Conserved Protein Domain Family
RNAP_I_III_AC19

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cd07029: RNAP_I_III_AC19 
AC19 subunit of Eukaryotic RNA polymerase (RNAP) I and RNAP III
The eukaryotic AC19 subunit of RNA polymerase (RNAP) I and RNAP III is involved in the assembly of RNAP subunits. RNAP is a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living cells. At least three distinct RNAP complexes are found in eukaryotic nuclei: RNAP I, RNAP II, and RNAP III. RNAP I is responsible for the synthesis of ribosomal RNA precursor, while RNAP III functions in the synthesis of 5S and tRNA. The AC19 subunit is the equivalent of the RPB11 subunit of RNAP II. The RPB11 subunit heterodimerizes with the RPB3 subunit, and together with RPB10 and RPB12, anchors the two largest subunits, RPB1 and RPB2, and stabilizes their association. The homology of AC19 to RPB11 suggests a similar function. The AC19 subunit is likely to associate with the RPB3 counterpart, AC40, to form a heterodimer, which stabilizes the association of the two largest subunits of RNAP I and RNAP III.
Statistics
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PSSM-Id: 132907
View PSSM: cd07029
Aligned: 36 rows
Threshold Bit Score: 86.1318
Threshold Setting Gi: 162605670
Created: 16-Dec-2008
Updated: 17-Jan-2013
Structure
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Aligned Rows:
 
Feature 1:AC19 - AC40 heterodimer interface [polypeptide binding site]
Evidence:
  • Comment:based on the structures of the multi-subunit complexes of yeast RNAP II and archaeal RNAP
  • Comment:The AC19/AC40 heterodimer of eukaryotic RNAP I and III is equivalent to the RPB11/RPB3 and L/D heterodimers of yeast RNAP II and archaeal RNAP, respectively.
  • Comment:The yeast RNAP II RPB11/RPB3 heterodimer (L/D heterodimer in archaea), together with RPB10 (N) and RPB12 (P), anchors the two largest subunits, RPB1 (A'/A") and RPB2 (B), stabilizing their association.

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                      #    ### #    #             #                                     
gi 82180681   14 VQAQGNEESCVTFVLHEEDHTLGNSLRYMVMKNPEVEFCGYSITHPSETKINFRIQTRn------------gIPAVEPFR 81
gi 88687070   37 LQRHADSESAATVTFSHEDHTLGNPLRHVIMEDPSVTSAGYAIPHPLEAKMQLHVQSS--------------EYAVETVA 102
gi 209877969  23 EMLKNLESANLTFQINGEDHTLGNIMRHLAMLNPSTTFAGYAIPHPSISSMNLRIETVsnvdygkedqifklEDKFDDTK 102
gi 162605670   5 KLKIKFVNNVTKITFYNESNTLGNLLQYFMKFNGLIDVCGYYIPHPSENLLKFFYSTKy------------qVNNYLLNL 72
gi 160331703   5 IINIKKTQKVILISFYNEDHTLGNILRTVIEGNPNIDYVGYNIPHPSENIMNLKISSSk-------------FDSLEPFI 71
gi 15227556    2 EHGSFTNVSHASFTLSEEDHTLANAVRFVLNQDPRVTVAAYTIPHPSLEQVNIRVQTTg-------------DPAREVFK 68
gi 159490407   1 MEGEATDFFAATFSIEEEDHTLANSLRFFLNKNPHVAFCGYSMPHPSEELVNLRVQTT--------------GAARGAVK 66
gi 193810914   6 YYEHMRTLTHATFCFENEDHTLGNCLRCILLQKEGVEFAGYTVPHPTQAEINLRIQTTg-------------EPAVNILK 72
gi 211962951  27 HEQEACKASQLTFTLTGEDHTLGNTIRSILVRKPGVEFAGYSVPHPTQPEMNIRLQTTg-------------ESAMQLLR 93
gi 84996827    1 MDKVDHKSPNITFCIENEDHTLGNTLRALLVERDDVVFAGYSVPHPMEPEMNIRIQTTg-------------QPAVEVFL 67
                         90
                 ....*....|....*..
Feature 1          ##    ### ###  
gi 82180681   82 RGLNELVDVCQHVLNTF 98
gi 88687070  103 KGLERLAAICDETLKKF 119
gi 209877969 103 KTKQDIIIHSNNSINNL 119
gi 162605670  73 WLFNTIYIFFFIILSIF 89
gi 160331703  72 LGLKNSGELFVLFGNFF 88
gi 15227556   69 DACQELMQMNRHVRSVF 85
gi 159490407  67 AACEDVSQVCGHMRSTL 83
gi 193810914  73 DALDDLSNICDIMLNKF 89
gi 211962951  94 ESFDDLASICDHLDTLY 110
gi 84996827   68 DCLDDMVKICDILREKF 84

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