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Conserved domains on  [gi|30686199|ref|NP_850236|]
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RNA polymerase I specific transcription initiation factor RRN3 protein [Arabidopsis thaliana]

Protein Classification

RNA polymerase I-specific transcription initiation factor RRN3 family protein( domain architecture ID 10526375)

RNA polymerase I-specific transcription initiation factor RRN3 family protein similar to human RRN3 that is required for efficient transcription initiation by RNA polymerase I, and for the formation of the competent preinitiation complex (PIC).

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RRN3 pfam05327
RNA polymerase I specific transcription initiation factor RRN3; This family consists of ...
 23-542 6.51e-166

RNA polymerase I specific transcription initiation factor RRN3; This family consists of several eukaryotic proteins which are homologous to the yeast RRN3 protein. RRN3 is one of the RRN genes specifically required for the transcription of rDNA by RNA polymerase I (Pol I) in Saccharomyces cerevisiae.


:

Pssm-ID: 461623  Cd Length: 548  Bit Score: 484.42  E-value: 6.51e-166
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30686199    23 VDLSDTQLVQTVRKALTSVKTGDSDLYSEMVGVMARDIKEfKDPDVVAQLETVLKALSGAVACIDVlHHQKLLSALFRMK 102
Cdd:pfam05327   1 EDFSDKMYREFVRRALEEHEKGDSEQYDELKEQFSPDPES-PDAPSTALLKQLLKALSSNVSRLDR-SCSGLVEAILSLS 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30686199   103 lWDHRPD-VMDALVNLVISLAVTSGKYLDSCLNMLVSNFVPPPWVVNNLSHSRILNKKIdVLSRVHAALLKISILVPLTP 181
Cdd:pfam05327  79 -WLGRDEsFVKAYIRFLGVLASAHPKYLSLVLSMLVSNFTPQPESSGRLPGYPPVTRRE-VYERVHEALKYILRLIPTAP 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30686199   182 SRLVPMLFQQMPKMHKKDHSIVIYVESLLKLenSSIGQVGGSMILGMVMERLRDLDLEI-----EWDD------IPQDDS 250
Cdd:pfam05327 157 SVLLPILSRKFPHKRDSKKAQVTYIRNLLRL--TEYCPELGSDILALIIERLIKIDVEIqveleDLDDdedeelLEQLDE 234

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30686199   251 SRGMFDMELEDAAEGTMNDGDEL-PVGPLKQDTSDGSIVSKLLDKLMVVAFEHLES--------CQNDGRLDQVFESLFK 321
Cdd:pfam05327 235 DDDDDDDDDSDDDSDSSDDGLDDdEEDDEVQRIKKIKELVEKLDAILDLLFEHLDSkfssgspeELNEGEGVEVFNTLLS 314

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30686199   322 SFENFILNTYKSKFTQFLIFYACSLDPEnCGVKFASKLVEIFLSSNKHVATRMSAVAYLASFLARGKFLPVSFVASMLKR 401
Cdd:pfam05327 315 LFKSTILPTYRSRHTQFLLFHFSQLSPE-LMDSFLGTLIDIAFDPNEPAITRQAAAAYLASFVARAKFVSRSQVRFVLSY 393

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30686199   402 LIDECVGYCRTCNDDTRP---EAHQIFFSGCQAIMYVLCFRMRSILD-------VPRFRSQLT--PLESILMHKLNPLMV 469
Cdd:pfam05327 394 LCDWLNRYVDEREEECRGpdlKRHGVFYAVCQALLYIFCFRWRDLTDadddeegGDLEWLPGLdeFLQRAIYSKLNPLKV 473

                         490       500       510       520       530       540       550
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 30686199   470 CLPSVVAEFLRQAKEGGLFIVSdsfifdDLLESELSRAFGG------FERLDTFFPFDPCLLKSSNSFISPNFIYWSMV 542
Cdd:pfam05327 474 CSPNVVTEFARIAHHLQFAYCF------SIIESNKREETAGtatgqeFEQLDAYFPFDPYLLPRSKRWIEPDYVEWSEV 546
 
Name Accession Description Interval E-value
RRN3 pfam05327
RNA polymerase I specific transcription initiation factor RRN3; This family consists of ...
 23-542 6.51e-166

RNA polymerase I specific transcription initiation factor RRN3; This family consists of several eukaryotic proteins which are homologous to the yeast RRN3 protein. RRN3 is one of the RRN genes specifically required for the transcription of rDNA by RNA polymerase I (Pol I) in Saccharomyces cerevisiae.


Pssm-ID: 461623  Cd Length: 548  Bit Score: 484.42  E-value: 6.51e-166
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30686199    23 VDLSDTQLVQTVRKALTSVKTGDSDLYSEMVGVMARDIKEfKDPDVVAQLETVLKALSGAVACIDVlHHQKLLSALFRMK 102
Cdd:pfam05327   1 EDFSDKMYREFVRRALEEHEKGDSEQYDELKEQFSPDPES-PDAPSTALLKQLLKALSSNVSRLDR-SCSGLVEAILSLS 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30686199   103 lWDHRPD-VMDALVNLVISLAVTSGKYLDSCLNMLVSNFVPPPWVVNNLSHSRILNKKIdVLSRVHAALLKISILVPLTP 181
Cdd:pfam05327  79 -WLGRDEsFVKAYIRFLGVLASAHPKYLSLVLSMLVSNFTPQPESSGRLPGYPPVTRRE-VYERVHEALKYILRLIPTAP 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30686199   182 SRLVPMLFQQMPKMHKKDHSIVIYVESLLKLenSSIGQVGGSMILGMVMERLRDLDLEI-----EWDD------IPQDDS 250
Cdd:pfam05327 157 SVLLPILSRKFPHKRDSKKAQVTYIRNLLRL--TEYCPELGSDILALIIERLIKIDVEIqveleDLDDdedeelLEQLDE 234

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30686199   251 SRGMFDMELEDAAEGTMNDGDEL-PVGPLKQDTSDGSIVSKLLDKLMVVAFEHLES--------CQNDGRLDQVFESLFK 321
Cdd:pfam05327 235 DDDDDDDDDSDDDSDSSDDGLDDdEEDDEVQRIKKIKELVEKLDAILDLLFEHLDSkfssgspeELNEGEGVEVFNTLLS 314

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30686199   322 SFENFILNTYKSKFTQFLIFYACSLDPEnCGVKFASKLVEIFLSSNKHVATRMSAVAYLASFLARGKFLPVSFVASMLKR 401
Cdd:pfam05327 315 LFKSTILPTYRSRHTQFLLFHFSQLSPE-LMDSFLGTLIDIAFDPNEPAITRQAAAAYLASFVARAKFVSRSQVRFVLSY 393

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30686199   402 LIDECVGYCRTCNDDTRP---EAHQIFFSGCQAIMYVLCFRMRSILD-------VPRFRSQLT--PLESILMHKLNPLMV 469
Cdd:pfam05327 394 LCDWLNRYVDEREEECRGpdlKRHGVFYAVCQALLYIFCFRWRDLTDadddeegGDLEWLPGLdeFLQRAIYSKLNPLKV 473

                         490       500       510       520       530       540       550
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 30686199   470 CLPSVVAEFLRQAKEGGLFIVSdsfifdDLLESELSRAFGG------FERLDTFFPFDPCLLKSSNSFISPNFIYWSMV 542
Cdd:pfam05327 474 CSPNVVTEFARIAHHLQFAYCF------SIIESNKREETAGtatgqeFEQLDAYFPFDPYLLPRSKRWIEPDYVEWSEV 546
 
Name Accession Description Interval E-value
RRN3 pfam05327
RNA polymerase I specific transcription initiation factor RRN3; This family consists of ...
 23-542 6.51e-166

RNA polymerase I specific transcription initiation factor RRN3; This family consists of several eukaryotic proteins which are homologous to the yeast RRN3 protein. RRN3 is one of the RRN genes specifically required for the transcription of rDNA by RNA polymerase I (Pol I) in Saccharomyces cerevisiae.


Pssm-ID: 461623  Cd Length: 548  Bit Score: 484.42  E-value: 6.51e-166
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30686199    23 VDLSDTQLVQTVRKALTSVKTGDSDLYSEMVGVMARDIKEfKDPDVVAQLETVLKALSGAVACIDVlHHQKLLSALFRMK 102
Cdd:pfam05327   1 EDFSDKMYREFVRRALEEHEKGDSEQYDELKEQFSPDPES-PDAPSTALLKQLLKALSSNVSRLDR-SCSGLVEAILSLS 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30686199   103 lWDHRPD-VMDALVNLVISLAVTSGKYLDSCLNMLVSNFVPPPWVVNNLSHSRILNKKIdVLSRVHAALLKISILVPLTP 181
Cdd:pfam05327  79 -WLGRDEsFVKAYIRFLGVLASAHPKYLSLVLSMLVSNFTPQPESSGRLPGYPPVTRRE-VYERVHEALKYILRLIPTAP 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30686199   182 SRLVPMLFQQMPKMHKKDHSIVIYVESLLKLenSSIGQVGGSMILGMVMERLRDLDLEI-----EWDD------IPQDDS 250
Cdd:pfam05327 157 SVLLPILSRKFPHKRDSKKAQVTYIRNLLRL--TEYCPELGSDILALIIERLIKIDVEIqveleDLDDdedeelLEQLDE 234

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30686199   251 SRGMFDMELEDAAEGTMNDGDEL-PVGPLKQDTSDGSIVSKLLDKLMVVAFEHLES--------CQNDGRLDQVFESLFK 321
Cdd:pfam05327 235 DDDDDDDDDSDDDSDSSDDGLDDdEEDDEVQRIKKIKELVEKLDAILDLLFEHLDSkfssgspeELNEGEGVEVFNTLLS 314

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30686199   322 SFENFILNTYKSKFTQFLIFYACSLDPEnCGVKFASKLVEIFLSSNKHVATRMSAVAYLASFLARGKFLPVSFVASMLKR 401
Cdd:pfam05327 315 LFKSTILPTYRSRHTQFLLFHFSQLSPE-LMDSFLGTLIDIAFDPNEPAITRQAAAAYLASFVARAKFVSRSQVRFVLSY 393

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30686199   402 LIDECVGYCRTCNDDTRP---EAHQIFFSGCQAIMYVLCFRMRSILD-------VPRFRSQLT--PLESILMHKLNPLMV 469
Cdd:pfam05327 394 LCDWLNRYVDEREEECRGpdlKRHGVFYAVCQALLYIFCFRWRDLTDadddeegGDLEWLPGLdeFLQRAIYSKLNPLKV 473

                         490       500       510       520       530       540       550
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 30686199   470 CLPSVVAEFLRQAKEGGLFIVSdsfifdDLLESELSRAFGG------FERLDTFFPFDPCLLKSSNSFISPNFIYWSMV 542
Cdd:pfam05327 474 CSPNVVTEFARIAHHLQFAYCF------SIIESNKREETAGtatgqeFEQLDAYFPFDPYLLPRSKRWIEPDYVEWSEV 546
 
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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