Conserved Protein Domain Family

pfam12136: RNA_pol_Rpo13 
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RNA polymerase Rpo13 subunit HTH domain
This domain is found in archaea, and is about 40 amino acids in length. It has a single completely conserved residue E that may be functionally important. It is found in the archaeal DNA dependent RNA polymerase. The domain is a 'helix-turn-helix' (HTH) domain in the Rpo13 subunit of the RNA polymerase. This domain is involved in downstream DNA binding, and the entire subunit has also been implicated in contacting transcription factor II B.
PSSM-Id: 152571
Aligned: 7 rows
Threshold Bit Score: 36.6505
Threshold Setting Gi: 145701087
Created: 11-May-2020
Updated: 7-Aug-2020
Aligned Rows:
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Sequence Alignment
Format: Row Display: Color Bits: Type Selection:
3HKZ_Y          20 NEEKEVEETSEDEFPK----LSIQDIELLMRNTEIWDNLLNGKI 59  Saccharolobus solfataricus P2
WP_011839293    11 EEEYMEEEEEETEEKTpprlVRINYLEKFIKTTILWEKFVRGET 54  Staphylothermus marinus
jgi:Msed_0052   19 DEAGKVEEDEEG-VPA----MSLQDIELLTKNTEVWHRLMSGKI 57  Metallosphaera sedula DSM 5348
WP_012123074    17 EEAPLVEEEEGTKAPTte-rFPLEAYEISVELADLWDGAIEGKV 59  Ignicoccus hospitalis
Q975M1          33 HEEKVEAESEEEELPA----LSVADIELLMKNTEIWDNLLNGKI 72  Sulfurisphaera tokodaii
imbp:Hbut_1288  16 VTITTAEEEAEEEVVTvdidVNAALLEAMVARTEIIEKLAKGEY 59  Hyperthermus butylicus DSM 5456
Q4JAJ6          22 EEISREEDDEGGEFST----VTISDIEMLLKDTEIWDKLLRNEL 61  Sulfolobus acidocaldarius
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