#=GF ID RNA_pol_Rpo13
#=GF AC PF12136.14
#=GF DE RNA polymerase Rpo13 subunit HTH domain
#=GF AU Mistry J;0000-0003-2479-5322
#=GF AU Gavin OL;
#=GF SE pdb_2waq
#=GF GA 25.00 25.00;
#=GF TC 25.40 27.60;
#=GF NC 23.80 20.30;
#=GF BM hmmbuild HMM.ann SEED.ann
#=GF SM hmmsearch --cpu 8 -Z 90746521 -E 1000 HMM pfamseq
#=GF TP Domain
#=GF RN [1]
#=GF RM 19419240
#=GF RT Evolution of Complex RNA Polymerases: The Complete Archaeal RNA
#=GF RT Polymerase Structure.
#=GF RA Korkhin Y, Unligil UM, Littlefield O, Nelson PJ, Stuart DI,
#=GF RA Sigler PB, Bell SD, Abrescia NG;
#=GF RL PLoS Biol. 2009;7:e102.
#=GF DR INTERPRO; IPR021985;
#=GF DR SO; 0000417; polypeptide_domain;
#=GF CC This domain is found in archaea, and is about 40 amino acids in
#=GF CC length. It has a single completely conserved residue E that may
#=GF CC be functionally important. It is found in the archaeal DNA
#=GF CC dependent RNA polymerase. The domain is a 'helix-turn-helix'
#=GF CC (HTH) domain in the Rpo13 subunit of the RNA polymerase. This
#=GF CC domain is involved in downstream DNA binding, and the entire
#=GF CC subunit has also been implicated in contacting transcription
#=GF CC factor II B.
#=GF SQ 20
#=GS A0A8J8PUR2_9CREN/18-56 AC A0A8J8PUR2.1
#=GS RPO13_SULAC/22-61 AC Q4JAJ6.1
#=GS A0A348B172_9CREN/2-49 AC A0A348B172.1
#=GS A4YCS7_METS5/19-57 AC A4YCS7.1
#=GS A0A2U9IMG8_9CREN/17-56 AC A0A2U9IMG8.1
#=GS A0A6A9QM63_SULME/12-55 AC A0A6A9QM63.1
#=GS H2C6X8_9CREN/16-54 AC H2C6X8.1
#=GS A8AB08_IGNH4/17-59 AC A8AB08.1
#=GS A0A031LJX8_9CREN/4-57 AC A0A031LJX8.1
#=GS A3DN92_STAMF/11-54 AC A3DN92.1
#=GS W7L7R3_9CREN/13-54 AC W7L7R3.1
#=GS Q975M1_SULTO/33-72 AC Q975M1.1
#=GS A0A0V8RWB8_PYROC/7-50 AC A0A0V8RWB8.1
#=GS A0A8D5TZY2_9CREN/10-49 AC A0A8D5TZY2.1
#=GS A2BMA7_HYPBU/16-59 AC A2BMA7.1
#=GS RPO13_SACS2/20-59 AC Q980B8.1
#=GS A0A2U9IEQ3_9CREN/3-54 AC A0A2U9IEQ3.1
#=GS A0A9E4ZQP1_9CREN/25-64 AC A0A9E4ZQP1.1
#=GS A0A650CM82_9CREN/31-70 AC A0A650CM82.1
#=GS E0SPY1_IGNAA/23-60 AC E0SPY1.1
A0A8J8PUR2_9CREN/18-56 ......................eg--EEKVEE....ESEE-LPK---.LSIKDIELLMKNTQIWDDLLNGKI.
RPO13_SULAC/22-61 ........................EEISREED....DEGGEFST---.VTISDIEMLLKDTEIWDKLLRNEL.
A0A348B172_9CREN/2-49 .............sedsereaeev-EAEDIEE....SDEG--GS---.VSIQEIETFVKRTQLWEQLLEGKI.
A4YCS7_METS5/19-57 ........................DEAGKVEE....DEEG-VPA---.MSLQDIELLTKNTEVWHRLMSGKI.
A0A2U9IMG8_9CREN/17-56 ........................ETEDKTEE....EEEGELPP---.LSLQDIELLMKNTEVWDDLISGKI.
A0A6A9QM63_SULME/12-55 ...................mhedd-ETEHEIE....REDDDLPF---.LSIQDIEILMRNTEIWDKLLQGKI.
H2C6X8_9CREN/16-54 .......................a-EEIRGED....EEEG-VPA---.MSLQDIELLSKNTEVWYKLISGKI.
A8AB08_IGNH4/17-59 ........................EEAPLVEE....EEGTKAPTTER.FPLEAYEISVELADLWDGAIEGKV.
A0A031LJX8_9CREN/4-57 essyegkeeeektdseveersrgg--------....--DDDLPA---.MSLQDIELLMKNTDVWYNLISGKI.
A3DN92_STAMF/11-54 ........................EEEYMEEE....EEETEEKTPPRlVRINYLEKFIKTTILWEKFVRGET.
W7L7R3_9CREN/13-54 .....................eet-EEKVTEE....EEDSEFPA---.VSLQDIELLMKNTEIWHELLKGKI.
Q975M1_SULTO/33-72 ........................HEEKVEAE....SEEEELPA---.LSVADIELLMKNTEIWDNLLNGKI.
A0A0V8RWB8_PYROC/7-50 ..................eevsek--AHESEE....EVEEEA----IdINAALLEAMVKRTEILEKYVKGEV.
A0A8D5TZY2_9CREN/10-49 ........................-EDKREEE....EDEDEGFS-SS.MSINDIEYFVERTQLLEDIVSG--r
A2BMA7_HYPBU/16-59 ........................VTITTAEE....EAEEEVVTVDIdVNAALLEAMVARTEIIEKLAKGEY.
RPO13_SACS2/20-59 ........................NEEKEVEE....TSEDEFPK---.LSIQDIELLMRNTEIWDNLLNGKI.
A0A2U9IEQ3_9CREN/3-54 ...............deynngeen-EETTSEEkeprEEDSEFPA---.VSLQDIELLMKNTEVWYELLNGKI.
A0A9E4ZQP1_9CREN/25-64 ......................ks--EREEEE....SDEESFPM---.LTLDEIEALMKSTEVWDELLAGKI.
A0A650CM82_9CREN/31-70 .......................s-EEKTSES....GEEEEFAS---.MTIPDIELLMKNTEIWDKLLDDKI.
E0SPY1_IGNAA/23-60 ......................ep--EYLAEE....EEES--VD---.LSPTDIELFLQRSEIWDKLVSNEI.
#=GC seq_cons .........................E-ppsEE....-EEs-hPs....lSlpDIElLhKsTElW-cLlsGKI.
//
