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Conserved domains on  [gi|1972262367|ref|NP_001379058|]
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transcription initiation factor IA [Caenorhabditis elegans]

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 ...
 50-579 3.62e-140

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: 420.09  E-value: 3.62e-140
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367  50 GDVTAAVLYRKICNALETFEQ-----------------WESEAPKIQLLDQFLNIADAM----EARTETLVKRLLSLRWD 108
Cdd:pfam05327   1 EDFSDKMYREFVRRALEEHEKgdseqydelkeqfspdpESPDAPSTALLKQLLKALSSNvsrlDRSCSGLVEAILSLSWL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367 109 KIPGSVIERFRNFLCELAIRHLCFTEEVYSAVVERLVPQISVTEetgvVTLILTEKVQNEHFEMAHHIISSVLRCFPLSA 188
Cdd:pfam05327  81 GRDESFVKAYIRFLGVLASAHPKYLSLVLSMLVSNFTPQPESSG----RLPGYPPVTRREVYERVHEALKYILRLIPTAP 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367 189 RALLKCVKRVMPHFTRPSVTVAGYMRNLILMQKYIPaSISKDVWEAVFERLAKDDTHNwkceQNE-------EMSKSPRL 261
Cdd:pfam05327 157 SVLLPILSRKFPHKRDSKKAQVTYIRNLLRLTEYCP-ELGSDILALIIERLIKIDVEI----QVEledldddEDEELLEQ 231

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367 262 FALNDDIL------IEEVVEGNTNDSEDVTPEQLEQRKGEQMIQYLDSVCTDVITFIRSSVDSEIDEEngnertkLNDKW 335
Cdd:pfam05327 232 LDEDDDDDddddsdDDSDSSDDGLDDDEEDDEVQRIKKIKELVEKLDAILDLLFEHLDSKFSSGSPEE-------LNEGE 304

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367 336 LRNfkitgdkvlpkekLFDTFLECLESTMLNATHVQYVSFIWLYFCSLSQEYEKKMLEHLWQVTIRMPRaPADARKSqgA 415
Cdd:pfam05327 305 GVE-------------VFNTLLSLFKSTILPTYRSRHTQFLLFHFSQLSPELMDSFLGTLIDIAFDPNE-PAITRQA--A 368

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367 416 ASYLAAFLARAKYVKKSTAFTWLEEVYIWLRHYVDQFGSGSSqiLPGLQRHGTFYSVSQAFFLVFAFRYKEFVKNKDMLE 495
Cdd:pfam05327 369 AAYLASFVARAKFVSRSQVRFVLSYLCDWLNRYVDEREEECR--GPDLKRHGVFYAVCQALLYIFCFRWRDLTDADDDEE 446

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367 496 TI-RRW------GVGRVVHSPLEPLKYVSKPVARCFSAITRSLQLVYCNHIipIEEVQR-------------PFDDMFPF 555
Cdd:pfam05327 447 GGdLEWlpgldeFLQRAIYSKLNPLKVCSPNVVTEFARIAHHLQFAYCFSI--IESNKReetagtatgqefeQLDAYFPF 524

                         570       580
                  ....*....|....*....|....
gi 1972262367 556 DCYHLKESSKFMTPLMRKFSPLAE 579
Cdd:pfam05327 525 DPYLLPRSKRWIEPDYVEWSEVAG 548
 
Name Accession Description Interval E-value
RRN3 pfam05327
RNA polymerase I specific transcription initiation factor RRN3; This family consists of ...
 50-579 3.62e-140

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: 420.09  E-value: 3.62e-140
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367  50 GDVTAAVLYRKICNALETFEQ-----------------WESEAPKIQLLDQFLNIADAM----EARTETLVKRLLSLRWD 108
Cdd:pfam05327   1 EDFSDKMYREFVRRALEEHEKgdseqydelkeqfspdpESPDAPSTALLKQLLKALSSNvsrlDRSCSGLVEAILSLSWL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367 109 KIPGSVIERFRNFLCELAIRHLCFTEEVYSAVVERLVPQISVTEetgvVTLILTEKVQNEHFEMAHHIISSVLRCFPLSA 188
Cdd:pfam05327  81 GRDESFVKAYIRFLGVLASAHPKYLSLVLSMLVSNFTPQPESSG----RLPGYPPVTRREVYERVHEALKYILRLIPTAP 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367 189 RALLKCVKRVMPHFTRPSVTVAGYMRNLILMQKYIPaSISKDVWEAVFERLAKDDTHNwkceQNE-------EMSKSPRL 261
Cdd:pfam05327 157 SVLLPILSRKFPHKRDSKKAQVTYIRNLLRLTEYCP-ELGSDILALIIERLIKIDVEI----QVEledldddEDEELLEQ 231

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367 262 FALNDDIL------IEEVVEGNTNDSEDVTPEQLEQRKGEQMIQYLDSVCTDVITFIRSSVDSEIDEEngnertkLNDKW 335
Cdd:pfam05327 232 LDEDDDDDddddsdDDSDSSDDGLDDDEEDDEVQRIKKIKELVEKLDAILDLLFEHLDSKFSSGSPEE-------LNEGE 304

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367 336 LRNfkitgdkvlpkekLFDTFLECLESTMLNATHVQYVSFIWLYFCSLSQEYEKKMLEHLWQVTIRMPRaPADARKSqgA 415
Cdd:pfam05327 305 GVE-------------VFNTLLSLFKSTILPTYRSRHTQFLLFHFSQLSPELMDSFLGTLIDIAFDPNE-PAITRQA--A 368

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367 416 ASYLAAFLARAKYVKKSTAFTWLEEVYIWLRHYVDQFGSGSSqiLPGLQRHGTFYSVSQAFFLVFAFRYKEFVKNKDMLE 495
Cdd:pfam05327 369 AAYLASFVARAKFVSRSQVRFVLSYLCDWLNRYVDEREEECR--GPDLKRHGVFYAVCQALLYIFCFRWRDLTDADDDEE 446

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367 496 TI-RRW------GVGRVVHSPLEPLKYVSKPVARCFSAITRSLQLVYCNHIipIEEVQR-------------PFDDMFPF 555
Cdd:pfam05327 447 GGdLEWlpgldeFLQRAIYSKLNPLKVCSPNVVTEFARIAHHLQFAYCFSI--IESNKReetagtatgqefeQLDAYFPF 524

                         570       580
                  ....*....|....*....|....
gi 1972262367 556 DCYHLKESSKFMTPLMRKFSPLAE 579
Cdd:pfam05327 525 DPYLLPRSKRWIEPDYVEWSEVAG 548
 
Name Accession Description Interval E-value
RRN3 pfam05327
RNA polymerase I specific transcription initiation factor RRN3; This family consists of ...
 50-579 3.62e-140

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: 420.09  E-value: 3.62e-140
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367  50 GDVTAAVLYRKICNALETFEQ-----------------WESEAPKIQLLDQFLNIADAM----EARTETLVKRLLSLRWD 108
Cdd:pfam05327   1 EDFSDKMYREFVRRALEEHEKgdseqydelkeqfspdpESPDAPSTALLKQLLKALSSNvsrlDRSCSGLVEAILSLSWL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367 109 KIPGSVIERFRNFLCELAIRHLCFTEEVYSAVVERLVPQISVTEetgvVTLILTEKVQNEHFEMAHHIISSVLRCFPLSA 188
Cdd:pfam05327  81 GRDESFVKAYIRFLGVLASAHPKYLSLVLSMLVSNFTPQPESSG----RLPGYPPVTRREVYERVHEALKYILRLIPTAP 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367 189 RALLKCVKRVMPHFTRPSVTVAGYMRNLILMQKYIPaSISKDVWEAVFERLAKDDTHNwkceQNE-------EMSKSPRL 261
Cdd:pfam05327 157 SVLLPILSRKFPHKRDSKKAQVTYIRNLLRLTEYCP-ELGSDILALIIERLIKIDVEI----QVEledldddEDEELLEQ 231

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367 262 FALNDDIL------IEEVVEGNTNDSEDVTPEQLEQRKGEQMIQYLDSVCTDVITFIRSSVDSEIDEEngnertkLNDKW 335
Cdd:pfam05327 232 LDEDDDDDddddsdDDSDSSDDGLDDDEEDDEVQRIKKIKELVEKLDAILDLLFEHLDSKFSSGSPEE-------LNEGE 304

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367 336 LRNfkitgdkvlpkekLFDTFLECLESTMLNATHVQYVSFIWLYFCSLSQEYEKKMLEHLWQVTIRMPRaPADARKSqgA 415
Cdd:pfam05327 305 GVE-------------VFNTLLSLFKSTILPTYRSRHTQFLLFHFSQLSPELMDSFLGTLIDIAFDPNE-PAITRQA--A 368

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367 416 ASYLAAFLARAKYVKKSTAFTWLEEVYIWLRHYVDQFGSGSSqiLPGLQRHGTFYSVSQAFFLVFAFRYKEFVKNKDMLE 495
Cdd:pfam05327 369 AAYLASFVARAKFVSRSQVRFVLSYLCDWLNRYVDEREEECR--GPDLKRHGVFYAVCQALLYIFCFRWRDLTDADDDEE 446

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1972262367 496 TI-RRW------GVGRVVHSPLEPLKYVSKPVARCFSAITRSLQLVYCNHIipIEEVQR-------------PFDDMFPF 555
Cdd:pfam05327 447 GGdLEWlpgldeFLQRAIYSKLNPLKVCSPNVVTEFARIAHHLQFAYCFSI--IESNKReetagtatgqefeQLDAYFPF 524

                         570       580
                  ....*....|....*....|....
gi 1972262367 556 DCYHLKESSKFMTPLMRKFSPLAE 579
Cdd:pfam05327 525 DPYLLPRSKRWIEPDYVEWSEVAG 548
 
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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