RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= 537021.9.peg.472_1 (369 letters) >gnl|CDD|181656 PRK09111, PRK09111, DNA polymerase III subunits gamma and tau; Validated. Length = 598 Score = 619 bits (1599), Expect = e-178 Identities = 218/360 (60%), Positives = 285/360 (79%), Gaps = 1/360 (0%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDV-PTVEF 59 +IGQ+ M++TLTNAF++GRIAQ++ML+G RG+GKTTTARI+AR+LNY+ D PT++ Sbjct: 26 LIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDL 85 Query: 60 EGFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLS 119 G GEHCQAI+ G HVDV+E+DAASHT +DD+REII+ + Y+P+SAR++VYI+DEV MLS Sbjct: 86 CGVGEHCQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLS 145 Query: 120 TAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQ 179 TAAFN LLKTLEEPPPHVKFIFATTEIRK+P+TVLSRCQRFDL RI L ++I Sbjct: 146 TAAFNALLKTLEEPPPHVKFIFATTEIRKVPVTVLSRCQRFDLRRIEADVLAAHLSRIAA 205 Query: 180 EESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDL 239 +E +E + EA+A+IARA++GS RDGLSLLDQAIA ++ +VR ML LADR R++DL Sbjct: 206 KEGVEVEDEALALIARAAEGSVRDGLSLLDQAIAHGAGEVTAEAVRDMLGLADRARVIDL 265 Query: 240 FGYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEAEN 299 F L++GD+ L EF +QYD+G +P V+L DLAEFTHLVTR+K +P+ A+ SEAE Sbjct: 266 FEALMRGDVAAALAEFRAQYDAGADPVVVLTDLAEFTHLVTRLKIVPDAAEDPSLSEAER 325 Query: 300 ARALQYSKEVSITFLSRFWQMILKGISEIEGFSRPMEAVEMVLIRLAHAVQLPSPEEIAR 359 R +++K++S+ LSR WQM+LKGI E++G RP+ A EMVLIRLA+A LP+P+E R Sbjct: 326 TRGAEFAKKLSMRVLSRLWQMLLKGIEEVQGAPRPLAAAEMVLIRLAYAADLPTPDEALR 385 >gnl|CDD|162839 TIGR02397, dnaX_nterm, DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis. Length = 355 Score = 401 bits (1034), Expect = e-112 Identities = 152/346 (43%), Positives = 216/346 (62%), Gaps = 6/346 (1%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 +IGQ+ +++TL NA K+GRIA +Y+ SG RG GKT+ ARI A++LN + P E Sbjct: 16 VIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALN----CQNGPDGEPC 71 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 E C+ I G+ +DV+E+DAAS+ +DD+REI+D + Y P S +++VYI+DEV MLS Sbjct: 72 NECESCKEINSGSSLDVIEIDAASNNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLSK 131 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 +AFN LLKTLEEPP HV FI ATTE KIP T+LSRCQRFD RI + D++E KIL + Sbjct: 132 SAFNALLKTLEEPPEHVVFILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDK 191 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E I+ + EA+ +IARA+DGS RD LSLLDQ I+ N I V +L L D ++++L Sbjct: 192 EGIKIEDEALELIARAADGSLRDALSLLDQLISFGNGNITYEDVNELLGLVDDEKLIELL 251 Query: 241 GYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEAENA 300 ++ D L+ +SGV+P L DL E + IK P +L SE E Sbjct: 252 EAILNKDTAEALKILDEILESGVDPEKFLEDLIEILRDLLLIKKTPSNLLAVLESEQEFL 311 Query: 301 RALQYSKEVSITFLSRFWQMILKGISEIEGFSRPMEAVEMVLIRLA 346 + L + ++S+ FL R ++L+ + ++ + P +EM L+RL Sbjct: 312 KEL--ALKLSLEFLLRLLDILLEALKDLRFSNDPRIWLEMTLLRLL 355 >gnl|CDD|184928 PRK14964, PRK14964, DNA polymerase III subunits gamma and tau; Provisional. Length = 491 Score = 350 bits (901), Expect = 2e-97 Identities = 157/364 (43%), Positives = 228/364 (62%), Gaps = 14/364 (3%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 ++GQ +++ L NAF +I QS +L G G+GKTT ARII+ LN + PT + Sbjct: 15 LVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNC----SNGPTSDPC 70 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 G +C +I NH DV+E+DAAS+TS+DD++ I++ Y PIS++F+VYI+DEV MLS Sbjct: 71 GTCHNCISIKNSNHPDVIEIDAASNTSVDDIKVILENSCYLPISSKFKVYIIDEVHMLSN 130 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 +AFN LLKTLEEP PHVKFI ATTE++KIP+T++SRCQRFDL +I L+E I ++ Sbjct: 131 SAFNALLKTLEEPAPHVKFILATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKK 190 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E+IE D E++ +IA S GS R+ L LL+QA N+KI SVR +L D++ + DL Sbjct: 191 ENIEHDEESLKLIAENSSGSMRNALFLLEQAAIYSNNKISEKSVRDLLGCVDKHILEDLV 250 Query: 241 GYLIKGDI---INVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEA 297 ++ GD +NV +E + NP +IL + + + + I + D LL + Sbjct: 251 EAILLGDAQSALNVFRELCNTS----NPVIILEGMLQIIYEICYFS-ITKEIDFLLGEDL 305 Query: 298 ENARALQYSKEVSITFLSRFWQMILKGISEIEGFSRPMEAVEMVLIRLAHAVQLPSPEEI 357 ++ K S FLSR WQM+LKGI E++ + +A EM++IRL + LPSP++I Sbjct: 306 IT--RIKSLKIGSTIFLSRLWQMLLKGIQEVKSSTCVKQAAEMMIIRLCYLSDLPSPQQI 363 Query: 358 ARYI 361 + I Sbjct: 364 IKKI 367 >gnl|CDD|180131 PRK05563, PRK05563, DNA polymerase III subunits gamma and tau; Validated. Length = 559 Score = 320 bits (823), Expect = 3e-88 Identities = 137/364 (37%), Positives = 208/364 (57%), Gaps = 27/364 (7%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 ++GQ+ + KTL NA K G+I+ +Y+ SG RG GKT+ A+I A+++N P E E Sbjct: 18 VVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECE 77 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 C+AI G+ +DV+E+DAAS+ +D++R+I D++ Y P A+++VYI+DEV MLST Sbjct: 78 ----ICKAITNGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLST 133 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 AFN LLKTLEEPP HV FI ATTE KIP T+LSRCQRFD RIS+ D++E IL + Sbjct: 134 GAFNALLKTLEEPPAHVIFILATTEPHKIPATILSRCQRFDFKRISVEDIVERLKYILDK 193 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E IE++ EA+ +IARA++G RD LS+LDQAI+ + K+ + + + DL Sbjct: 194 EGIEYEDEALRLIARAAEGGMRDALSILDQAISFGDGKVTYEDALEVTGSVSQEALDDLV 253 Query: 241 GYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEAENA 300 +++GD+ L+ D G +P+ + DL I Y + D LL + Sbjct: 254 DAIVEGDVAKALKILEELLDEGKDPNRFIEDL---------IYY---LRDLLLVKTSPEL 301 Query: 301 RAL-----------QYSKEVSITFLSRFWQMILKGISEIEGFSRPMEAVEMVLIRLAHAV 349 L + S+++ I L R ++ +I+ ++P +E+ L++L Sbjct: 302 EILDESTENDELFKELSEKLDIERLYRMIDILNDAQQQIKWTNQPRIYLEVALVKLCEQA 361 Query: 350 QLPS 353 Sbjct: 362 AASP 365 >gnl|CDD|184929 PRK14965, PRK14965, DNA polymerase III subunits gamma and tau; Provisional. Length = 576 Score = 305 bits (783), Expect = 1e-83 Identities = 135/347 (38%), Positives = 200/347 (57%), Gaps = 4/347 (1%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 + GQ+ + +TL NA +GR+A +++ +G RG+GKT+TARI+A++LN + T E Sbjct: 18 LTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQG----LTAEPC 73 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 C I G VDV E+D AS+T +DD+RE+ + + Y P +R++++I+DEV MLST Sbjct: 74 NVCPPCVEITEGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLST 133 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 AFN LLKTLEEPPPHVKFIFATTE K+PIT+LSRCQRFD RI + +++ I + Sbjct: 134 NAFNALLKTLEEPPPHVKFIFATTEPHKVPITILSRCQRFDFRRIPLQKIVDRLRYIADQ 193 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E I A+A++AR DGS RD LS LDQ +A C D + V +L + DR ++D+ Sbjct: 194 EGISISDAALALVARKGDGSMRDSLSTLDQVLAFCGDAVGDDDVAELLGVVDRRLLLDIS 253 Query: 241 GYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEAENA 300 + D +L+ + G N +L + + ++ + E D L SEAE A Sbjct: 254 AAVFGRDTRALLEIVERVDEFGYNMRQFCQELIDHLRNLVVLRAVGEPGDLLDLSEAELA 313 Query: 301 RALQYSKEVSITFLSRFWQMILKGISEIEGFSRPMEAVEMVLIRLAH 347 + L R ++L+ E+ S P +EM L+++A Sbjct: 314 ELRAQAAAADAADLQRHLTLLLRAEGEMAHASFPRLVLEMALLKMAT 360 >gnl|CDD|181191 PRK07994, PRK07994, DNA polymerase III subunits gamma and tau; Validated. Length = 647 Score = 301 bits (772), Expect = 2e-82 Identities = 143/369 (38%), Positives = 216/369 (58%), Gaps = 33/369 (8%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 ++GQ+ ++ L NA GR+ +Y+ SGTRG+GKTT AR++A+ LN +T P Sbjct: 18 VVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPC---- 73 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 G ++C+ I +G VD++E+DAAS T ++D RE++D + Y P RF+VY++DEV MLS Sbjct: 74 GECDNCREIEQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSR 133 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 +FN LLKTLEEPP HVKF+ ATT+ +K+P+T+LSRC +F L + + + + ILQ Sbjct: 134 HSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRQQLEHILQA 193 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E I F+P A+ ++ARA+DGS RD LSL DQAIA N ++ T V ML D ++ + L Sbjct: 194 EQIPFEPRALQLLARAADGSMRDALSLTDQAIASGNGQVTTDDVSAMLGTLDDDQALSLL 253 Query: 241 GYLIKGD---IINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEA 297 L++GD ++ ++ + + + G + +L +L E H RI MA LL + Sbjct: 254 EALVEGDGERVMALINQLAER---GPDWEGLLVELLELLH---RI----AMAQ-LLPAAL 302 Query: 298 ENARALQYSKEVSITFLSR---------FWQMILKGISEIEGFSRPMEAVEMVLIR-LA- 346 +N E+ + L+R ++Q +L G ++ VEM L+R LA Sbjct: 303 DND---MADIELRLRELARTLPPEDVQLYYQTLLIGRKDLPLAPDRRMGVEMTLLRMLAF 359 Query: 347 H-AVQLPSP 354 H A LP P Sbjct: 360 HPAAPLPEP 368 >gnl|CDD|184914 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau; Provisional. Length = 585 Score = 282 bits (722), Expect = 1e-76 Identities = 145/373 (38%), Positives = 211/373 (56%), Gaps = 16/373 (4%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 ++GQ+ +++TL NA GR+A +Y+ +G RG+GKT+TARI+A+++N T P Sbjct: 18 LVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTND---PKGRPC 74 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 G E C+AI G+ VDV+E+DAASHTS+DD REII+++ ++P AR++VYI+DEV MLST Sbjct: 75 GTCEMCRAIAEGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLST 134 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 AAFN LLKTLEEPPPH FI ATTE+ K+P T+LSRCQRFD HR S+ D+ KI Sbjct: 135 AAFNALLKTLEEPPPHAIFILATTEVHKVPATILSRCQRFDFHRHSVADMAAHLRKIAAA 194 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E I +P A+ IARA+ GS RD +LL Q +I S V+ +L ++ + L Sbjct: 195 EGINLEPGALEAIARAATGSMRDAENLLQQLATTYGGEISLSQVQSLLGISGDEEVKALA 254 Query: 241 GYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEAENA 300 L+ D+ L+ ++ G + DL E+ V + + L + E A Sbjct: 255 EALLAKDLKAALRTLNAVAADGADLRQFTRDLVEYLRQVMLLNSGAD-RSLLDLTADEKA 313 Query: 301 RALQYSKEVSITFLSRFWQMILKGISEIEGFSR-------PME-AVEMVLIRLAHAVQLP 352 + S+ ++ L++ W +K S+++ R P+E AV L+ A Q Sbjct: 314 ALQKVSQIANLEALTK-W---VKAFSQLDFQLRTTSYGQLPLELAVIEALLVPVPAPQPA 369 Query: 353 SPEEIARYIVEEK 365 P A V Sbjct: 370 KPTAAAPSPVRPT 382 >gnl|CDD|180643 PRK06645, PRK06645, DNA polymerase III subunits gamma and tau; Validated. Length = 507 Score = 280 bits (718), Expect = 3e-76 Identities = 135/355 (38%), Positives = 220/355 (61%), Gaps = 5/355 (1%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 + GQ+ ++K L+ + R+A Y+L+G RG+GKTT+ARIIA+++N + T++ Sbjct: 23 LQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTC 82 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 +C + NH D++E+DAAS TS+DD+R II+ YKP+ + +++I+DEV MLS Sbjct: 83 EQCTNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSK 142 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 AFN LLKTLEEPPPH+ FIFATTE++KIP T++SRCQR+DL R+S ++ +L I ++ Sbjct: 143 GAFNALLKTLEEPPPHIIFIFATTEVQKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQ 202 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAI---ARCNDKIVTSSVRLMLALADRNRIM 237 E+++ D EA+ +IA S+GSARD +S+LDQA A+ ++ I + ML L D + I+ Sbjct: 203 ENLKTDIEALRIIAYKSEGSARDAVSILDQAASMSAKSDNIISPQVINQMLGLVDSSVII 262 Query: 238 DLFGYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEA 297 + Y+I + + + Y S VN + + +++F + ++K +P +L E+ Sbjct: 263 EFVEYIIHRETEKAINLINKLYGSSVNLEIFIESVSDFIAYLNKVKMLPNY--SLPIYES 320 Query: 298 ENARALQYSKEVSITFLSRFWQMILKGISEIEGFSRPMEAVEMVLIRLAHAVQLP 352 N R ++S+ LS WQ+ KG+ EI+ + EM++I+ ++ LP Sbjct: 321 FNDRTKSILDKISLPHLSILWQIYNKGVGEIKISYNQLTETEMLVIKSIYSTSLP 375 >gnl|CDD|184933 PRK14969, PRK14969, DNA polymerase III subunits gamma and tau; Provisional. Length = 527 Score = 280 bits (717), Expect = 5e-76 Identities = 131/328 (39%), Positives = 196/328 (59%), Gaps = 7/328 (2%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 ++GQ+ +++ LTNA + R+ +Y+ +GTRG+GKTT ARI+A+SLN +T P Sbjct: 18 LVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPC---- 73 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 G C I G VD++E+DAAS+T +D +RE++D Y P RF+VYI+DEV MLS Sbjct: 74 GVCSACLEIDSGRFVDLIEVDAASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSK 133 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 +AFN +LKTLEEPP HVKFI ATT+ +KIP+TVLSRC +F+L ++ ++ IL++ Sbjct: 134 SAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQ 193 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E+I FD A+ ++ARA+ GS RD LSLLDQAIA + S VR ML D++ + L Sbjct: 194 ENIPFDATALQLLARAAAGSMRDALSLLDQAIAYGGGTVNESEVRAMLGAIDQDYLFALL 253 Query: 241 GYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEAENA 300 L+ D +L + + ++ L DLA H + + +P+ E Sbjct: 254 EALLAQDGAALLAIADAMEERSLSFDAALQDLAALLHRLAIAQTVPDSIAD---DLPERD 310 Query: 301 RALQYSKEVSITFLSRFWQMILKGISEI 328 R L +K +S + ++Q+ L G ++ Sbjct: 311 RLLDLAKRLSPEDIQLYYQIALHGRRDL 338 >gnl|CDD|184925 PRK14961, PRK14961, DNA polymerase III subunits gamma and tau; Provisional. Length = 363 Score = 268 bits (688), Expect = 1e-72 Identities = 128/351 (36%), Positives = 202/351 (57%), Gaps = 5/351 (1%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 +IGQK ++ ++N GRI +++LSGTRG+GKTT AR++A+SLN + P + Sbjct: 18 IIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCI 77 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 C+ I +G +D++E+DAAS T ++++REI+D IYY P +RF+VY++DEV MLS Sbjct: 78 ----ICKEIEKGLCLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSR 133 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 +FN LLKTLEEPP H+KFI ATT++ KIP T+LSRC +F L IS + IL + Sbjct: 134 HSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIK 193 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 ESI+ D A+ +IA + GS RD L+LL+ AI I +V ML L + + L Sbjct: 194 ESIDTDEYALKLIAYHAHGSMRDALNLLEHAINLGKGNINIKNVTDMLGLLNEKQSFLLT 253 Query: 241 GYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEAENA 300 L+K D + + G+ IL ++ F H ++ + P++ +T ++ + Sbjct: 254 DALLKKDSKKTMLLLNKISSIGIEWENILIEMLRFLHHISMSQSFPKIWNT-IFIKNYKN 312 Query: 301 RALQYSKEVSITFLSRFWQMILKGISEIEGFSRPMEAVEMVLIRLAHAVQL 351 + + ++ T + +Q++L G E++ VEM L+R +A+ Sbjct: 313 QIQKIAQNNKKTNIQLCYQILLNGRKELKFAPDQKIGVEMTLLRAINAITK 363 >gnl|CDD|181430 PRK08451, PRK08451, DNA polymerase III subunits gamma and tau; Validated. Length = 535 Score = 266 bits (683), Expect = 5e-72 Identities = 113/260 (43%), Positives = 166/260 (63%), Gaps = 7/260 (2%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 +IGQ+ + KTL+ A + R+A +Y+ SG RG GKT++ARI AR+L + P Sbjct: 16 LIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPC---- 71 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 CQ+ + H+D++E+DAAS+ IDD+RE+I+Q YKP ARF+++I+DEV ML+ Sbjct: 72 DTCIQCQSALENRHIDIIEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTK 131 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 AFN LLKTLEEPP +VKFI ATT+ K+P T+LSR Q F +I +I IL++ Sbjct: 132 EAFNALLKTLEEPPSYVKFILATTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEK 191 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E + ++PEA+ ++AR+ +GS RD L+LLDQAI C + I S V ML L D +++ D F Sbjct: 192 EGVSYEPEALEILARSGNGSLRDTLTLLDQAIIYCKNAITESKVADMLGLLDPSKLEDFF 251 Query: 241 GYLIKGD---IINVLQEFSS 257 ++ D + +L+E Sbjct: 252 QAILNQDKEKLFELLKELED 271 >gnl|CDD|184924 PRK14960, PRK14960, DNA polymerase III subunits gamma and tau; Provisional. Length = 702 Score = 260 bits (666), Expect = 3e-70 Identities = 141/357 (39%), Positives = 215/357 (60%), Gaps = 7/357 (1%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 ++GQ + + L++A + GR+ +Y+ +GTRG+GKTT ARI+A+ LN +T P Sbjct: 17 LVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPC---- 72 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 C+A+ G +D++E+DAAS T ++D RE++D + Y P RF+VY++DEV MLST Sbjct: 73 EVCATCKAVNEGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLST 132 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 +FN LLKTLEEPP HVKF+FATT+ +K+PITV+SRC +F L +++ ++ + IL++ Sbjct: 133 HSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRCLQFTLRPLAVDEITKHLGAILEK 192 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E I D +A+ IA ++ GS RD LSL DQAIA + V+ ML L DR I DL Sbjct: 193 EQIAADQDAIWQIAESAQGSLRDALSLTDQAIAYGQGAVHHQDVKEMLGLIDRTIIYDLI 252 Query: 241 GYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEAENA 300 + + V Q ++ S++L L H + ++Y+PE+ L YSE NA Sbjct: 253 LAVHQNQREKVSQLLLQFRYQALDVSLVLDQLISTLHELALLQYLPELG--LKYSEEINA 310 Query: 301 RALQYSKEVSITFLSRFWQMILKGISEIEGFSRPMEAVEMVLIRLAHAVQLPSPEEI 357 + LQ SK +S L ++Q+ KG S+++ + EM ++RL A + +P EI Sbjct: 311 KILQLSKLISAQDLQLYYQIACKGRSDLQLAVTQEQGFEMCVLRLL-AFRPLAPNEI 366 >gnl|CDD|184912 PRK14948, PRK14948, DNA polymerase III subunits gamma and tau; Provisional. Length = 620 Score = 257 bits (660), Expect = 2e-69 Identities = 122/276 (44%), Positives = 177/276 (64%), Gaps = 5/276 (1%) Query: 2 IGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEG 61 +GQ+ + TL NA S RIA +Y+ +G RG GKT++ARI+A+SLN + D PT E G Sbjct: 19 VGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNS--DKPTPEPCG 76 Query: 62 FGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTA 121 E C+AI GN +DV+E+DAAS+T +D++RE+I++ + P+ AR++VY++DE MLSTA Sbjct: 77 KCELCRAIAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTA 136 Query: 122 AFNGLLKTLEEPPPHVKFIFATTEI-RKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 AFN LLKTLEEPPP V F+ ATT+ R +P T++SRCQRFD RI + +++ ++I ++ Sbjct: 137 AFNALLKTLEEPPPRVVFVLATTDPQRVLP-TIISRCQRFDFRRIPLEAMVQHLSEIAEK 195 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 ESIE +PEA+ ++A+ S G RD SLLDQ ++ I +V +L +++L Sbjct: 196 ESIEIEPEALTLVAQRSQGGLRDAESLLDQ-LSLLPGPITPEAVWDLLGAVPEQDLLNLL 254 Query: 241 GYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFT 276 L D ++L D G P IL LA F Sbjct: 255 KALASNDPESLLDSCRQLLDRGREPLAILQGLAAFY 290 >gnl|CDD|184913 PRK14949, PRK14949, DNA polymerase III subunits gamma and tau; Provisional. Length = 944 Score = 255 bits (654), Expect = 1e-68 Identities = 138/368 (37%), Positives = 214/368 (58%), Gaps = 13/368 (3%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 M+GQ ++ LTNA R+ +Y+ +GTRG+GKT+ AR+ A+ LN + P Sbjct: 18 MVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPC---- 73 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 G C I +G VD++E+DAAS T +DD RE++D + Y+P RF+VY++DEV MLS Sbjct: 74 GVCSSCVEIAQGRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSR 133 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 ++FN LLKTLEEPP HVKF+ ATT+ +K+P+TVLSRC +F+L ++ ++ IL + Sbjct: 134 SSFNALLKTLEEPPEHVKFLLATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQ 193 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E + F+ EA+ ++A+A++GS RD LSL DQAIA +++ + V+ ML D ++ L Sbjct: 194 EQLPFEAEALTLLAKAANGSMRDALSLTDQAIAFGGGQVMLTQVQTMLGSIDEQHVIALL 253 Query: 241 GYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEAENA 300 L DI ++Q + G + +L L E H +T ++ P A LYSE A Sbjct: 254 KALTDADIGVLMQTCAQVLAFGADAQEVLRSLLELLHQITLTQFAPAAAQQSLYSEQIRA 313 Query: 301 RALQYSKE-VSITFLSRFWQMILKGISEIEGFSRPMEAVEMVLIRLAHAVQLPSPEEIAR 359 A Q S E V + ++Q++L G ++ P +EM L+R AV + + R Sbjct: 314 FAEQLSPEQVQL-----YYQILLTGRKDLPHAPDPKSGLEMALLR---AVAFVPEKPVKR 365 Query: 360 YIVEEKKK 367 + V++ + Sbjct: 366 WQVDDPAE 373 >gnl|CDD|184923 PRK14959, PRK14959, DNA polymerase III subunits gamma and tau; Provisional. Length = 624 Score = 254 bits (650), Expect = 2e-68 Identities = 134/358 (37%), Positives = 195/358 (54%), Gaps = 5/358 (1%) Query: 3 GQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGF 62 GQ+ + L+ A + R+A +Y+ SGTRG+GKTT ARI A++LN +TA PT E Sbjct: 20 GQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNCETA----PTGEPCNT 75 Query: 63 GEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAA 122 E C+ + +G HVDVVE+D AS+ IDD + + + I Y P+ R++V+I+DE ML+ A Sbjct: 76 CEQCRKVTQGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREA 135 Query: 123 FNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQEES 182 FN LLKTLEEPP V F+ ATTE K P+T++SRCQ F R+S L TK+L E Sbjct: 136 FNALLKTLEEPPARVTFVLATTEPHKFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREG 195 Query: 183 IEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLFGY 242 +++DP AV +IAR + GS RD +SLL Q +A ++ R +L LA + + L Sbjct: 196 VDYDPAAVRLIARRAAGSVRDSMSLLGQVLALGESRLTIDGARGVLGLAGQELFLRLMEA 255 Query: 243 LIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEAENARA 302 L D + V D GV+ L +L + ++ E A L + AR Sbjct: 256 LAAQDCLGVANVVRELLDRGVDMGFFLRELVATWRNLFMLRQAGEAALASLDLPEDEARQ 315 Query: 303 -LQYSKEVSITFLSRFWQMILKGISEIEGFSRPMEAVEMVLIRLAHAVQLPSPEEIAR 359 L ++K + WQM L+G + P A+E++L+ LA +L E + Sbjct: 316 WLGWAKRFEPAHIHACWQMTLEGQRRVLTSLEPAMALELLLLNLAMLPRLMPVESLRP 373 >gnl|CDD|180790 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau; Validated. Length = 830 Score = 252 bits (646), Expect = 7e-68 Identities = 129/318 (40%), Positives = 193/318 (60%), Gaps = 24/318 (7%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 ++GQ+ +++ LT+A GR+ +Y+ +GTRG+GKTT +RI A++LN +T P Sbjct: 18 LVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPC---- 73 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 G C+ I G VD VE+DAAS+ +D++ ++++ Y P+ ARF+VY++DEV ML+ Sbjct: 74 GVCRACREIDEGRFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTN 133 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 AFN +LKTLEEPPPHVKFI ATT+ +KIP+TVLSRC +F+L ++ G ++ +IL E Sbjct: 134 HAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGE 193 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E I F+P+A+ ++ARA+ GS RD LSL DQAIA +++ ++V ML D+ ++ L Sbjct: 194 ERIAFEPQALRLLARAAQGSMRDALSLTDQAIAYSANEVTETAVSGMLGALDQTYMVRLL 253 Query: 241 GYLIKGD---IINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYI-----------P 286 L GD I+ V E + + S S L DLA H RI + P Sbjct: 254 DALAAGDGPEILAVADEMALRSLSF---STALQDLASLLH---RIAWAQFAPASVLDEWP 307 Query: 287 EMADTLLYSEAENARALQ 304 E AD ++E + +Q Sbjct: 308 EAADLRRFAELLSPEQVQ 325 >gnl|CDD|184915 PRK14951, PRK14951, DNA polymerase III subunits gamma and tau; Provisional. Length = 618 Score = 252 bits (646), Expect = 1e-67 Identities = 135/358 (37%), Positives = 219/358 (61%), Gaps = 27/358 (7%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYK--------TAHI 52 M+GQ+ +++ LTNA R+ +Y+ +GTRG+GKTT +RI+A+SLN + TA Sbjct: 18 MVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITA-- 75 Query: 53 DVPTVEFEGFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIM 112 P G + C+ I G VD ELDAAS+ +D+V+++++Q YKP+ RF+V+++ Sbjct: 76 -TPC----GVCQACRDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMI 130 Query: 113 DEVQMLSTAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIE 172 DEV ML+ AFN +LKTLEEPP ++KF+ ATT+ +K+P+TVLSRC +F+L ++ ++E Sbjct: 131 DEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLSRCLQFNLRPMAPETVLE 190 Query: 173 LFTKILQEESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALAD 232 T++L E++ +P+A+ ++ARA+ GS RD LSL DQAIA + ++ ++VR ML D Sbjct: 191 HLTQVLAAENVPAEPQALRLLARAARGSMRDALSLTDQAIAFGSGQLQEAAVRQMLGSVD 250 Query: 233 RNRIMDLFGYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTL 292 R+ + L L +GD V++ +G++ + L ++A + ++ +P+ A Sbjct: 251 RSHVFRLIDALAQGDGRTVVETADELRLNGLSAASTLEEMAAVLQRMAVLQAVPQAAAAA 310 Query: 293 LYSE-AENAR--ALQYSKEVSITFLSRFWQMILKGISEIEGFSRPME--AVEMVLIRL 345 E AE AR AL + E + + + L G +E+ G + P E A+ MVL+RL Sbjct: 311 TDPEAAEVARLAALMPADETQL-----LYSICLHGRAEL-GLA-PDEYAALTMVLLRL 361 >gnl|CDD|184917 PRK14953, PRK14953, DNA polymerase III subunits gamma and tau; Provisional. Length = 486 Score = 247 bits (631), Expect = 5e-66 Identities = 105/263 (39%), Positives = 154/263 (58%), Gaps = 11/263 (4%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 +IGQ+ +++ L NA K R++ +Y+ +G RG GKTT ARI+A+ LN E E Sbjct: 18 VIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNP------QEGE 71 Query: 61 GFG--EHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQML 118 G E+C I +G+ D++E+DAAS+ IDD+R + D + Y PI +++VYI+DE ML Sbjct: 72 PCGKCENCVEIDKGSFPDLIEIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHML 131 Query: 119 STAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKIL 178 + AFN LLKTLEEPPP FI TTE KIP T+LSRCQRF + + + E +I Sbjct: 132 TKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRIC 191 Query: 179 QEESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMD 238 EE IE++ +A+ ++A+AS+G RD SLLDQA K+ V L + + + Sbjct: 192 NEEKIEYEEKALDLLAQASEGGMRDAASLLDQASTYGEGKVTIKVVEEFLGIVSQESVRK 251 Query: 239 LFGYLIKGDI---INVLQEFSSQ 258 L++ D+ I L+ + Sbjct: 252 FLNLLLESDVDEAIKFLRTLEEK 274 >gnl|CDD|180856 PRK07133, PRK07133, DNA polymerase III subunits gamma and tau; Validated. Length = 725 Score = 246 bits (629), Expect = 9e-66 Identities = 120/357 (33%), Positives = 205/357 (57%), Gaps = 34/357 (9%) Query: 2 IGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLN--YKTAHIDVPTVEF 59 +GQ +++TL N KS +I+ +Y+ SG RG GKT+ A+I A +LN +KT + Sbjct: 21 VGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLL------- 73 Query: 60 EGFGEHCQAIIRG--NHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQM 117 E CQ I N +D++E+DAAS+ +D++RE+I+ + P +++++YI+DEV M Sbjct: 74 ----EPCQECIENVNNSLDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHM 129 Query: 118 LSTAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKI 177 LS +AFN LLKTLEEPP HV FI ATTE+ KIP+T+LSR QRF+ RIS +++ I Sbjct: 130 LSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTILSRVQRFNFRRISEDEIVSRLEFI 189 Query: 178 LQEESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIM 237 L++E+I ++ A+ +IA+ S GS RD LS+ +Q N+KI +V + L ++ Sbjct: 190 LEKENISYEKNALKLIAKLSSGSLRDALSIAEQVSIFGNNKITLKNVEELFGLVSNENLI 249 Query: 238 DLFGYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEA 297 +L L DI VL + + G++P ++L L I + + +++++ Sbjct: 250 NLLNLLYSKDIKEVLNILNQIKEQGIDPELLLISL------------INLVKEFIIFNKT 297 Query: 298 ENARALQYSKE-------VSITFLSRFWQMILKGISEIEGFSRPMEAVEMVLIRLAH 347 ++ L+Y E + F +F +++ + +++ P + +E+++I+L Sbjct: 298 KDNSLLEYYSEEDLEKLKIDDDFAYKFIEILFDLLKDLKISDNPNDTLEILIIKLLA 354 >gnl|CDD|169554 PRK08691, PRK08691, DNA polymerase III subunits gamma and tau; Validated. Length = 709 Score = 245 bits (627), Expect = 1e-65 Identities = 128/369 (34%), Positives = 211/369 (57%), Gaps = 7/369 (1%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 ++GQ+ ++K L NA GR+ +Y+L+GTRG+GKTT ARI+A+SLN + A P Sbjct: 18 LVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPC---- 73 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 G + C I G +VD++E+DAAS+T ID++RE+++ Y P + +++VYI+DEV MLS Sbjct: 74 GVCQSCTQIDAGRYVDLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSK 133 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 +AFN +LKTLEEPP HVKFI ATT+ K+P+TVLSRC +F L ++ + + +L Sbjct: 134 SAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDS 193 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E I ++P A+ ++ RA+ GS RD LSLLDQAIA + K+ + VR M+ D+ + +L Sbjct: 194 EKIAYEPPALQLLGRAAAGSMRDALSLLDQAIALGSGKVAENDVRQMIGAVDKQYLYELL 253 Query: 241 GYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEAENA 300 +I D +L + V L +LA + I+ +P L + + ++ Sbjct: 254 TGIINQDGAALLAKAQEMAACAVGFDNALGELAILLQQLALIQAVP---SALAHDDPDSD 310 Query: 301 RALQYSKEVSITFLSRFWQMILKGISEIEGFSRPMEAVEMVLIRLAHAVQLPSPEEIARY 360 + ++ +S + ++Q+ + G ++ M L+R+ L + A Sbjct: 311 ILHRLAQTISGEQIQLYYQIAVHGKRDLSLAPDEYAGFMMTLLRMLAFAPLAAASCDANA 370 Query: 361 IVEEKKKKT 369 ++E + ++ Sbjct: 371 VIENTELQS 379 >gnl|CDD|180523 PRK06305, PRK06305, DNA polymerase III subunits gamma and tau; Validated. Length = 451 Score = 245 bits (627), Expect = 2e-65 Identities = 133/364 (36%), Positives = 192/364 (52%), Gaps = 31/364 (8%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 ++GQ ++ L NA + R A +Y+ SG RG GKTT ARI A++LN + PT + E Sbjct: 19 ILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQN-----PTEDQE 73 Query: 61 GFGE--HCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQML 118 + C+ I G +DV+E+D ASH I+D+R+I + + + P +R+++YI+DEV ML Sbjct: 74 PCNQCASCKEISSGTSLDVLEIDGASHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHML 133 Query: 119 STAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKIL 178 + AFN LLKTLEEPP HVKF ATTEI KIP T+LSRCQ+ L RI +I+ I Sbjct: 134 TKEAFNSLLKTLEEPPQHVKFFLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIA 193 Query: 179 QEESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMD 238 ++E IE EA+ IARA+ GS RD SL D + + SV L L ++ + Sbjct: 194 KQEGIETSREALLPIARAAQGSLRDAESLYDYVVGLFPKSLDPDSVAKALGLLSQDSLYT 253 Query: 239 LFGYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLL--YSE 296 L + + L+ + +SGV P+ LHDL F + LL Y++ Sbjct: 254 LDEAITTQNYAQALEPVTDAMNSGVAPAHFLHDLTLF------------FRNILLKQYNK 301 Query: 297 AENARALQYSKEVS---ITFLSRFWQMILKGISEIEGFSRPMEAVEMVLIRLAHAVQLPS 353 ++ A +YS E I FL + I I E +E V+I L Q P+ Sbjct: 302 QLSSVATKYSSEQLLEIIDFLGESAKHIQLTIFE-------KTFLETVIIHLIRIYQRPT 354 Query: 354 PEEI 357 ++ Sbjct: 355 LSQL 358 >gnl|CDD|183438 PRK12323, PRK12323, DNA polymerase III subunits gamma and tau; Provisional. Length = 700 Score = 244 bits (623), Expect = 4e-65 Identities = 112/288 (38%), Positives = 174/288 (60%), Gaps = 1/288 (0%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVP-TVEF 59 ++GQ+ +++ LT+A + R+ +Y+ +GTRG+GKTT +RI+A+SLN A + T + Sbjct: 18 LVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQP 77 Query: 60 EGFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLS 119 G C I G VD +E+DAAS+ +D++ +++D+ Y P + RF+VY++DEV ML+ Sbjct: 78 CGQCRACTEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLT 137 Query: 120 TAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQ 179 AFN +LKTLEEPP HVKFI ATT+ +KIP+TVLSRC +F+L ++ G ++ IL Sbjct: 138 NHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILG 197 Query: 180 EESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDL 239 EE I + A+ ++A+A+ GS RD LSL DQAIA + +VR ML D++ ++ L Sbjct: 198 EEGIAHEVNALRLLAQAAQGSMRDALSLTDQAIAYSAGNVSEEAVRGMLGAIDQSYLVRL 257 Query: 240 FGYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPE 287 L D +L ++ + L DLA + + +P Sbjct: 258 LDALAAEDGAALLAIADEMAGRSLSFAGALQDLASLLQKIALAQVVPA 305 >gnl|CDD|180644 PRK06647, PRK06647, DNA polymerase III subunits gamma and tau; Validated. Length = 563 Score = 240 bits (614), Expect = 4e-64 Identities = 110/275 (40%), Positives = 167/275 (60%), Gaps = 4/275 (1%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 + GQ +++TL ++ +S +IA +Y+ SG RG+GKT++AR AR LN PT Sbjct: 18 LEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNG----PTPMPC 73 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 G C++I N +DV+E+D AS+TS+ DVR+I ++I + P S+R+RVYI+DEV MLS Sbjct: 74 GECSSCKSIDNDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSN 133 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 +AFN LLKT+EEPPP++ FIFATTE+ K+P T+ SRCQ F+ +S+ + + K+ E Sbjct: 134 SAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKSRCQHFNFRLLSLEKIYNMLKKVCLE 193 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 + I+++ EA+ IA S GS RD +L DQ ++ + I +R + L + L Sbjct: 194 DQIKYEDEALKWIAYKSTGSVRDAYTLFDQVVSFSDSDITLEQIRSKMGLTGDEFLEKLA 253 Query: 241 GYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEF 275 ++ D +L S + SGV+ L D EF Sbjct: 254 SSILNEDAKELLCVLDSVFLSGVSVEQFLLDCIEF 288 >gnl|CDD|180308 PRK05896, PRK05896, DNA polymerase III subunits gamma and tau; Validated. Length = 605 Score = 239 bits (612), Expect = 7e-64 Identities = 122/325 (37%), Positives = 183/325 (56%), Gaps = 24/325 (7%) Query: 2 IGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLN-YKTAHIDVPTVEFE 60 IGQ+ + K L NA + ++ +Y+ SG RGIGKT+ A+I A+++N D Sbjct: 19 IGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCC----- 73 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 C++I VD+VELDAAS+ +D++R IID I Y P + +++VYI+DE MLST Sbjct: 74 NSCSVCESINTNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLST 133 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 +A+N LLKTLEEPP HV FIFATTE +KIP+T++SRCQR++ +++ +L EL I ++ Sbjct: 134 SAWNALLKTLEEPPKHVVFIFATTEFQKIPLTIISRCQRYNFKKLNNSELQELLKSIAKK 193 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E I+ + A+ IA +DGS RDGLS+LDQ N +I + L D N+ ++L Sbjct: 194 EKIKIEDNAIDKIADLADGSLRDGLSILDQLSTFKNSEIDIEDINKTFGLVDNNKKINLI 253 Query: 241 GYLIKGDI---INVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEA 297 + K DI N++ E G+N DL I + D L+Y + Sbjct: 254 ELIQKNDIEELRNLINEL---ESKGINFEAFCRDL------------INLLIDLLVYQKT 298 Query: 298 ENARALQYSKEVSITFLSRFWQMIL 322 +N L+ + + L+ Q +L Sbjct: 299 KNINLLKKLSKEQLKTLNLEKQKLL 323 >gnl|CDD|184927 PRK14963, PRK14963, DNA polymerase III subunits gamma and tau; Provisional. Length = 504 Score = 239 bits (611), Expect = 9e-64 Identities = 105/274 (38%), Positives = 161/274 (58%), Gaps = 6/274 (2%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 ++GQ+ + + L A + GR+ +Y+ SG RG+GKTTTAR+IA ++N + P Sbjct: 16 VVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNC-SGEDPKPC---- 70 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 G E C A+ RG H DV+E+DAAS+ S++DVR++ +++ P+ +VYI+DE M+S Sbjct: 71 GECESCLAVRRGAHPDVLEIDAASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSK 130 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 +AFN LLKTLEEPP HV FI ATTE K+P T+LSR Q F R++ ++ ++L+ Sbjct: 131 SAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQHFRFRRLTEEEIAGKLRRLLEA 190 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E E +PEA+ ++AR +DG+ RD SLL++ +A + V L L + R+ + Sbjct: 191 EGREAEPEALQLVARLADGAMRDAESLLERLLA-LGTPVTRKQVEEALGLPPQERLRGIA 249 Query: 241 GYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAE 274 L +GD L + Y G ++ L E Sbjct: 250 AALAQGDAAEALSGAAQLYRDGFAARTLVEGLLE 283 >gnl|CDD|184922 PRK14958, PRK14958, DNA polymerase III subunits gamma and tau; Provisional. Length = 509 Score = 228 bits (581), Expect = 2e-60 Identities = 132/345 (38%), Positives = 204/345 (59%), Gaps = 9/345 (2%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 +IGQ P+++ L+NA + +Y+ +GTRG+GKTT +RI+A+ LN + P + E Sbjct: 18 VIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCE 77 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 +C+ I G D+ E+DAAS T ++D RE++D I Y P RF+VY++DEV MLS Sbjct: 78 ----NCREIDEGRFPDLFEVDAASRTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSG 133 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 +FN LLKTLEEPP HVKFI ATT+ K+P+TVLSRC +F L ++ + +L+E Sbjct: 134 HSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKE 193 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E++EF+ A+ ++ARA++GS RD LSLLDQ+IA N K++ + V+ ML + + D+ Sbjct: 194 ENVEFENAALDLLARAANGSVRDALSLLDQSIAYGNGKVLIADVKTMLGTIEPLLLFDIL 253 Query: 241 GYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEAENA 300 L +L + + GV+ S L DL H + I+ +PE L+ +++E Sbjct: 254 EALAAKAGDRLLGCVTRLVEQGVDFSNALADLLSLLHQIAIIQTVPE---ALIENDSEQL 310 Query: 301 RALQYSKEVSITFLSRFWQMILKGISEIEGFSRPMEAVEMVLIRL 345 R Q +K + + F+Q+ L G ++ P EM L+R+ Sbjct: 311 R--QLAKLLDREDVQLFYQIGLIGQRDLAYSPTPQTGFEMTLLRM 353 >gnl|CDD|184935 PRK14971, PRK14971, DNA polymerase III subunits gamma and tau; Provisional. Length = 614 Score = 227 bits (581), Expect = 3e-60 Identities = 106/277 (38%), Positives = 158/277 (57%), Gaps = 7/277 (2%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 ++GQ+ + TL NA + ++A +Y+ G RG+GKTT ARI A+++N + T + E Sbjct: 19 VVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQN-----LTADGE 73 Query: 61 GFG--EHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQML 118 E C A ++ ELDAAS+ S+DD+R +I+Q+ P ++++YI+DEV ML Sbjct: 74 ACNECESCVAFNEQRSYNIHELDAASNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHML 133 Query: 119 STAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKIL 178 S AAFN LKTLEEPP + FI ATTE KI T+LSRCQ FD +RI + D++ + Sbjct: 134 SQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVA 193 Query: 179 QEESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMD 238 +E I +PEA+ +IA+ +DG RD LS+ DQ ++ I SV L + D + Sbjct: 194 SKEGITAEPEALNVIAQKADGGMRDALSIFDQVVSFTGGNITYKSVIENLNILDYDYYFR 253 Query: 239 LFGYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEF 275 L L+ G + + L F + G + S + LA Sbjct: 254 LTDALLAGKVSDSLLLFDEILNKGFDGSHFITGLASH 290 >gnl|CDD|184926 PRK14962, PRK14962, DNA polymerase III subunits gamma and tau; Provisional. Length = 472 Score = 221 bits (566), Expect = 1e-58 Identities = 106/274 (38%), Positives = 158/274 (57%), Gaps = 4/274 (1%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 ++GQ + K + NA K I+ +Y+ +G RG GKTT ARI+A+SLN + P E Sbjct: 16 VVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECR 75 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 C++I G +DV+ELDAAS+ ID++R+I D + Y+P+ +++VYI+DEV ML+ Sbjct: 76 A----CRSIDEGTFMDVIELDAASNRGIDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLTK 131 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 AFN LLKTLEEPP HV F+ ATT + K+P T++SRCQ + IS +I+ ++ + Sbjct: 132 EAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEA 191 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E IE D EA++ IA+ + G RD L++L+Q KI +V L L + D Sbjct: 192 EGIEIDREALSFIAKRASGGLRDALTMLEQVWKFSEGKITLETVHEALGLIPIEVVRDYI 251 Query: 241 GYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAE 274 + GD+ V Y SG + V++ E Sbjct: 252 NAIFNGDVKRVFTVLDDVYYSGKDYEVLIQQAIE 285 >gnl|CDD|184920 PRK14956, PRK14956, DNA polymerase III subunits gamma and tau; Provisional. Length = 484 Score = 215 bits (548), Expect = 2e-56 Identities = 115/300 (38%), Positives = 168/300 (56%), Gaps = 11/300 (3%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 +I Q I L NA KSG+I +Y+ G RG+GKTT ARI+A+ LN + + P E Sbjct: 20 VIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECT 79 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 C I +G DV+E+DAAS+ I+++RE+ D + + P+ +++VYI+DEV ML+ Sbjct: 80 S----CLEITKGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTD 135 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 +FN LLKTLEEPP H+ FI ATTE KIP T+LSRCQ F ++ + L + K+ + Sbjct: 136 QSFNALLKTLEEPPAHIVFILATTEFHKIPETILSRCQDFIFKKVPLSVLQDYSEKLCKI 195 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E++++D E + IA+ DGS RD LS ++QAI + K+ +R M+ + Sbjct: 196 ENVQYDQEGLFWIAKKGDGSVRDMLSFMEQAIVFTDSKLTGVKIRKMIGYHGIEFLTSFI 255 Query: 241 GYLIKGD-IINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEAEN 299 LI D L+ S Y G + L D EFTH + I+ D+L E+ N Sbjct: 256 KSLIDPDNHSKSLEILESLYQEGQDIYKFLWDSIEFTHTLNLIR------DSLADRESVN 309 >gnl|CDD|184916 PRK14952, PRK14952, DNA polymerase III subunits gamma and tau; Provisional. Length = 584 Score = 212 bits (542), Expect = 9e-56 Identities = 122/350 (34%), Positives = 188/350 (53%), Gaps = 9/350 (2%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 ++GQ+ + + L++A +GRI +Y+ SG RG GKT++ARI+ARSLN PT Sbjct: 15 VVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCAQG----PTATPC 70 Query: 61 GFGEHCQAIIRG--NHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQML 118 G E C A+ +DVVELDAASH +DD RE+ D+ +Y P +R+R++I+DE M+ Sbjct: 71 GVCESCVALAPNGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMV 130 Query: 119 STAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKIL 178 +TA FN LLK +EEPP H+ FIFATTE K+ T+ SR + + + L +I Sbjct: 131 TTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPTIRSRTHHYPFRLLPPRTMRALIARIC 190 Query: 179 QEESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRL-MLALADRNRIM 237 ++E + D ++ RA GS RD LS+LDQ +A D VT L +L D I Sbjct: 191 EQEGVVVDDAVYPLVIRAGGGSPRDTLSVLDQLLAGAADTHVTYQRALGLLGATDVALID 250 Query: 238 DLFGYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEA 297 D L D + S D+G +P DL E + ++ +P+ A + Sbjct: 251 DAVDALAADDAAALFGAIESVIDAGHDPRRFATDLLERFRDLIVLQAVPDAAARGVVDAP 310 Query: 298 ENA--RALQYSKEVSITFLSRFWQMILKGISEIEGFSRPMEAVEMVLIRL 345 E+ R + + + + L+R+ +++ G+ E+ G + P +E+V RL Sbjct: 311 EDVLERMREQAARIGLATLTRYAEVVQAGLGEMRGATAPRLLLEVVCARL 360 >gnl|CDD|184934 PRK14970, PRK14970, DNA polymerase III subunits gamma and tau; Provisional. Length = 367 Score = 211 bits (538), Expect = 3e-55 Identities = 124/354 (35%), Positives = 188/354 (53%), Gaps = 33/354 (9%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 ++GQ + TL NA ++ +AQ+ + G RG+GKTT ARI+AR +N D P +F Sbjct: 19 VVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKIN--QPGYDDPNEDFS 76 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 ++ ELDAAS+ S+DD+R +IDQ+ P + ++++YI+DEV MLS+ Sbjct: 77 --------------FNIFELDAASNNSVDDIRNLIDQVRIPPQTGKYKIYIIDEVHMLSS 122 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 AAFN LKTLEEPP H FI ATTE KI T+LSRCQ FD RI+I D+ E I + Sbjct: 123 AAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQIFDFKRITIKDIKEHLAGIAVK 182 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E I+F+ +A+ +IA+ +DG+ RD LS+ D+ + C I +V L + D + +++ Sbjct: 183 EGIKFEDDALHIIAQKADGALRDALSIFDRVVTFCGKNITRQAVTENLNILDYDTYINVT 242 Query: 241 GYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAE-FTHLVTRIKYIPEMADTLLYSEAEN 299 +++ I +L F+ G + + LA F L+ + P L E Sbjct: 243 DLILENKIPELLLAFNEILRKGFDGHHFIAGLASHFRDLM--VSKTPATIALLEVGEQAK 300 Query: 300 ARALQYSKEVSITFLSRFWQMILKGIS-------EIEGFSRPMEAVEMVLIRLA 346 R S++VS +FL L GI + + VE+ L++LA Sbjct: 301 KRYEVQSQKVSQSFL-------LSGIDIANDCDLKYKLSKNQRLLVELALMQLA 347 >gnl|CDD|184918 PRK14954, PRK14954, DNA polymerase III subunits gamma and tau; Provisional. Length = 620 Score = 210 bits (535), Expect = 6e-55 Identities = 111/281 (39%), Positives = 160/281 (56%), Gaps = 11/281 (3%) Query: 4 QKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVP-----TVE 58 Q+ + T+ N+ + R+ Y+ SG RG+GKTT AR+ A+++N + ID P E Sbjct: 21 QEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRM-IDDPVYLQEVTE 79 Query: 59 FEGFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQML 118 G E C+ G +++ E DAAS+ S+DD+R++ + + Y P R+RVYI+DEV ML Sbjct: 80 PCGECESCRDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHML 139 Query: 119 STAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKIL 178 STAAFN LKTLEEPPPH FIFATTE+ KIP T+ SRCQRF+ RI + ++ I Sbjct: 140 STAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQRFNFKRIPLDEIQSQLQMIC 199 Query: 179 QEESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDK-----IVTSSVRLMLALADR 233 + E I+ D +A+ +IAR + GS RD S+LDQ IA I V +L D Sbjct: 200 RAEGIQIDADALQLIARKAQGSMRDAQSILDQVIAFSVGSEAEKVIAYQGVAELLNYIDD 259 Query: 234 NRIMDLFGYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAE 274 + D+ + + D + +L+ D+G + L L E Sbjct: 260 EQFFDVTDAIAENDAVKMLEVARFVIDNGYDEQDFLEKLIE 300 >gnl|CDD|184919 PRK14955, PRK14955, DNA polymerase III subunits gamma and tau; Provisional. Length = 397 Score = 209 bits (534), Expect = 8e-55 Identities = 99/227 (43%), Positives = 140/227 (61%), Gaps = 6/227 (2%) Query: 4 QKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVP-----TVE 58 Q+ + +T+ N+ + GR+ Y+ SG RG+GKTT AR+ A+++N + ID E Sbjct: 21 QEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRM-IDDADYLQEVTE 79 Query: 59 FEGFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQML 118 G E C+ G +++ E DAAS+ S+DD+R + + + Y P R+RVYI+DEV ML Sbjct: 80 PCGECESCRDFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHML 139 Query: 119 STAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKIL 178 S AAFN LKTLEEPPPH FIFATTE+ KIP T+ SRCQRF+ RI + ++ + I Sbjct: 140 SIAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQRFNFKRIPLEEIQQQLQGIC 199 Query: 179 QEESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVR 225 + E I D +A+ +I R + GS RD S+LDQ IA + S+R Sbjct: 200 EAEGISVDADALQLIGRKAQGSMRDAQSILDQVIAFSVESEGEGSIR 246 >gnl|CDD|184921 PRK14957, PRK14957, DNA polymerase III subunits gamma and tau; Provisional. Length = 546 Score = 204 bits (521), Expect = 2e-53 Identities = 106/272 (38%), Positives = 166/272 (61%), Gaps = 4/272 (1%) Query: 3 GQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGF 62 GQ+ + +L +A ++ ++ +Y+ +GTRG+GKTT R++A+ LN KT T E Sbjct: 20 GQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTG----VTAEPCNK 75 Query: 63 GEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAA 122 E+C AI + +D++E+DAAS T +++ +EI+D I Y P R++VY++DEV MLS + Sbjct: 76 CENCVAINNNSFIDLIEIDAASRTGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQS 135 Query: 123 FNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQEES 182 FN LLKTLEEPP +VKFI ATT+ KIP+T+LSRC + L IS D+ + IL +E+ Sbjct: 136 FNALLKTLEEPPEYVKFILATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKEN 195 Query: 183 IEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLFGY 242 I D +++ IA + GS RD LSLLDQAI+ C ++ + ++ ML + D + + Sbjct: 196 INSDEQSLEYIAYHAKGSLRDALSLLDQAISFCGGELKQAQIKQMLGIIDSEEVYSIINA 255 Query: 243 LIKGDIINVLQEFSSQYDSGVNPSVILHDLAE 274 +I D +L + + + +L +AE Sbjct: 256 IIDNDPKAILPAIKNLALTESSADAVLDRIAE 287 >gnl|CDD|181106 PRK07764, PRK07764, DNA polymerase III subunits gamma and tau; Validated. Length = 824 Score = 201 bits (514), Expect = 2e-52 Identities = 88/223 (39%), Positives = 133/223 (59%), Gaps = 6/223 (2%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 +IGQ+ + + L+ A SGRI +Y+ SG RG GKT++ARI+ARSLN PT Sbjct: 17 VIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLN--CVE--GPTSTPC 72 Query: 61 GFGEHCQAIIRGN--HVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQML 118 G + C A+ G +DV E+DAASH +DD RE+ ++ ++ P +R++++I+DE M+ Sbjct: 73 GECDSCVALAPGGPGSLDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMV 132 Query: 119 STAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKIL 178 + FN LLK +EEPP H+KFIFATTE K+ T+ SR + + + +I Sbjct: 133 TPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERIC 192 Query: 179 QEESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVT 221 +E + +P + ++ RA GS RD LS+LDQ +A + VT Sbjct: 193 AQEGVPVEPGVLPLVIRAGGGSVRDSLSVLDQLLAGAGPEGVT 235 >gnl|CDD|152604 pfam12169, DNA_pol3_gamma3, DNA polymerase III subunits gamma and tau domain III. This domain family is found in bacteria, and is approximately 110 amino acids in length. The family is found in association with pfam00004. Domains I-III are shared between the tau and the gamma subunits, while most of the DnaB-binding Domain IV and all of the alpha-interacting Domain V are unique to tau. Length = 143 Score = 170 bits (434), Expect = 4e-43 Identities = 66/141 (46%), Positives = 88/141 (62%) Query: 219 IVTSSVRLMLALADRNRIMDLFGYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHL 278 + + VR ML LADR R++DL +++GD L EF QY +G +P V+L DL E HL Sbjct: 1 VSAAQVRDMLGLADRGRVIDLLEAILEGDAAAALAEFRDQYAAGADPVVVLRDLLELLHL 60 Query: 279 VTRIKYIPEMADTLLYSEAENARALQYSKEVSITFLSRFWQMILKGISEIEGFSRPMEAV 338 +TR+K P+ AD L E E R +K++S LSR WQM+LKGI E++ P +A Sbjct: 61 LTRLKIAPDAADDLSLPEEERERIAALAKKLSPEVLSRLWQMLLKGIEEVKNAPDPRQAA 120 Query: 339 EMVLIRLAHAVQLPSPEEIAR 359 EM L+RLA+A LPSPEE R Sbjct: 121 EMALLRLAYAADLPSPEEALR 141 >gnl|CDD|161993 TIGR00678, holB, DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau. Length = 188 Score = 146 bits (370), Expect = 1e-35 Identities = 61/196 (31%), Positives = 98/196 (50%), Gaps = 13/196 (6%) Query: 9 KTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQA 68 + L A + GR+A +Y+ +G G+GK A +A++L + P G C+ Sbjct: 2 QQLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEP----CGECPSCRL 57 Query: 69 IIRGNHVDV--VELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFNGL 126 I GNH D+ +E + S +D VRE+++ + P + RV I+++ + ++ AA N L Sbjct: 58 IEAGNHPDLHRLEPEGQSIK-VDQVRELVEFLSRTPQESGRRVVIIEDAERMNEAAANAL 116 Query: 127 LKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQEESIEFD 186 LKTLEEPPP+ FI T K+ T+ SRCQ +S L++ L + I Sbjct: 117 LKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQ----WLIRQGIS-- 170 Query: 187 PEAVAMIARASDGSAR 202 EA ++ + GS Sbjct: 171 EEAAELLLALAGGSPG 186 >gnl|CDD|183986 PRK13342, PRK13342, recombination factor protein RarA; Reviewed. Length = 413 Score = 92.5 bits (231), Expect = 2e-19 Identities = 62/249 (24%), Positives = 115/249 (46%), Gaps = 51/249 (20%) Query: 1 MIGQKPMI---KTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTV 57 ++GQ+ ++ K L ++GR++ S +L G G GKTT ARIIA + + Sbjct: 14 VVGQEHLLGPGKPLRRMIEAGRLS-SMILWGPPGTGKTTLARIIAGATDAP--------- 63 Query: 58 EFEGFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQM 117 L A + + + D+RE+I++ + + R + +DE+ Sbjct: 64 -------------------FEALSAVT-SGVKDLREVIEEARQRRSAGRRTILFIDEIHR 103 Query: 118 LSTAAFNGLLKTLEEPPPHVKFIFATTE------IRKIPITVLSRCQRFDLHRISIGDLI 171 + A + LL +E+ + I ATTE + LSR Q F+L +S D+ Sbjct: 104 FNKAQQDALLPHVED--GTITLIGATTENPSFEVNPAL----LSRAQVFELKPLSEEDIE 157 Query: 172 ELFTKILQEES---IEFDPEAVAMIARASDGSARDGLSLLDQAIARC---NDKIVTSSVR 225 +L + L+++ +E D EA+ +AR ++G AR L+LL+ A +++ +++ Sbjct: 158 QLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLELAALGVDSITLELLEEALQ 217 Query: 226 LMLALADRN 234 A D++ Sbjct: 218 KRAARYDKD 226 >gnl|CDD|181214 PRK08058, PRK08058, DNA polymerase III subunit delta'; Validated. Length = 329 Score = 89.6 bits (223), Expect = 1e-18 Identities = 59/204 (28%), Positives = 95/204 (46%), Gaps = 14/204 (6%) Query: 8 IKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQ 67 +K L N+ R++ +Y+ G +G GK TA +A+SL + P +C+ Sbjct: 15 VKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCT----NCK 70 Query: 68 AIIRGNHVDVVEL--DAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFNG 125 I GNH DV + D S D +R + ++ + + +VYI++ ++ +A N Sbjct: 71 RIDSGNHPDVHLVAPDGQS-IKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANS 129 Query: 126 LLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQEESIEF 185 LLK LEEP I T +I T+LSRCQ + + LI+ LQEE I Sbjct: 130 LLKFLEEPSGGTTAILLTENKHQILPTILSRCQVVEFRPLPPESLIQR----LQEEGI-- 183 Query: 186 DPEAVAMIARASDGSARDGLSLLD 209 E++A + S + L+L + Sbjct: 184 -SESLATLLAGLTNSVEEALALSE 206 >gnl|CDD|181175 PRK07940, PRK07940, DNA polymerase III subunit delta'; Validated. Length = 394 Score = 87.7 bits (218), Expect = 4e-18 Identities = 56/210 (26%), Positives = 101/210 (48%), Gaps = 22/210 (10%) Query: 1 MIGQKPMIKTLTNAFKSGR---------IAQSYMLSGTRGIGKTTTARIIARSLNYKTAH 51 ++GQ+ ++ L A ++ R + +++ +G G G++ AR A +L Sbjct: 7 LVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQ--CTD 64 Query: 52 IDVPTVEFEGFGEHCQAIIRGNHVDVVELDAASHTSI--DDVREIIDQIYYKPISARFRV 109 D P G C+ ++ G H DV + A SI D+VRE++ +P + R+R+ Sbjct: 65 PDEPG---CGECRACRTVLAGTHPDVRVV-APEGLSIGVDEVRELVTIAARRPSTGRWRI 120 Query: 110 YIMDEVQMLSTAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGD 169 ++++ L+ A N LLK +EEPPP ++ + T+ SRC+ L S+ Sbjct: 121 VVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEA 180 Query: 170 LIELFTKILQEESIEFDPEAVAMIARASDG 199 + E+ +++ + + DPE ARAS G Sbjct: 181 VAEV---LVRRDGV--DPETARRAARASQG 205 >gnl|CDD|181538 PRK08699, PRK08699, DNA polymerase III subunit delta'; Validated. Length = 325 Score = 86.8 bits (215), Expect = 7e-18 Identities = 51/159 (32%), Positives = 75/159 (47%), Gaps = 15/159 (9%) Query: 19 RIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHID-VPTVEFEGFGEHCQAIIRGNHVDV 77 R +++ +G +GIGKT AR A++L +T P E C +G+H D Sbjct: 19 RRPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMS----CHLFGQGSHPDF 74 Query: 78 VELDAAS----------HTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFNGLL 127 E+ S ID VREIID +Y + RV ++ + ++ A N LL Sbjct: 75 YEITPLSDEPENGRKLLQIKIDAVREIIDNVYLTSVRGGLRVILIHPAESMNLQAANSLL 134 Query: 128 KTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRIS 166 K LEEPPP V F+ + K+ T+ SRC++ L S Sbjct: 135 KVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPS 173 >gnl|CDD|180989 PRK07471, PRK07471, DNA polymerase III subunit delta'; Validated. Length = 365 Score = 86.6 bits (215), Expect = 9e-18 Identities = 57/222 (25%), Positives = 99/222 (44%), Gaps = 31/222 (13%) Query: 10 TLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFG------ 63 L +A++SGR+ ++++ G +GIGK T A +AR L A P +G Sbjct: 30 ALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFL---LAT---PPPGGDGAVPPPTSL 83 Query: 64 ----EH--CQAIIRGNHVDVVELDAA---------SHTSIDDVREIIDQIYYKPISARFR 108 +H + I G H ++ L+ + + ++D+VRE+I +R Sbjct: 84 AIDPDHPVARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWR 143 Query: 109 VYIMDEVQMLSTAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIG 168 V I+D ++ A N LLK LEEPP F+ + ++ T+ SRC++ L ++ Sbjct: 144 VVIVDTADEMNANAANALLKVLEEPPARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPE 203 Query: 169 DLIELFTKILQEESIEFDPEAVAMIARASDGSARDGLSLLDQ 210 D+I+ L + + A +A ++GS L L Sbjct: 204 DVIDA----LAAAGPDLPDDPRAALAALAEGSVGRALRLAGG 241 >gnl|CDD|180959 PRK07399, PRK07399, DNA polymerase III subunit delta'; Validated. Length = 314 Score = 82.6 bits (205), Expect = 2e-16 Identities = 55/223 (24%), Positives = 96/223 (43%), Gaps = 34/223 (15%) Query: 2 IGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEG 61 IGQ I+ LT A K RIA +Y+ +G G+G+ A L + + Sbjct: 7 IGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGL--LSQGSPSKNIR--- 61 Query: 62 FGEHCQAIIRGNHVDVV----------------ELDAAS---HTS----IDDVREIIDQI 98 + + GNH D++ E + A ++ +REI + Sbjct: 62 -----RRLEEGNHPDLLWVEPTYQHQGKLITASEAEEAGLKRKAPPQIRLEQIREIKRFL 116 Query: 99 YYKPISARFRVYIMDEVQMLSTAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQ 158 P+ A +V ++++ + ++ AA N LLKTLEEP I + T++SRCQ Sbjct: 117 SRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGNGT-LILIAPSPESLLPTIVSRCQ 175 Query: 159 RFDLHRISIGDLIELFTKILQEESIEFDPEAVAMIARASDGSA 201 +R+S L ++ ++ EE + + + +A+ S G+A Sbjct: 176 IIPFYRLSDEQLEQVLKRLGDEEILNINFPELLALAQGSPGAA 218 >gnl|CDD|180132 PRK05564, PRK05564, DNA polymerase III subunit delta'; Validated. Length = 313 Score = 80.5 bits (199), Expect = 6e-16 Identities = 51/176 (28%), Positives = 86/176 (48%), Gaps = 23/176 (13%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 +IG + + + N+ R + ++++ G GIGK+ A+ IA + K+ Sbjct: 6 IIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKS----------- 54 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSI--DDVREIIDQIYYKPISARFRVYIMDEVQML 118 R +VD++E + SI DD+R II+++ KP +V I+ + + Sbjct: 55 --------QQR-EYVDIIEFKPINKKSIGVDDIRNIIEEVNKKPYEGDKKVIIIYNSEKM 105 Query: 119 STAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELF 174 + A N LKT+EEPP V I + +I T+ SRCQ + L+R+S + IE F Sbjct: 106 TEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEE-IEKF 160 >gnl|CDD|169667 PRK09112, PRK09112, DNA polymerase III subunit delta'; Validated. Length = 351 Score = 71.2 bits (175), Expect = 4e-13 Identities = 63/267 (23%), Positives = 106/267 (39%), Gaps = 33/267 (12%) Query: 11 LTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFG--EHCQA 68 L A++ G++ + + G GIGK T A +A N+ +H D E + Sbjct: 35 LAQAYREGKLHHALLFEGPEGIGKATLAFHLA---NHILSHPDPAEAP-ETLADPDPASP 90 Query: 69 IIR----GNH---------VDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEV 115 + R G H D + ++D++R + + +R+ I+D Sbjct: 91 VWRQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPA 150 Query: 116 QMLSTAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFT 175 ++ A N +LKTLEEPP FI + ++ T+ SRCQ L + +L + + Sbjct: 151 DDMNRNAANAILKTLEEPPARALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALS 210 Query: 176 KILQEESIEFDPEAVAMIARASDGSARDGLSLLDQA---IARCNDKIVTSSV-------R 225 + S D E + + S GS R L LL+ I D+++ S + Sbjct: 211 HL--GSSQGSDGEITEALLQRSKGSVRKALLLLNYGGLEIIATIDQLLAGSGPDARKAHK 268 Query: 226 LMLALADRNR--IMDLFGYLIKGDIIN 250 L AL+ R D F + I+ Sbjct: 269 LADALSGRESEVQFDFFRDHLLDRIMA 295 >gnl|CDD|180215 PRK05707, PRK05707, DNA polymerase III subunit delta'; Validated. Length = 328 Score = 70.9 bits (174), Expect = 4e-13 Identities = 49/199 (24%), Positives = 83/199 (41%), Gaps = 27/199 (13%) Query: 17 SGRIAQSYMLSGTRGIGKTTTA-RIIARSLNYKTAHIDVPTVEFEGFGEHCQAIIRGNHV 75 GR +Y+L G GIGK A R+ A L G + CQ + G+H Sbjct: 18 RGRHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGAC-----GSCKGCQLLRAGSHP 72 Query: 76 D--VVELDAASHT-SIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFNGLLKTLEE 132 D V+E + A T +D VRE++ + +V +++ + ++ A N LLK+LEE Sbjct: 73 DNFVLEPEEADKTIKVDQVRELVSFVVQTAQLGGRKVVLIEPAEAMNRNAANALLKSLEE 132 Query: 133 PPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQEESIEFDPEAVAM 192 P + + + ++ T+ SRCQ+ EES+++ + Sbjct: 133 PSGDTVLLLISHQPSRLLPTIKSRCQQQ------------ACPLPSNEESLQW------L 174 Query: 193 IARASDGSARDGLSLLDQA 211 + R+ + LL A Sbjct: 175 QQALPESDERERIELLTLA 193 >gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional. Length = 319 Score = 68.6 bits (168), Expect = 2e-12 Identities = 65/269 (24%), Positives = 108/269 (40%), Gaps = 42/269 (15%) Query: 25 MLSGTRGIGKTTTARIIARSL---NYKTAHIDVPTVEFEGFGEHCQAIIRGNHVDVVELD 81 +LSG G GKTT+ +A L NYK A V+EL+ Sbjct: 38 ILSGPPGTGKTTSILALAHELLGPNYKEA--------------------------VLELN 71 Query: 82 AASHTSIDDVREIIDQIYYKPIS---ARFRVYIMDEVQMLSTAAFNGLLKTLEEPPPHVK 138 A+ ID VR I K ++ R ++ I+DE +++ A L +T+E + Sbjct: 72 ASDDRGIDVVRNKIKMFAQKKVTLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTR 131 Query: 139 FIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQEESIEFDPEAVAMIARASD 198 F A KI + SRC R+S +++ K+++ E + + PE + I +D Sbjct: 132 FALACNTSSKIIEPIQSRCAIVRFSRLSDQEILGRLMKVVEAEKVPYVPEGLEAIIFTAD 191 Query: 199 GSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLFGYLIKGDIINVLQEFSSQ 258 G R L+ L QA + +V + + ++ +KG + Sbjct: 192 GDMRQALNNL-QATHSGFGFVNQENVFKVCDQPHPLHVKNIVRNCLKGKFDDACDGLKQL 250 Query: 259 YDSGVNPSVIL---------HDLAEFTHL 278 YD G +P+ I+ +D+ EF L Sbjct: 251 YDLGYSPTDIITTLFRVVKNYDMPEFLKL 279 >gnl|CDD|180779 PRK06964, PRK06964, DNA polymerase III subunit delta'; Validated. Length = 342 Score = 68.2 bits (167), Expect = 3e-12 Identities = 49/181 (27%), Positives = 75/181 (41%), Gaps = 44/181 (24%) Query: 19 RIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQAII------RG 72 R+ + +L G GIGK A+ +A+ L +T D GE C +G Sbjct: 19 RLPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPD---------GEPCGTCAACNWFAQG 69 Query: 73 NHVD--VV-------------------ELDAASHTS--------IDDVREIIDQIYYKPI 103 NH D +V + D + I+ VR ++D Sbjct: 70 NHPDYRIVRPEALAAEAPGAADEAKEADADEGGKKTKAPSKEIKIEQVRALLDFCGVGTH 129 Query: 104 SARFRVYIMDEVQMLSTAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLH 163 RV ++ + L+ AA N LLKTLEEPPP F+ + I ++ T+LSRC++F + Sbjct: 130 RGGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMT 189 Query: 164 R 164 Sbjct: 190 V 190 >gnl|CDD|102059 PRK05917, PRK05917, DNA polymerase III subunit delta'; Validated. Length = 290 Score = 65.6 bits (160), Expect = 2e-11 Identities = 23/71 (32%), Positives = 40/71 (56%) Query: 87 SIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFNGLLKTLEEPPPHVKFIFATTEI 146 SI+ R I QI+ P + +++YI+ E ++ A + LK LE+PP H I + + Sbjct: 76 SIETPRAIKKQIWIHPYESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKP 135 Query: 147 RKIPITVLSRC 157 +++P T+ SR Sbjct: 136 QRLPPTIRSRS 146 >gnl|CDD|180855 PRK07132, PRK07132, DNA polymerase III subunit delta'; Validated. Length = 299 Score = 65.1 bits (159), Expect = 3e-11 Identities = 39/180 (21%), Positives = 73/180 (40%), Gaps = 15/180 (8%) Query: 7 MIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHC 66 IK L N+ +I+ S++L I + Y + + E Sbjct: 4 WIKFLDNSATQNKISHSFLLKSNYNE-------DIDEKILYFLNKFNNLQITNLNEQELP 56 Query: 67 QAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISA-RFRVYIMDEVQMLSTAAFNG 125 II D+ + D S + I+++Y+ + ++ I+ ++ S + N Sbjct: 57 ANII---LFDIFDKD----LSKSEFLSAINKLYFSSFVQSQKKILIIKNIEKTSNSLLNA 109 Query: 126 LLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQEESIEF 185 LLKT+EEPP F+ T I K+ T++SRCQ F++ ++ +E+ + Sbjct: 110 LLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKILAKLLSKNKEKEYNW 169 >gnl|CDD|179026 PRK00440, rfc, replication factor C small subunit; Reviewed. Length = 319 Score = 63.7 bits (156), Expect = 7e-11 Identities = 64/251 (25%), Positives = 107/251 (42%), Gaps = 31/251 (12%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 ++GQ+ +++ L + K + + +G G GKTT A +AR L Sbjct: 19 IVGQEEIVERLKSYVKEKNMPH-LLFAGPPGTGKTTAALALAREL--------------- 62 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQI-YYKPI-SARFRVYIMDEVQML 118 +GE R N +EL+A+ ID +R I + P+ A F++ +DE L Sbjct: 63 -YGEDW----REN---FLELNASDERGIDVIRNKIKEFARTAPVGGAPFKIIFLDEADNL 114 Query: 119 STAAFNGLLKTLEEPPPHVKFIFATTEIRKI--PITVLSRCQRFDLHRISIGDLIELFTK 176 ++ A L +T+E + +FI + KI PI SRC F + + E Sbjct: 115 TSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQ--SRCAVFRFSPLKKEAVAERLRY 172 Query: 177 ILQEESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRI 236 I + E IE +A+ I S+G R ++ L QA A ++ +V + A I Sbjct: 173 IAENEGIEITDDALEAIYYVSEGDMRKAINAL-QAAAATGKEVTEEAVYKITGTARPEEI 231 Query: 237 MDLFGYLIKGD 247 ++ + GD Sbjct: 232 REMIELALNGD 242 >gnl|CDD|180738 PRK06871, PRK06871, DNA polymerase III subunit delta'; Validated. Length = 325 Score = 62.4 bits (152), Expect = 2e-10 Identities = 47/161 (29%), Positives = 72/161 (44%), Gaps = 6/161 (3%) Query: 5 KPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGE 64 +P + +T AF+ G + + G+G R +A+ L +T D P G Sbjct: 8 QPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPC----GQCH 63 Query: 65 HCQAIIRGNHVDVVELDAASHTSI--DDVREIIDQIYYKPISARFRVYIMDEVQMLSTAA 122 C GNH D L+ + I D VREI +++ +V + + L+ AA Sbjct: 64 SCHLFQAGNHPDFHILEPIDNKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAA 123 Query: 123 FNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLH 163 N LLKTLEEP P+ F+ + T+ SRCQ + +H Sbjct: 124 ANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLIH 164 >gnl|CDD|179778 PRK04195, PRK04195, replication factor C large subunit; Provisional. Length = 482 Score = 59.2 bits (144), Expect = 2e-09 Identities = 55/264 (20%), Positives = 106/264 (40%), Gaps = 62/264 (23%) Query: 1 MIGQKPMIKTLT---NAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTV 57 ++G + + L ++ G+ ++ +L G G+GKT+ A +A + Sbjct: 16 VVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYGW---------- 65 Query: 58 EFEGFGEHCQAIIRGNHVDVVELDAASHTSIDDVR--EIIDQI-----YYKPIS-ARFRV 109 +V+EL+A+ D R ++I+++ + AR ++ Sbjct: 66 ------------------EVIELNAS------DQRTADVIERVAGEAATSGSLFGARRKL 101 Query: 110 YIMDEVQMLS-------TAAFNGLLKTLEEPPPHVKFIFATTEIRKIPI-TVLSRCQRFD 161 ++DEV + A L+K ++P I + + + + C + Sbjct: 102 ILLDEVDGIHGNEDRGGARAILELIKKAKQP-----IILTANDPYDPSLRELRNACLMIE 156 Query: 162 LHRISIGDLIELFTKILQEESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVT 221 R+S ++ + +I ++E IE D EA+ IA S G R ++ L QAIA K+ Sbjct: 157 FKRLSTRSIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSAINDL-QAIAEGYGKLTL 215 Query: 222 SSVRLMLALADRNRIMDLFGYLIK 245 V+ L R+R +F L Sbjct: 216 EDVK---TLGRRDREESIFDALDA 236 >gnl|CDD|180394 PRK06090, PRK06090, DNA polymerase III subunit delta'; Validated. Length = 319 Score = 59.0 bits (143), Expect = 2e-09 Identities = 42/165 (25%), Positives = 81/165 (49%), Gaps = 16/165 (9%) Query: 5 KPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSL---NYKTAHIDVPTVEFEG 61 P+ + +GRI + +L G+G + + +R+L NY++ E G Sbjct: 9 VPVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQS--------EACG 60 Query: 62 FGEHCQAIIRGNHVDV----VELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQM 117 F C+ + GNH D+ E + S T ++ +R+ +R+++++ Sbjct: 61 FCHSCELMQSGNHPDLHVIKPEKEGKSIT-VEQIRQCNRLAQESSQLNGYRLFVIEPADA 119 Query: 118 LSTAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDL 162 ++ +A N LLKTLEEP P+ F+ T +++ T++SRCQ++ + Sbjct: 120 MNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVV 164 >gnl|CDD|181190 PRK07993, PRK07993, DNA polymerase III subunit delta'; Validated. Length = 334 Score = 58.9 bits (143), Expect = 2e-09 Identities = 31/95 (32%), Positives = 49/95 (51%), Gaps = 3/95 (3%) Query: 66 CQAIIRGNHVD--VVELDAASHT-SIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAA 122 CQ + G H D + + + +D VRE+ +++Y +V + + +L+ AA Sbjct: 65 CQLMQAGTHPDYYTLTPEKGKSSLGVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAA 124 Query: 123 FNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRC 157 N LLKTLEEPP + F A E ++ T+ SRC Sbjct: 125 ANALLKTLEEPPENTWFFLACREPARLLATLRSRC 159 >gnl|CDD|181551 PRK08769, PRK08769, DNA polymerase III subunit delta'; Validated. Length = 319 Score = 58.4 bits (141), Expect = 3e-09 Identities = 43/158 (27%), Positives = 68/158 (43%), Gaps = 16/158 (10%) Query: 14 AFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQAIIRGN 73 A +GR+ ++ G G+GK A +A H+ + Q I G Sbjct: 19 ALDAGRLGHGLLICGPEGLGKRAVALALA-------EHVLASGPDPAAAQRTRQLIAAGT 71 Query: 74 HVDVVELDAASHTS---------IDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFN 124 H D+ + + + I+ VREI ++ P +V I+D ++ AA N Sbjct: 72 HPDLQLVSFIPNRTGDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACN 131 Query: 125 GLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDL 162 LLKTLEEP P + + ++P T+ SRCQR + Sbjct: 132 ALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEF 169 >gnl|CDD|177379 PHA02544, 44, clamp loader, small subunit; Provisional. Length = 316 Score = 58.1 bits (141), Expect = 3e-09 Identities = 54/291 (18%), Positives = 102/291 (35%), Gaps = 47/291 (16%) Query: 7 MIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHC 66 +T + K GRI + S + G GKTT A+ + + +V V Sbjct: 29 DKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEVGA-----EVLFVN-------- 75 Query: 67 QAIIRGNHVDVVELDAASHTSIDDVREIIDQI-YYKPISARFRVYIMDEVQMLSTAAFNG 125 S ID VR + + ++ +V I+DE L A Sbjct: 76 ----------------GSDCRIDFVRNRLTRFASTVSLTGGGKVIIIDEFDRLGLADAQR 119 Query: 126 LLKTL-EEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTK-------I 177 L++ E + FI I + SRC+ D + + IE+ + I Sbjct: 120 HLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDFGVPTKEEQIEMMKQMIVRCKGI 179 Query: 178 LQEESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIM 237 L+ E +E D + +A + + + R ++ L + + KI +L+ + I Sbjct: 180 LEAEGVEVDMKVLAALVKKNFPDFRRTINELQRYAST--GKIDAG----ILSEVTNSDID 233 Query: 238 DLFGYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEM 288 D+ L K ++ + Y + + + + L + + I + Sbjct: 234 DVVEAL-KAKDFKAVRALAPNYAN--DYASFVGKLYDELYPQVTPPSIIRL 281 >gnl|CDD|183503 PRK12402, PRK12402, replication factor C small subunit 2; Reviewed. Length = 337 Score = 57.7 bits (140), Expect = 4e-09 Identities = 47/233 (20%), Positives = 98/233 (42%), Gaps = 16/233 (6%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSL---NYKTAHIDVPTV 57 ++GQ +++ L+ A S ++ G G GKT R +AR L ++ + Sbjct: 17 ILGQDEVVERLSRAVDSP-NLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVA 75 Query: 58 EFEGFGEHCQAIIRGNH-VDVVELDAASHTSIDDVREIIDQIY-----YKPISARFRVYI 111 +F F + + ++ + D +S + + Y+P+SA ++ + Sbjct: 76 DF--FDQGKKYLVEDPRFAHFLGTDKRIRSS---KIDNFKHVLKEYASYRPLSADYKTIL 130 Query: 112 MDEVQMLSTAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLI 171 +D + L A L + +E+ +FI AT + K+ + SRC + +L+ Sbjct: 131 LDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPPIRSRCLPLFFRAPTDDELV 190 Query: 172 ELFTKILQEESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSV 224 ++ I + E +++D + + +IA + G R + L Q A +I + Sbjct: 191 DVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAILTL-QTAALAAGEITMEAA 242 >gnl|CDD|179744 PRK04132, PRK04132, replication factor C small subunit; Provisional. Length = 846 Score = 55.2 bits (133), Expect = 2e-08 Identities = 48/174 (27%), Positives = 85/174 (48%), Gaps = 3/174 (1%) Query: 78 VELDAASHTSIDDVREIIDQI-YYKPI-SARFRVYIMDEVQMLSTAAFNGLLKTLEEPPP 135 +EL+A+ I+ +RE + + KPI A F++ +DE L+ A L +T+E Sbjct: 600 LELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSS 659 Query: 136 HVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQEESIEFDPEAVAMIAR 195 +V+FI + KI + SRC F + D+ + I + E +E E + I Sbjct: 660 NVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILY 719 Query: 196 ASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLFGYLIKGDII 249 ++G R +++L QA A +DKI +V L+ + A I ++ +KG+ + Sbjct: 720 IAEGDMRRAINIL-QAAAALDDKITDENVFLVASRARPEDIREMMLLALKGNFL 772 >gnl|CDD|183985 PRK13341, PRK13341, recombination factor protein RarA/unknown domain fusion protein; Reviewed. Length = 725 Score = 52.4 bits (126), Expect = 2e-07 Identities = 63/247 (25%), Positives = 101/247 (40%), Gaps = 73/247 (29%) Query: 11 LTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQAII 70 L A K+ R+ S +L G G+GKTT ARIIA N+ AH Sbjct: 43 LRRAIKADRVG-SLILYGPPGVGKTTLARIIA---NHTRAH------------------- 79 Query: 71 RGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFR--------VYIMDEVQMLSTAA 122 L+A + D+R +D+ A+ R + +DEV + A Sbjct: 80 ------FSSLNAVLA-GVKDLRAEVDR-------AKERLERHGKRTILFIDEVHRFNKAQ 125 Query: 123 FNGLLKTLEEPPPHVK-----FIFATTE-----IRKIPITVLSRCQRFDLHRISIGDLIE 172 + LL P V+ I ATTE + K ++SR + F L +S DL + Sbjct: 126 QDALL-------PWVENGTITLIGATTENPYFEVNK---ALVSRSRLFRLKSLSDEDLHQ 175 Query: 173 LFTKILQEE-------SIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVR 225 L + LQ++ ++ +PEA + ++G AR L+ L+ A+ + Sbjct: 176 LLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLLNALELAVESTPPDEDG-LID 234 Query: 226 LMLALAD 232 + LA+A+ Sbjct: 235 ITLAIAE 241 >gnl|CDD|181445 PRK08485, PRK08485, DNA polymerase III subunit delta'; Validated. Length = 206 Score = 47.0 bits (112), Expect = 9e-06 Identities = 21/80 (26%), Positives = 31/80 (38%), Gaps = 4/80 (5%) Query: 88 IDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFNGLLKTLEEPPPHVKFIFATTEIR 147 I+D +E+I + Y I+ A N LLK LEEPP ++ FI Sbjct: 39 IEDAKEVIAEAYIAESEE---KIIVIAAPSYGIEAQNALLKILEEPPKNICFIIVAKSKN 95 Query: 148 KIPITVLSRCQRFDLHRISI 167 + T+ SR + Sbjct: 96 LLLPTIRSRLIIEK-RKQKK 114 >gnl|CDD|128665 smart00382, AAA, ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment. Length = 148 Score = 42.8 bits (100), Expect = 2e-04 Identities = 30/142 (21%), Positives = 48/142 (33%), Gaps = 16/142 (11%) Query: 22 QSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQAIIRGNHVDVVELD 81 + ++ G G GKTT AR +AR L + + +G + + + + V Sbjct: 3 EVILIVGPPGSGKTTLARALARELGPPGGGV----IYIDGEDILEEVLDQLLLIIVGG-K 57 Query: 82 AASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFNGLL-------KTLEEPP 134 AS + +R + + V I+DE+ L A LL L Sbjct: 58 KASGSGELRLRLALALARKL----KPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKS 113 Query: 135 PHVKFIFATTEIRKIPITVLSR 156 + TT K L R Sbjct: 114 EKNLTVILTTNDEKDLGPALLR 135 >gnl|CDD|180274 PRK05818, PRK05818, DNA polymerase III subunit delta'; Validated. Length = 261 Score = 42.1 bits (99), Expect = 2e-04 Identities = 29/99 (29%), Positives = 51/99 (51%), Gaps = 2/99 (2%) Query: 64 EHCQAIIRGNHVDVVEL-DAASHTSIDDVREIIDQIYYKPISAR-FRVYIMDEVQMLSTA 121 E C I+ G + D + D + +D II+++ + + ++YI+ ++ L+ Sbjct: 44 ESCLKILNGKYNDFYLIFDQKNPIKKEDALSIINKLNRPSVESNGKKIYIIYGIEKLNKQ 103 Query: 122 AFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRF 160 + N LLK +EEPP + IF T I T+LSRC ++ Sbjct: 104 SANSLLKLIEEPPKNTYGIFTTRNENNILNTILSRCVQY 142 >gnl|CDD|129721 TIGR00635, ruvB, Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. Length = 305 Score = 41.9 bits (99), Expect = 3e-04 Identities = 55/237 (23%), Positives = 97/237 (40%), Gaps = 32/237 (13%) Query: 2 IGQKPMIKTLTNAFKSGRIAQS----YMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTV 57 IGQ+ + + L ++ ++ Q +L G G+GKTT A IIA + P + Sbjct: 7 IGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPAL 66 Query: 58 EFEG-FGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQ 116 E G + G DV+ +D I + ++++ Y P FR+ I+ Sbjct: 67 EKPGDLAAILTNLEEG---DVLFID-----EIHRLSPAVEELLY-PAMEDFRLDIV---- 113 Query: 117 MLSTAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSR---CQRFDLHRISIGDLIEL 173 + +++ P + ATT + + R R + + ++ +L E+ Sbjct: 114 --IGKGPSA--RSVRLDLPPFTLVGATTRAGMLTSPLRDRFGIILRLEFY--TVEELAEI 167 Query: 174 FTKILQEESIEFDPEAVAMIARASDGSARDGLSLL----DQAIARCNDKIVTSSVRL 226 ++ ++E +PEA IAR S G+ R LL D A R KI+ + L Sbjct: 168 VSRSAGLLNVEIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVR-GQKIINRDIAL 223 >gnl|CDD|180629 PRK06581, PRK06581, DNA polymerase III subunit delta'; Validated. Length = 263 Score = 37.9 bits (88), Expect = 0.004 Identities = 24/107 (22%), Positives = 54/107 (50%), Gaps = 4/107 (3%) Query: 83 ASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFNGLLKTLEEPPPHVKFIFA 142 A + SI+ +R++ D + + ++V I+ ++++ A N LK LE+ P + Sbjct: 66 AKNISIEQIRKLQDFLSKTSAISGYKVAIIYSAELMNLNAANSCLKILEDAPKNSYIFLI 125 Query: 143 TTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQ----EESIEF 185 T+ I T+ SRC + ++ + EL+++ +Q ++++F Sbjct: 126 TSRAASIISTIRSRCFKINVRSSILHAYNELYSQFIQPIADNKTLDF 172 >gnl|CDD|163066 TIGR02903, spore_lon_C, ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC. Length = 615 Score = 34.0 bits (78), Expect = 0.055 Identities = 23/64 (35%), Positives = 32/64 (50%), Gaps = 4/64 (6%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARII---ARSLNYKTAHIDVPTV 57 ++GQ+ IK L S Q +L G G+GKTT AR+ A+ L + D P V Sbjct: 156 IVGQERAIKALLAKVAS-PFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFV 214 Query: 58 EFEG 61 E +G Sbjct: 215 EVDG 218 >gnl|CDD|131948 TIGR02902, spore_lonB, ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis. Length = 531 Score = 34.0 bits (78), Expect = 0.059 Identities = 63/277 (22%), Positives = 96/277 (34%), Gaps = 101/277 (36%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 +IGQ+ IK L A G Q ++ G G+GKT AR++ L + P Sbjct: 67 IIGQEEGIKALKAAL-CGPNPQHVIIYGPPGVGKTAAARLV---LEEAKKNPASP----- 117 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQI---YYKPI-------------- 103 F E VE+DA T+ D R I D + + PI Sbjct: 118 -FKEGAA---------FVEIDAT--TARFDERGIADPLIGSVHDPIYQGAGPLGIAGIPQ 165 Query: 104 -------SARFRVYIMDEVQMLSTAAFNGLLKTLE----------------EPPPHVKFI 140 A V +DE+ L N LLK LE P H+ I Sbjct: 166 PKPGAVTRAHGGVLFIDEIGELHPVQMNKLLKVLEDRKVFLDSAYYNSENPNIPSHIHDI 225 Query: 141 F------------ATTEI-RKIPITVLSRCQRFDLHRISIGDLIELFTKILQEESIE--- 184 F ATT +IP + SRC +E+F + L +E I+ Sbjct: 226 FQNGLPADFRLIGATTRNPEEIPPALRSRC-------------VEIFFRPLLDEEIKEIA 272 Query: 185 ----------FDPEAVAMIARASDGSARDGLSLLDQA 211 + A+ +I + + + R+ ++++ A Sbjct: 273 KNAAEKIGINLEKHALELIVKYAS-NGREAVNIVQLA 308 >gnl|CDD|163076 TIGR02928, TIGR02928, orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other. Length = 365 Score = 33.4 bits (77), Expect = 0.086 Identities = 52/283 (18%), Positives = 97/283 (34%), Gaps = 75/283 (26%) Query: 8 IKTLTNAFKS---GRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVP--TVEFEGF 62 I+ L A + G + + G G GKT + + + L DV TV Sbjct: 24 IEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYV--- 80 Query: 63 GEHCQAIIRGNHVDVVEL-DAASHTSID------DVREIIDQIYYKPISARFR--VYIMD 113 +CQ I+ + +VEL + + + E+ ++ YK ++ R + ++D Sbjct: 81 --NCQ-ILDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRL-YKELNERGDSLIIVLD 136 Query: 114 EVQMLSTAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRIS--IGDLI 171 E+ L + LL L + ++ + V+ IS + Sbjct: 137 EIDYLVGDD-DDLLYQLSR-------ARSNGDLDNAKVGVIG---------ISNDLKFRE 179 Query: 172 ELFTKI---LQEESIEFDP-EA---------------------------VAMIARASDGS 200 L ++ L EE I F P +A A +A G Sbjct: 180 NLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGD 239 Query: 201 ARDGLSLL----DQAIARCNDKIVTSSVRLMLALADRNRIMDL 239 AR + LL + A +++ V +++R+++L Sbjct: 240 ARKAIDLLRVAGEIAEREGAERVTEDHVEKAQEKIEKDRLLEL 282 >gnl|CDD|150511 pfam09849, DUF2076, Uncharacterized protein conserved in bacteria (DUF2076). This domain, found in various hypothetical prokaryotic proteins, has no known function. The domain, however, is found in various periplasmic ligand-binding sensor proteins. Length = 234 Score = 32.7 bits (75), Expect = 0.17 Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 7/58 (12%) Query: 169 DLIE-LFTKILQEESIEFDPEAVAMIAR--ASDGSARDGLS----LLDQAIARCNDKI 219 LI+ LF+++ Q E D EA A+IA A L + + A+ + N +I Sbjct: 7 QLIDGLFSRLKQAEGAPRDAEAEALIAEALRRQPDAPYYLVQTILVQEAALKQANARI 64 >gnl|CDD|180916 PRK07276, PRK07276, DNA polymerase III subunit delta'; Validated. Length = 290 Score = 31.1 bits (71), Expect = 0.46 Identities = 25/96 (26%), Positives = 43/96 (44%), Gaps = 1/96 (1%) Query: 66 CQAIIRGNHVDVVELDAASHT-SIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFN 124 C+ I +G DV ++ D +RE++ + +V+I+ + + A N Sbjct: 63 CRLIEQGEFSDVTVIEPQGQVIKTDTIRELVKNFSQSGYEGKQQVFIIKDADKMHVNAAN 122 Query: 125 GLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRF 160 LLK +EEP + T + K+ T+ SR Q F Sbjct: 123 SLLKVIEEPQSEIYIFLLTNDENKVLPTIKSRTQIF 158 >gnl|CDD|179660 PRK03839, PRK03839, putative kinase; Provisional. Length = 180 Score = 31.2 bits (71), Expect = 0.46 Identities = 10/23 (43%), Positives = 18/23 (78%) Query: 26 LSGTRGIGKTTTARIIARSLNYK 48 ++GT G+GKTT ++++A L Y+ Sbjct: 5 ITGTPGVGKTTVSKLLAEKLGYE 27 >gnl|CDD|162744 TIGR02173, cyt_kin_arch, cytidylate kinase, putative. Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017. Length = 171 Score = 30.5 bits (69), Expect = 0.75 Identities = 12/23 (52%), Positives = 16/23 (69%) Query: 26 LSGTRGIGKTTTARIIARSLNYK 48 +SG G GKTT A+I+A L+ K Sbjct: 5 ISGPPGSGKTTVAKILAEKLSLK 27 >gnl|CDD|179638 PRK03731, aroL, shikimate kinase II; Reviewed. Length = 171 Score = 30.3 bits (69), Expect = 0.86 Identities = 13/32 (40%), Positives = 17/32 (53%) Query: 22 QSYMLSGTRGIGKTTTARIIARSLNYKTAHID 53 Q L G RG GKTT +A++L Y+ D Sbjct: 3 QPLFLVGARGCGKTTVGMALAQALGYRFVDTD 34 >gnl|CDD|177537 PHA03134, PHA03134, thymidine kinase; Provisional. Length = 340 Score = 30.2 bits (68), Expect = 0.96 Identities = 13/26 (50%), Positives = 18/26 (69%), Gaps = 1/26 (3%) Query: 19 RIAQSYMLSGTRGIGKTTTARIIARS 44 RI + Y L G GIGK+TT R++A + Sbjct: 12 RIVRIY-LDGAYGIGKSTTGRVMASA 36 >gnl|CDD|162213 TIGR01128, holA, DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp. Length = 302 Score = 29.9 bits (68), Expect = 1.00 Identities = 39/223 (17%), Positives = 81/223 (36%), Gaps = 29/223 (13%) Query: 126 LLKTLEEPPPHVKFIF----------ATTEIRKIPITVLSRCQRFDLHRISIGDLIELFT 175 L + L PPP + T ++ + + C+ +L Sbjct: 67 LEEYLANPPPDTLLLIEAPKLDKRKKLTKWLKALKNAQIVECKT-----PKEQELPRWIQ 121 Query: 176 KILQEESIEFDPEAVAMIARASDGSARDGLSLLDQAIARC-----NDKIVTSSVRLMLAL 230 L++ + DP+AV ++A +G+ L + Q + + + KI V ++ Sbjct: 122 ARLKKLGLRIDPDAVQLLAELVEGN----LLAIAQELEKLALYAPDGKITLEDVEEAVSD 177 Query: 231 ADRNRIMDLFGYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMAD 290 + R + DL L++G L+ G P ++L L L+ ++K Sbjct: 178 SARFNVFDLTDALLEGKAARALRILKGLLGEGEEPLILLALLQRQLRLLLQLK-RLAQQG 236 Query: 291 TLLYSEAENARALQYSKEVSITFLSRF----WQMILKGISEIE 329 L A Y +++++ L R + L+ ++E + Sbjct: 237 GPLAQLASKLGIWPYRRKLALKALRRLSLAKLEQALQELAEAD 279 >gnl|CDD|179771 PRK04182, PRK04182, cytidylate kinase; Provisional. Length = 180 Score = 29.8 bits (68), Expect = 1.3 Identities = 12/23 (52%), Positives = 15/23 (65%) Query: 26 LSGTRGIGKTTTARIIARSLNYK 48 +SG G GKTT AR++A L K Sbjct: 5 ISGPPGSGKTTVARLLAEKLGLK 27 >gnl|CDD|163057 TIGR02881, spore_V_K, stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group. Length = 261 Score = 29.7 bits (67), Expect = 1.4 Identities = 10/28 (35%), Positives = 15/28 (53%) Query: 16 KSGRIAQSYMLSGTRGIGKTTTARIIAR 43 K+ + + G G GKTT ARI+ + Sbjct: 37 KTSKQVLHMIFKGNPGTGKTTVARILGK 64 >gnl|CDD|162365 TIGR01447, recD, exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model. Length = 586 Score = 29.4 bits (66), Expect = 1.6 Identities = 35/140 (25%), Positives = 54/140 (38%), Gaps = 35/140 (25%) Query: 25 MLSGTRGIGKTTT-ARII----ARSLNYKTAHIDV--PTVEFEGFG---EHCQAIIRGNH 74 +++G G GKTTT AR++ +S I + PT G +R Sbjct: 164 LITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPT------GKAAARLAESLRKAV 217 Query: 75 VDVV---ELDAASHTSIDDVREIIDQIYYKPISARFR----------VYIMDEVQMLSTA 121 ++ L AA + + ++ KP + RFR V ++DE M+ Sbjct: 218 KNLAAAEALIAALPSEAVTIHRLLGI---KPDTKRFRHHERNPLPLDVLVVDEASMVDLP 274 Query: 122 AFNGLLKTLEEPPPHVKFIF 141 LLK L PP+ K I Sbjct: 275 LMAKLLKAL---PPNTKLIL 291 >gnl|CDD|179286 PRK01368, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 454 Score = 29.0 bits (65), Expect = 1.8 Identities = 37/142 (26%), Positives = 62/142 (43%), Gaps = 22/142 (15%) Query: 172 ELFTKILQEESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALA 231 E+F K+ QE+ I+ P +V I +G+S++D I +D + L Sbjct: 220 EIFIKLQQEQRIKLIPFSVTKILE-------NGISVVDDKI---SDNF-FDDISFKLPFN 268 Query: 232 DRNRIMDLFGYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADT 291 +L G K + N+ ++ GV P IL ++ F L R++YI + + Sbjct: 269 K-----NLQG---KHNCENIAASYAVAKIIGVEPKKILESISSFQSLPHRMQYIGSINNI 320 Query: 292 LLY--SEAENA-RALQYSKEVS 310 Y S+A NA A+Q K + Sbjct: 321 SFYNDSKATNAISAVQSIKALD 342 >gnl|CDD|181256 PRK08154, PRK08154, anaerobic benzoate catabolism transcriptional regulator; Reviewed. Length = 309 Score = 29.2 bits (66), Expect = 1.8 Identities = 19/53 (35%), Positives = 25/53 (47%), Gaps = 11/53 (20%) Query: 6 PMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVE 58 M+ A + RIA L G RG GK+T R++A A + VP VE Sbjct: 122 GMLGAGRRAARRRRIA----LIGLRGAGKSTLGRMLA-------ARLGVPFVE 163 >gnl|CDD|178847 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed. Length = 328 Score = 28.9 bits (66), Expect = 1.9 Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 4/49 (8%) Query: 2 IGQKPMIKTLTNAFKSGRIAQSYM----LSGTRGIGKTTTARIIARSLN 46 IGQ+ + + L ++ + + L G G+GKTT A IIA + Sbjct: 28 IGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMG 76 >gnl|CDD|184129 PRK13543, PRK13543, cytochrome c biogenesis protein CcmA; Provisional. Length = 214 Score = 29.0 bits (65), Expect = 2.0 Identities = 10/35 (28%), Positives = 20/35 (57%) Query: 22 QSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPT 56 ++ ++ G G GKTT R++A L+ ++ I + Sbjct: 38 EALLVQGDNGAGKTTLLRVLAGLLHVESGQIQIDG 72 >gnl|CDD|177580 PHA03307, PHA03307, transcriptional regulator ICP4; Provisional. Length = 1352 Score = 29.0 bits (65), Expect = 2.1 Identities = 11/24 (45%), Positives = 13/24 (54%), Gaps = 1/24 (4%) Query: 185 FDPEAVAMIA-RASDGSARDGLSL 207 FDPEA+A IA R R G + Sbjct: 973 FDPEALAEIAARCGGPPPRSGSAF 996 >gnl|CDD|162958 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit clpA. Length = 731 Score = 28.5 bits (64), Expect = 2.6 Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 8/52 (15%) Query: 3 GQKPMIKTLTNAFK--------SGRIAQSYMLSGTRGIGKTTTARIIARSLN 46 GQ I +L ++ K + S++ +G G+GKT A+ +A +L Sbjct: 458 GQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALG 509 >gnl|CDD|147949 pfam06068, TIP49, TIP49 C-terminus. This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the pfam00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities.TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases. Length = 395 Score = 28.4 bits (64), Expect = 3.2 Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 4/53 (7%) Query: 1 MIGQKPMIKT---LTNAFKSGRIA-QSYMLSGTRGIGKTTTARIIARSLNYKT 49 ++GQ+ + + K G+IA ++ +++G G GKT A I++ L T Sbjct: 26 LVGQEKAREAAGVIVEMIKEGKIAGRAVLIAGPPGTGKTALAIAISKELGEDT 78 >gnl|CDD|177850 PLN02199, PLN02199, shikimate kinase. Length = 303 Score = 28.1 bits (62), Expect = 3.3 Identities = 18/65 (27%), Positives = 27/65 (41%), Gaps = 7/65 (10%) Query: 22 QSYMLSGTRGIGKTTTARIIARSLNYKTAHIDV-------PTVEFEGFGEHCQAIIRGNH 74 +S L G G GKTT +++++ L Y D T E F H + RG Sbjct: 103 RSMYLVGMMGSGKTTVGKLMSKVLGYTFFDCDTLIEQAMNGTSVAEIFVHHGENFFRGKE 162 Query: 75 VDVVE 79 D ++ Sbjct: 163 TDALK 167 >gnl|CDD|162028 TIGR00763, lon, ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock. Length = 775 Score = 28.0 bits (63), Expect = 4.0 Identities = 11/23 (47%), Positives = 16/23 (69%) Query: 26 LSGTRGIGKTTTARIIARSLNYK 48 L G G+GKT+ + IA++LN K Sbjct: 352 LVGPPGVGKTSLGKSIAKALNRK 374 >gnl|CDD|178800 PRK00023, cmk, cytidylate kinase; Provisional. Length = 225 Score = 28.2 bits (64), Expect = 4.0 Identities = 8/21 (38%), Positives = 14/21 (66%), Gaps = 2/21 (9%) Query: 33 GKTTTARIIARSLNYKTAHID 53 GK T A+I+A+ L + ++D Sbjct: 16 GKGTVAKILAKKLGFH--YLD 34 >gnl|CDD|130585 TIGR01522, ATPase-IIA2_Ca, golgi membrane calcium-translocating P-type ATPase. The calcium P-type ATPases have been characterized as Type IIA based on a phylogenetic analysis which distinguishes this group from the Type IIB PMCA calcium pump modelled by TIGR01517. A separate analysis divides Type IIA into sub-types, SERCA and PMR1 the former of which is modelled by TIGR01116. Length = 884 Score = 27.9 bits (62), Expect = 5.0 Identities = 15/59 (25%), Positives = 22/59 (37%) Query: 81 DAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFNGLLKTLEEPPPHVKF 139 D + T R++I + + SA RV F GL+ + P P VK Sbjct: 477 DGKTLTLTQQQRDVIQEEAAEMASAGLRVIAFASGPEKGQLTFLGLVGINDPPRPGVKE 535 >gnl|CDD|179731 PRK04053, rps13p, 30S ribosomal protein S13P; Reviewed. Length = 149 Score = 27.5 bits (62), Expect = 5.3 Identities = 13/23 (56%), Positives = 16/23 (69%), Gaps = 1/23 (4%) Query: 24 YMLSGTRGIGKTTTARIIARSLN 46 Y L+G +GIG+ T AR IAR L Sbjct: 25 YALTGIKGIGRRT-ARAIARKLG 46 >gnl|CDD|148130 pfam06330, TRI5, Trichodiene synthase (TRI5). This family consists of several fungal trichodiene synthase proteins (EC:4.2.3.6). TRI5 encodes the enzyme trichodiene synthase, which has been shown to catalyse the first step in the trichothecene pathways of Fusarium and Trichothecium species. Length = 376 Score = 27.5 bits (61), Expect = 5.4 Identities = 11/45 (24%), Positives = 25/45 (55%), Gaps = 2/45 (4%) Query: 203 DGLSLLDQAIARCNDKIVTSSVRLMLALADRN-RIMDLFGYLIKG 246 D ++L DQA+ + + SS +++ +D++ ++MD + G Sbjct: 251 DEITL-DQALEKLTQDTLHSSKQMVAVFSDKDPQVMDTIECFMHG 294 >gnl|CDD|178887 PRK00131, aroK, shikimate kinase; Reviewed. Length = 175 Score = 27.5 bits (62), Expect = 5.8 Identities = 10/24 (41%), Positives = 14/24 (58%), Gaps = 2/24 (8%) Query: 31 GIGKTTTARIIARSLNYKTAHIDV 54 G GK+T R++A+ L Y ID Sbjct: 14 GAGKSTIGRLLAKRLGY--DFIDT 35 >gnl|CDD|183453 PRK12338, PRK12338, hypothetical protein; Provisional. Length = 319 Score = 27.4 bits (61), Expect = 5.8 Identities = 11/24 (45%), Positives = 16/24 (66%) Query: 25 MLSGTRGIGKTTTARIIARSLNYK 48 ++ GIGK+T A +AR+LN K Sbjct: 8 LIGSASGIGKSTIASELARTLNIK 31 >gnl|CDD|184454 PRK14016, PRK14016, cyanophycin synthetase; Provisional. Length = 727 Score = 27.4 bits (62), Expect = 6.1 Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 9/44 (20%) Query: 5 KPMIKTLTNAFKSGRI---AQSYMLSGTRGIGKTTTARIIARSL 45 + ++ L GRI A ++GT G KTTT R+IA L Sbjct: 465 EAIVDMLFPEGDDGRIPIVA----VTGTNG--KTTTTRLIAHIL 502 >gnl|CDD|132313 TIGR03269, met_CoM_red_A2, methyl coenzyme M reductase system, component A2. The enzyme that catalyzes the final step in methanogenesis, methyl coenzyme M reductase, contains alpha, beta, and gamma chains. In older literature, the complex of alpha, beta, and gamma chains was termed component C, while this single chain protein was termed methyl coenzyme M reductase system component A2. Length = 520 Score = 27.5 bits (61), Expect = 6.1 Identities = 10/19 (52%), Positives = 14/19 (73%) Query: 24 YMLSGTRGIGKTTTARIIA 42 + + GT G GKTT ++IIA Sbjct: 313 FGIVGTSGAGKTTLSKIIA 331 >gnl|CDD|181235 PRK08118, PRK08118, topology modulation protein; Reviewed. Length = 167 Score = 27.3 bits (61), Expect = 7.0 Identities = 12/29 (41%), Positives = 17/29 (58%) Query: 25 MLSGTRGIGKTTTARIIARSLNYKTAHID 53 +L G+ G GK+T AR + LN H+D Sbjct: 5 ILIGSGGSGKSTLARQLGEKLNIPVHHLD 33 >gnl|CDD|177581 PHA03311, PHA03311, helicase-primase subunit BBLF4; Provisional. Length = 828 Score = 27.2 bits (61), Expect = 7.8 Identities = 29/117 (24%), Positives = 50/117 (42%), Gaps = 43/117 (36%) Query: 23 SYMLSGTRGIGKTT---------------TARIIARSL-----NYKTAHIDVPTVEFEGF 62 Y+++GT G GK+T R+ A++L +A+I T+ F+ F Sbjct: 73 VYLITGTAGAGKSTSIQTLNENLDCVITGATRVAAQNLSAKLSRATSAYI--NTI-FQEF 129 Query: 63 GEHCQAIIRGNHVDVVE-----LDAASHTSIDDV--REIIDQIYYKP----ISARFR 108 G + NHV + A++ SI+++ R++ YY P I+ RF Sbjct: 130 G------FKSNHVQAQLRKYQYVCASTPPSIEELQKRDL---SYYWPVLSDITRRFL 177 >gnl|CDD|179118 PRK00771, PRK00771, signal recognition particle protein Srp54; Provisional. Length = 437 Score = 27.1 bits (61), Expect = 8.4 Identities = 12/19 (63%), Positives = 14/19 (73%) Query: 25 MLSGTRGIGKTTTARIIAR 43 ML G +G GKTTTA +AR Sbjct: 99 MLVGLQGSGKTTTAAKLAR 117 >gnl|CDD|151027 pfam10453, NUFIP1, Nuclear fragile X mental retardation-interacting protein 1 (NUFIP1). Proteins in this family have been implicated in the assembly of the large subunit of the ribosome and in telomere maintenance. Some proteins in this family contain a CCCH zinc finger. This family contains a protein called human fragile X mental retardation-interacting protein 1, which is known to bind RNA and is phosphorylated upon DNA damage. Length = 57 Score = 26.9 bits (60), Expect = 8.4 Identities = 11/20 (55%), Positives = 17/20 (85%), Gaps = 1/20 (5%) Query: 349 VQLPSPEEIARYIVEEKKKK 368 ++L +PEEIA++I EE+KK Sbjct: 16 IKLQTPEEIAKWI-EERKKN 34 >gnl|CDD|140236 PTZ00209, PTZ00209, retrotransposon hot spot protein; Provisional. Length = 693 Score = 26.9 bits (59), Expect = 9.6 Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 1/39 (2%) Query: 305 YSKEVSITFLSRFWQMILKGISEIEGFSRPMEAVEMVLI 343 Y KE S++ L F I + S+ + FSR M A EM+ + Sbjct: 582 YRKEASVSELQEFMTNIARYFSDWDTFSRNM-AWEMIYV 619 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.322 0.137 0.381 Gapped Lambda K H 0.267 0.0728 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 6,114,118 Number of extensions: 409193 Number of successful extensions: 1284 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1203 Number of HSP's successfully gapped: 136 Length of query: 369 Length of database: 5,994,473 Length adjustment: 95 Effective length of query: 274 Effective length of database: 3,941,713 Effective search space: 1080029362 Effective search space used: 1080029362 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 58 (26.1 bits)