQEIISVYPIL----SPSKLDERESN-RVCNALNLLQCLASHPETKKVFLD 139

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30685342 147 AKMPNYFYPLMDTGLIDKSDECMRLAALGVIAHMLKaSEDGAVNRYLMESGVVGFCVKPIEFGSTETKKVALYILDKIMS 226
Cdd:COG5209 140 AHIPLFLYPFLNTSSSNSKFEYLRLTSLGVIGALVK-NDSQYVIKFLLTTEIVPLCLRIMELGSELSKTVAIFIFQKILG 218

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30685342 227 TDQGLYYCCVLADRFYVIDELLKKVLFYLSNMvrPPSSLFSLVTGCYVKLSQNSRARNGIRRYTPFLLFDGTFSRLYAED 306
Cdd:COG5209 219 DDVGLQYICQTFERFYAVNLVLNSMVSQLVSL--GSTRLLKHAIRCYLRLSDKPHARALLSSKLPDGLRDDTFSLVLADD 296

                       250
                ....*....|....*
gi 30685342 307 PVAANNRIQLLQNLD 321
Cdd:COG5209 297 GGSKECLAQLLTFLN 311
 
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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