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Conserved domains on  [gi|1099512800|ref|NP_001333808|]
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DNA-directed RNA polymerases I, II, and III subunit RPABC3 isoform 6 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RNA_pol_RpbG super family cl02716
DNA-directed RNA polymerase, subunit G; RNA_pol_RpbG is a family of archaeal and fungal ...
 1-70 6.16e-37

DNA-directed RNA polymerase, subunit G; RNA_pol_RpbG is a family of archaeal and fungal subunit G of DNA-directed RNA polymerase.


The actual alignment was detected with superfamily member smart00658:

Pssm-ID: 470659  Cd Length: 143  Bit Score: 123.28  E-value: 6.16e-37
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1099512800    1 MDLILDVNIQIYPVDLGDKFRLVIASTLYEDGTLDDGEYNPTDDRPSRADQFEYVMYGKVYRIEGDETST 70
Cdd:smart00658  36 MELILDINSEIYPLAVGDKFRLVIASTLNEDGTPDSGENNPIALIKSLADKYEYVMYGKVYRIEEDKTET 105
 
Name Accession Description Interval E-value
RPOL8c smart00658
RNA polymerase subunit 8; subunit of RNA polymerase I, II and III
 1-70 6.16e-37

RNA polymerase subunit 8; subunit of RNA polymerase I, II and III


Pssm-ID: 197821  Cd Length: 143  Bit Score: 123.28  E-value: 6.16e-37
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1099512800    1 MDLILDVNIQIYPVDLGDKFRLVIASTLYEDGTLDDGEYNPTDDRPSRADQFEYVMYGKVYRIEGDETST 70
Cdd:smart00658  36 MELILDINSEIYPLAVGDKFRLVIASTLNEDGTPDSGENNPIALIKSLADKYEYVMYGKVYRIEEDKTET 105
RNA_pol_Rpb8 pfam03870
RNA polymerase Rpb8; Rpb8 is a subunit common to the three yeast RNA polymerases, pol I, II ...
 1-73 2.51e-35

RNA polymerase Rpb8; Rpb8 is a subunit common to the three yeast RNA polymerases, pol I, II and III. Rpb8 interacts with the largest subunit Rpb1, and with Rpb3 and Rpb11, two smaller subunits.


Pssm-ID: 461079  Cd Length: 136  Bit Score: 118.75  E-value: 2.51e-35
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1099512800   1 MDLILDVNIQIYPVDLGDKFRLVIASTLYEDGTLDDGEYNPT---DDRPSRADQFEYVMYGKVYRIEGDETSTEAA 73
Cdd:pfam03870  28 MDLTLDINTELYPVKVGDKFTLVLASTLSLDGTPDDGEYDQSwrpPGEPSLADDYDYVMYGKVYKFEEEESGDKVA 103
PTZ00167 PTZ00167
RNA polymerase subunit 8c; Provisional
 2-74 1.05e-07

RNA polymerase subunit 8c; Provisional


Pssm-ID: 185493  Cd Length: 144  Bit Score: 47.85  E-value: 1.05e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1099512800   2 DLILDVNIQIYPVDlgDKFRLVIASTLYEDGTLDDGEYNPTDDrPSRADQFEYVMYGKVYRIEgdETSTEAAT 74
Cdd:PTZ00167   38 ELILDINSDLFPVR--EKQSLYIGLTNQLSSGPDDNVWESSEP-QSLMDQYEYVMYGKIFKFE--EKSSERRT 105
 
Name Accession Description Interval E-value
RPOL8c smart00658
RNA polymerase subunit 8; subunit of RNA polymerase I, II and III
 1-70 6.16e-37

RNA polymerase subunit 8; subunit of RNA polymerase I, II and III


Pssm-ID: 197821  Cd Length: 143  Bit Score: 123.28  E-value: 6.16e-37
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1099512800    1 MDLILDVNIQIYPVDLGDKFRLVIASTLYEDGTLDDGEYNPTDDRPSRADQFEYVMYGKVYRIEGDETST 70
Cdd:smart00658  36 MELILDINSEIYPLAVGDKFRLVIASTLNEDGTPDSGENNPIALIKSLADKYEYVMYGKVYRIEEDKTET 105
RNA_pol_Rpb8 pfam03870
RNA polymerase Rpb8; Rpb8 is a subunit common to the three yeast RNA polymerases, pol I, II ...
 1-73 2.51e-35

RNA polymerase Rpb8; Rpb8 is a subunit common to the three yeast RNA polymerases, pol I, II and III. Rpb8 interacts with the largest subunit Rpb1, and with Rpb3 and Rpb11, two smaller subunits.


Pssm-ID: 461079  Cd Length: 136  Bit Score: 118.75  E-value: 2.51e-35
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1099512800   1 MDLILDVNIQIYPVDLGDKFRLVIASTLYEDGTLDDGEYNPT---DDRPSRADQFEYVMYGKVYRIEGDETSTEAA 73
Cdd:pfam03870  28 MDLTLDINTELYPVKVGDKFTLVLASTLSLDGTPDDGEYDQSwrpPGEPSLADDYDYVMYGKVYKFEEEESGDKVA 103
PTZ00167 PTZ00167
RNA polymerase subunit 8c; Provisional
 2-74 1.05e-07

RNA polymerase subunit 8c; Provisional


Pssm-ID: 185493  Cd Length: 144  Bit Score: 47.85  E-value: 1.05e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1099512800   2 DLILDVNIQIYPVDlgDKFRLVIASTLYEDGTLDDGEYNPTDDrPSRADQFEYVMYGKVYRIEgdETSTEAAT 74
Cdd:PTZ00167   38 ELILDINSDLFPVR--EKQSLYIGLTNQLSSGPDDNVWESSEP-QSLMDQYEYVMYGKIFKFE--EKSSERRT 105
 
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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