# STOCKHOLM 1.0 #=GF ID RHH_4 #=GF AC PF13467.1 #=GF DE Ribbon-helix-helix domain #=GF AU Bateman A #=GF SE Jackhmmer:A3PHV5 #=GF GA 25.00 25.00; #=GF TC 25.20 25.00; #=GF NC 24.90 24.90; #=GF BM hmmbuild HMM.ann SEED.ann #=GF SM hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq #=GF TP Domain #=GF CC This short bacterial protein contains a ribbon-helix-helix #=GF CC domain that is likely to be DNA-binding. #=GF SQ 57 #=GS Q6FZ86_BARQU/2-80 AC Q6FZ86.1 #=GS Q2W502_MAGSA/60-132 AC Q2W502.1 #=GS A4TYI1_9PROT/37-105 AC A4TYI1.1 #=GS C3JYT3_PSEFS/33-103 AC C3JYT3.1 #=GS Q141Z3_BURXL/64-134 AC Q141Z3.1 #=GS C6BV10_DESAD/14-84 AC C6BV10.1 #=GS Q7MIW4_VIBVY/61-131 AC Q7MIW4.1 #=GS A6WUZ0_OCHA4/14-84 AC A6WUZ0.1 #=GS A5FYB5_ACICJ/14-84 AC A5FYB5.1 #=GS A8HUM8_AZOC5/14-84 AC A8HUM8.1 #=GS Q0G519_9RHIZ/14-84 AC Q0G519.1 #=GS B8EK53_METSB/14-84 AC B8EK53.1 #=GS A0KLC1_AERHH/25-95 AC A0KLC1.1 #=GS A8LPV2_DINSH/14-84 AC A8LPV2.1 #=GS A9D0B8_9GAMM/23-93 AC A9D0B8.1 #=GS A4XXG0_PSEMY/14-84 AC A4XXG0.1 #=GS B1SXR3_9BURK/14-84 AC B1SXR3.1 #=GS A2SED0_METPP/14-84 AC A2SED0.1 #=GS B5SFN5_RALSL/14-84 AC B5SFN5.1 #=GS Q57CU3_BRUAB/14-84 AC Q57CU3.1 #=GS A6EV75_9ALTE/24-94 AC A6EV75.1 #=GS Q8EH51_SHEON/14-84 AC Q8EH51.1 #=GS A4TW65_9PROT/14-84 AC A4TW65.1 #=GS Q2SKQ2_HAHCH/14-84 AC Q2SKQ2.1 #=GS C5AUK2_METEA/8-73 AC C5AUK2.1 #=GS Q2W7L3_MAGSA/4-68 AC Q2W7L3.1 #=GS A4TUN3_9PROT/1-65 AC A4TUN3.1 #=GS A7HVX0_PARL1/12-78 AC A7HVX0.1 #=GS Q07PP8_RHOP5/4-69 AC Q07PP8.1 #=GS D3NST4_AZOS1/3-70 AC D3NST4.1 #=GS D3NR24_AZOS1/9-75 AC D3NR24.1 #=GS B6IXV3_RHOCS/23-89 AC B6IXV3.1 #=GS D3NY07_AZOS1/12-77 AC D3NY07.1 #=GS B6IW11_RHOCS/2-67 AC B6IW11.1 #=GS B6IVX3_RHOCS/18-84 AC B6IVX3.1 #=GS D3NQN8_AZOS1/38-116 AC D3NQN8.1 #=GS B2IH09_BEII9/16-86 AC B2IH09.1 #=GS C9TG23_9RHIZ/6-72 AC C9TG23.1 #=GS A9D3H5_9RHIZ/10-76 AC A9D3H5.1 #=GS C3MEF5_RHISN/1-67 AC C3MEF5.1 #=GS D8JQT3_HYPDA/2-67 AC D8JQT3.1 #=GS Q1NA23_9SPHN/16-85 AC Q1NA23.1 #=GS A3WHC8_9SPHN/13-82 AC A3WHC8.1 #=GS A3K2C9_9RHOB/4-70 AC A3K2C9.1 #=GS B7QTG9_9RHOB/4-70 AC B7QTG9.1 #=GS Q167I6_ROSDO/4-70 AC Q167I6.1 #=GS A8TZV0_9PROT/6-70 AC A8TZV0.1 #=GS E3I0W1_RHOVT/37-102 AC E3I0W1.1 #=GS Q11GU9_MESSB/3-69 AC Q11GU9.1 #=GS A1B3A7_PARDP/21-87 AC A1B3A7.1 #=GS E0TDI6_PARBH/5-70 AC E0TDI6.1 #=GS Q0AMZ5_MARMM/16-81 AC Q0AMZ5.1 #=GS A0NVL5_9RHOB/2-68 AC A0NVL5.1 #=GS B6R003_9RHOB/2-68 AC B6R003.1 #=GS C7KDM2_ACEPA/4-70 AC C7KDM2.1 #=GS A5FXC9_ACICJ/2-68 AC A5FXC9.1 #=GS D5VIX9_CAUST/3-68 AC D5VIX9.1 Q6FZ86_BARQU/2-80 TSRKI.......SVRIDGHATSVSLEQPFLDILKAIAYKKGQSLAFIITDI......AKR.......TAASESFLFITRLCTPEY.SLSPSL.VFVLSFLF Q2W502_MAGSA/60-132 APRKRPVTLICRNIRVKGKRTSVKLENEFWNALEIMADEAHCAIDDLCETA.....RRRY.......................EASSLTSAIRVFVLNSNM A4TYI1_9PROT/37-105 APEKR.......SVRIHGHSTTIRLEQAFWTVLDEMAREEGVTASALIARIHDHCLVTND.......................R..NLASCLRVVCLKYIN C3JYT3_PSEFS/33-103 KPLSR.......SVRLNGFSTCLRLEQIYWNILTEIARINACSVSALLSYVDREVHLRYG.......................GVKNFSGLVRVVCVVHAL Q141Z3_BURXL/64-134 KPRQR.......SVRINGLATCLRLEEVYWRIIEEIARQESVTVGKLISRWALEIDLTQE.......................AICNFTGFVRIICVTQLL C6BV10_DESAD/14-84 EQITR.......SIRINGAVTSIRIERRFWNILDELAEEEQTSTGKFISTLHNEAYSLNG.......................EISNFASLLRVVCTTYLV Q7MIW4_VIBVY/61-131 QTITR.......SIRIDGHATSVKLEASYWDILQEIADAQQLTVPKFISTVYREALEHNG.......................EVSNFASLLRCACLMYAR A6WUZ0_OCHA4/14-84 RQINR.......SVRIGGHSTSIQLEATFWRLLDEIAASQNLTTPRFISTLYDEALEANG.......................AIPNFASMLRTTCALYLM A5FYB5_ACICJ/14-84 AQTSR.......SVRLSGRSTSVRLERVFWDALGEIATAEGVSVPRLIALLHDEAEDWFG.......................DIDNLASLLRAACILYRR A8HUM8_AZOC5/14-84 QSVTR.......SIRIGGHITSVRLENTFWTILEEIAASEGSSVAKFITTLHDEVLDCRG.......................EVQNLASLLRCSCLIYIS Q0G519_9RHIZ/14-84 EGETR.......SVRLSGHSTSIRLEAAFWRTLEHLAESQDMSLAKFLTKLHDEVLDLRG.......................EVRNFASHLRCACLVHLE B8EK53_METSB/14-84 QCQTR.......SVRLGGHVTSIRLEALFWQVLEKLAASEGSTLGRLLTKLHDESLEFQG.......................GIGNFTALLRCACIGYAA A0KLC1_AERHH/25-95 ACTTR.......SVRICGHSTSIRLENKFWTILEQLCQAQGRSMGLFLSELYQEALGNGM.......................EMSNFASLLRCSCLVHLE A8LPV2_DINSH/14-84 ACTTR.......RLRLNGQSTSIRLENSFWAILDEMAEAEGRSTPAFISTLHGEVLEARG.......................EPVNFTSLLRCTALLYIE A9D0B8_9GAMM/23-93 LPIQK.......SIRIQGHVTSISLEKLFWDLLDQIAESQGVKRNQFIASLYIEALNHHG.......................DVKNFTSLLRSACVQHIL A4XXG0_PSEMY/14-84 ESRSR.......SLRIHGVVTTLRLENQFWDILREIAEVDGMTTNQLIAKLYEEVMDFRG.......................EVVNFASFLRVSCTRYLA B1SXR3_9BURK/14-84 ECRTR.......SVRIEGVTTTIRLENLFWHTLSDLAADTEITTNQLIARLHREVTEYAG.......................QTVNFASFLRVTCLRYES A2SED0_METPP/14-84 EPRQR.......SVRIHGVITSIRLENLMWRVLSDIASEQKCTTNALITKLYDEATTHRS.......................ESANFASFLRVTCVRHLI B5SFN5_RALSL/14-84 ETQAR.......SLRLHGVATSVRLECLFWDVLEEIGQRDGLSVSQLIGRLYDELLDRRG.......................EIANFASFLRVCCLRYLM Q57CU3_BRUAB/14-84 QSVTR.......SLRIDRAVTSVRLENFFWWTLEDIAARDNLTVSRLLGKLYDESRNEGH.......................DLDNFASFLRVCCGRYLS A6EV75_9ALTE/24-94 ISRTH.......SLRIDGMVTSIRMENAFWNALTEIAARDGMNLPQMITRLYHESIDAGH.......................DLGNFTSFLRVCAMRYLA Q8EH51_SHEON/14-84 ELKTR.......SIRIDGVVTSVRLEAIFWQIIEEIAEDAELSVAVFLTRIYREVLARQG.......................EVANFASLLRVACTTHLN A4TW65_9PROT/14-84 QSVAR.......SVRIGGVVTSIKVERHFWQILEDIAAEGGLSLPQFLTQLHDEVIERRG.......................EIGNFASLLRVVCATYLN Q2SKQ2_HAHCH/14-84 EAHSK.......SVRLRGFVTSVRLEQRFWALLEEIADSEGMSTSQFMAKLYDEVVEKRG.......................EVGNFASLLRVVCATYLE C5AUK2_METEA/8-73 ENAKR.......SVMIAGHRTSVSLEAEFWTALQEIAQARGQSVQALIGAI.....DSER.......G...............AR.NLSSAIRVFVLGAFR Q2W7L3_MAGSA/4-68 QPVKR.......SVKIAGHATSVTLEAEFWDCLRELAESRGTSINQMVAGI.....DSTR.......................EA.NLSSAIRVFVLNELK A4TUN3_9PROT/1-65 MLKKH.......SIIIAGHASSITMEPAFWDELKKISERDGVSINQLVSVI.....DTDR.......................DG.NLSSAIRLFVLNDLK A7HVX0_PARL1/12-78 GEIKR.......SVTIAGHRTSISLERPFWDVLKELACTEKTSVNELVRRI.....DTRR.......DG..............QG.SLSSAIRLYVLNALR Q07PP8_RHOP5/4-69 PVVKR.......SIVVAGHKTSVSLEEAFWNGMKEISGLRDMTLSELVGEI.....DSNR.......Q...............QG.NLSSAIRLFVLDYFR D3NST4_AZOS1/3-70 ALMSR.......NLVVNGRRTSMKLEPSVWNYLGEIAQLRGKTVGGLVSDI.....ESGL......PDG..............AD.NLSAEVRMFILNYYK D3NR24_AZOS1/9-75 PMHMR.......NIRVNGKRTSMKLMPVEWDSLEEICTRENMTLSELVSKI.....DAEC.......RD..............SD.NLTGCVRVYALCYFR B6IXV3_RHOCS/23-89 QLISH.......NVWVNGHRTSVRLEAVMWKSLHEIAEIEGTTIHQLISMI.....AARR.......HE..............TS.TLTATIRAFLVAYFR D3NY07_AZOS1/12-77 GLLCR.......NVKVSGRRTSLRMEPYIWDSLKEICERERLTLNEICTQI.....DERR......................GDS.NLTASIRVFIVSYYR B6IW11_RHOCS/2-67 RSICK.......NVTVAGRRTSVRMEPIMWQCLEEICRREGRTVHEIVTLI.....DRLR........G..............DG.GLTAALRIFLVGYLQ B6IVX3_RHOCS/18-84 PQIIR.......NVTVLGQRTSVRLEPEMWDALLDVCRREGRSVHEVCSRI.....AQAK.......PP..............AA.SLTAAIRVFLLSYFR D3NQN8_AZOS1/38-116 PLRSQ.......NIMIGGHRTSMRLEPSMWDALEDIGRREGLTVNRLCTQIKERIEEQARRRGINPEDA..............DV.TLTSAVRVFIASYYR B2IH09_BEII9/16-86 SIIKH.......SVTIAGHATSISLESAFWDALKEIAEARTLSVAALIAEI.....DAARVESS...PS..............RK.NLSSAIRVYILRTVR C9TG23_9RHIZ/6-72 RLRKH.......SVSIRGHATSYTLEDPFFKIIEEIAAARNMTVAALVAEI.....DSRR.......ER..............TI.NLSSALRLHVLDWLK A9D3H5_9RHIZ/10-76 TMRKH.......SVSIRGHRTSITLENAFMAALRQMADERGLAVAALIAEI.....DSAQ.......ET..............PG.NLSSAIRVAVLDWAL C3MEF5_RHISN/1-67 MIAKH.......SATLHGHRTSFTLEDAFWQELKSIAKSRGMPLARLIVEI.....DDGR.......GS..............EG.NLSSAIRLYVLAWIK D8JQT3_HYPDA/2-67 RPEKR.......SFSIQGHRTSISLEAAFWSALKTAAAEDGLTLAGLINAI.....DKDR........G..............GA.GLSSAVRVWILKRLE Q1NA23_9SPHN/16-85 PPVKR.......SVTIAGHQTAISLEPIFWDALRRAAGDRSIPVNALIARI.....DLAR....MAADP..............AP.NLASAIRCWLFLRLA A3WHC8_9SPHN/13-82 PPVKR.......SVAIAGHKTSISLEPLFWDMLKEAAERETMPLSALVAKI.....DAER....IASAT..............PP.GLASAIRVWLVTNAP A3K2C9_9RHOB/4-70 RPVKR.......SLTLKGHRTSVSLEDAFWSEFRRIAAEMDKPLNALASEI.....DEAR.......DP..............EV.GLASSIRVYILHKLI B7QTG9_9RHOB/4-70 RPRKH.......SLTLRGHRTSVSLEDEFWDAFREIAAADGRAINDLAAEI.....DETR.......GV..............DC.GLASAIRLHVLRRLR Q167I6_ROSDO/4-70 RPVKH.......SVTLKGHRTSISLEDEFWQELRRISQENGKPINGLVADI.....DVKR.......GT..............ST.GLASAIRVFVLEDLK A8TZV0_9PROT/6-70 APRKR.......SVTIAGHATSVSMEDAFWRRLSQFAGERDQSVNSLVAEI.....DRTR.......................ST.NLSSAVRVWVLEQCA E3I0W1_RHOVT/37-102 LPKKR.......SLAIAGHRTSITLEDAFWRELKATAEEQGRTVAALVAEI.....DAAR.......G...............PA.GLSAAIRVYLLGKKA Q11GU9_MESSB/3-69 APKKR.......SVTIRGHRTSFSLEDAFYSELERIAAAQGKPVAALIGEI.....DASQ.......SR..............NT.NLSSALRLYVLAEVK A1B3A7_PARDP/21-87 APSKR.......SVTIGGHRTSVSLEDAFWRELRELARAGGRTTATLIAEI.....DAAR.......PP..............EV.GLATALRLFVLAEIV E0TDI6_PARBH/5-70 ELIKR.......SVTLRGHRTSVALEAAFWAALDEWAVRRGVPVAQLILDA.....DLKR........G..............SQ.GLASTLRVELLAAAR Q0AMZ5_MARMM/16-81 PLLKR.......SLSLAGHRTSISLEPDFWAELDRLARDQGQSLASLIGEI.....DAAR.......................EGEPLASSVRIWVLQALR A0NVL5_9RHOB/2-68 ALLKR.......SLSLHGHRTSLALEPEFWDVVDAHADATQKSLAGLIAEI.....DDNR.......DP..............ED.PLSSAVRVWALKRVQ B6R003_9RHOB/2-68 SLKKR.......SITLHGHRTSITLEPEFWSGLEDLARSQGKNITATIAGI.....DDER.......NP..............EN.NLSSCIRVAVLKHFQ C7KDM2_ACEPA/4-70 HLRKR.......SLILAGHDTSVALESAFWNTLEDIANQQKQTLPQLVTKV.....DAAR.......SP..............EQ.SLASALRVYALEWLK A5FXC9_ACICJ/2-68 NLEKR.......SLSLSGHRTSVALEPEFWTALEAAAARRGVALGTLVGEV.....DAAR.......DP..............DR.PLASALRVFALTGAG D5VIX9_CAUST/3-68 GLKKR.......SVNLAGHATSLALEPEFWAVLERAATRDGASLAALIQRI.....DNAR.......G...............ER.PLASACRVFALAEAA #=GC seq_cons t.hpR.......SlplsGHpTSlpLEstFWshLc-lAppcuholspLlucl.....Dtpp.......................cs.NLuSslRlhsLpalp //