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Conserved domains on  [gi|1394533166|ref|NP_001350754|]
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DNA-directed RNA polymerases I, II, and III subunit RPABC2 isoform 5 [Homo sapiens]

Protein Classification

DNA-directed RNA polymerase subunit omega( domain architecture ID 52380)

DNA-directed RNA polymerase subunit omega promotes RNA polymerase assembly by latching the N- and C-terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits

EC:  2.7.7.6
Gene Ontology:  GO:0000428|GO:0003677|GO:0003899|GO:0006351
PubMed:  32920946|33238579|16908155

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RNA_pol_Rpb6 super family cl14651
RNA polymerase Rpb6; Rpb6 is an essential subunit in the eukaryotic polymerases Pol I, II and ...
 26-97 3.56e-25

RNA polymerase Rpb6; Rpb6 is an essential subunit in the eukaryotic polymerases Pol I, II and III. This family also contains the bacterial equivalent to Rpb6, the omega subunit. Rpb6 and omega are structurally conserved and both function in polymerase assembly.


The actual alignment was detected with superfamily member PLN00152:

Pssm-ID: 449344  Cd Length: 130  Bit Score: 91.85  E-value: 3.56e-25
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1394533166  26 ENAEEEGQENVEILPSGERPQANQkRITTPYMTKYERARVLGTRALQIAMCAPVMVELEGETDPLLIAMKEL 97
Cdd:PLN00152   30 NNDEVKGSIGENEDKEEQEPVQRP-RKTTPYMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKEL 100
 
Name Accession Description Interval E-value
PLN00152 PLN00152
DNA-directed RNA polymerase; Provisional
 26-97 3.56e-25

DNA-directed RNA polymerase; Provisional


Pssm-ID: 177755  Cd Length: 130  Bit Score: 91.85  E-value: 3.56e-25
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1394533166  26 ENAEEEGQENVEILPSGERPQANQkRITTPYMTKYERARVLGTRALQIAMCAPVMVELEGETDPLLIAMKEL 97
Cdd:PLN00152   30 NNDEVKGSIGENEDKEEQEPVQRP-RKTTPYMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKEL 100
RNA_pol_Rpb6 pfam01192
RNA polymerase Rpb6; Rpb6 is an essential subunit in the eukaryotic polymerases Pol I, II and ...
 51-97 1.32e-08

RNA polymerase Rpb6; Rpb6 is an essential subunit in the eukaryotic polymerases Pol I, II and III. This family also contains the bacterial equivalent to Rpb6, the omega subunit. Rpb6 and omega are structurally conserved and both function in polymerase assembly.


Pssm-ID: 426112  Cd Length: 52  Bit Score: 47.13  E-value: 1.32e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1394533166  51 RITTPYMTKYERARVLGTRALQIAMCAPVMVELEGEtDPLLIAMKEL 97
Cdd:pfam01192   1 DLLKKVDNRYELVVIAAKRARQLSMGAPPIKLDSFD-KPVVIALREI 46
 
Name Accession Description Interval E-value
PLN00152 PLN00152
DNA-directed RNA polymerase; Provisional
 26-97 3.56e-25

DNA-directed RNA polymerase; Provisional


Pssm-ID: 177755  Cd Length: 130  Bit Score: 91.85  E-value: 3.56e-25
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1394533166  26 ENAEEEGQENVEILPSGERPQANQkRITTPYMTKYERARVLGTRALQIAMCAPVMVELEGETDPLLIAMKEL 97
Cdd:PLN00152   30 NNDEVKGSIGENEDKEEQEPVQRP-RKTTPYMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKEL 100
rpoK PRK01099
DNA-directed RNA polymerase subunit K; Provisional
 52-98 4.72e-18

DNA-directed RNA polymerase subunit K; Provisional


Pssm-ID: 179220  Cd Length: 62  Bit Score: 71.50  E-value: 4.72e-18
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1394533166  52 ITTPYMTKYERARVLGTRALQIAMCAPVMVELEGETDPLLIAMKELN 98
Cdd:PRK01099    2 MGPMKLTRFERARIIGARALQISMGAPVLIDIPESTDPLDIAEEEFK 48
RNA_pol_Rpb6 pfam01192
RNA polymerase Rpb6; Rpb6 is an essential subunit in the eukaryotic polymerases Pol I, II and ...
 51-97 1.32e-08

RNA polymerase Rpb6; Rpb6 is an essential subunit in the eukaryotic polymerases Pol I, II and III. This family also contains the bacterial equivalent to Rpb6, the omega subunit. Rpb6 and omega are structurally conserved and both function in polymerase assembly.


Pssm-ID: 426112  Cd Length: 52  Bit Score: 47.13  E-value: 1.32e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1394533166  51 RITTPYMTKYERARVLGTRALQIAMCAPVMVELEGEtDPLLIAMKEL 97
Cdd:pfam01192   1 DLLKKVDNRYELVVIAAKRARQLSMGAPPIKLDSFD-KPVVIALREI 46
 
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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