RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780217|ref|YP_003064630.1| DNA polymerase III subunit delta' [Candidatus Liberibacter asiaticus str. psy62] (347 letters) >gnl|CDD|169667 PRK09112, PRK09112, DNA polymerase III subunit delta'; Validated. Length = 351 Score = 348 bits (894), Expect = 2e-96 Identities = 142/333 (42%), Positives = 210/333 (63%), Gaps = 4/333 (1%) Query: 2 IDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQN 61 +D P N RLFGHE+ E FL+Q Y G++HHALLFEG +GIGKATL F A H+L + Sbjct: 13 LDGVPSPSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSH 72 Query: 62 PDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYF 121 PD ++AP + +PDP SP +Q+A A + L+++ + KTGK++T ITVDEIRR+ +F Sbjct: 73 PDPAEAPETLADPDPASPVWRQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHF 132 Query: 122 LSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRC 181 LS T+ G WR+++IDP D MNRNAANA+LK+LEEPP + LFILISH+S +L TIRSRC Sbjct: 133 LSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILISHSSGRLLPTIRSRC 192 Query: 182 LSIKFNSLSENNLYKALEQLKIMG--WDSKRDFVKIAAYGSVARAIKILHYDCDKIISSY 239 I L ++ L KAL L + + + GSV +A+ +L+Y +II++ Sbjct: 193 QPISLKPLDDDELKKALSHLGSSQGSDGEITEALLQRSKGSVRKALLLLNYGGLEIIATI 252 Query: 240 IDLIHIPRQEYALQKMQQIADELLSQDQKIAFDFLIEFILKEICKSAKAAALSGQLEEAD 299 L+ +K ++AD L ++ ++ FDF + +L I A+ AA +G L A+ Sbjct: 253 DQLLA--GSGPDARKAHKLADALSGRESEVQFDFFRDHLLDRIMAEARRAAEAGDLALAE 310 Query: 300 QIAQIYFSLVKRVHAFSMYNLDRRQMIFHLLSK 332 ++A+++ +++ + YNLDR+Q + LL K Sbjct: 311 RLARLWSEIIEEIVEAEAYNLDRKQTVISLLEK 343 >gnl|CDD|180989 PRK07471, PRK07471, DNA polymerase III subunit delta'; Validated. Length = 365 Score = 229 bits (586), Expect = 8e-61 Identities = 119/357 (33%), Positives = 171/357 (47%), Gaps = 32/357 (8%) Query: 5 AFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNP-- 62 A P LFGH E L Y SGR+HHA L G QGIGKATL +R A +L P Sbjct: 12 APHPRETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPP 71 Query: 63 --DFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRY 120 D + P DP P +++A+ A L L S N K + RTVITVDE+R + Sbjct: 72 GGDGAVPPPTSLAIDPDHPVARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELIS 131 Query: 121 FLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSR 180 F LTA G WRV+++D D MN NAANALLK LEEPP + LF+L+SHA +L TIRSR Sbjct: 132 FFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARSLFLLVSHAPARLLPTIRSR 191 Query: 181 CLSIKFNSLSENNLYKALEQLKIMGWDSKRDFVKIAAYGSVARAIKILHYD----CDKII 236 C ++ L+ ++ AL D R + A GSV RA+++ D ++ Sbjct: 192 CRKLRLRPLAPEDVIDALAAAGPDLPDDPRAALAALAEGSVGRALRLAGGDGLALYRRLT 251 Query: 237 SSYIDLIHIPRQE-YALQKMQQIADELLSQDQKIAFDFLIEFILKEICKSAKAAALSGQL 295 + L + R+ +AL AD +D+ F ++ + + + + A+A A Sbjct: 252 ALLDTLPRLDRRALHAL------ADAAAGRDRAARFALFLDLLDRWLARLARAGARGAPP 305 Query: 296 EE-----------------ADQIAQIYFSLVKRVHAFSMYNLDRRQMIFHLLSKARE 335 E + A+++ + +R NLDR+ ++ + E Sbjct: 306 PEAVPGEAALLARLAPDARLRRWAEVWEKIGRRARRTEAVNLDRKALVLDVFGLLAE 362 >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 = 155 bits (393), Expect = 2e-38 Identities = 64/180 (35%), Positives = 88/180 (48%), Gaps = 16/180 (8%) Query: 22 KFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDP-CSPF 80 + L + GR+ HA LF G +G+GK L A +L P C P C Sbjct: 2 QQLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEP---CGECPSC--- 55 Query: 81 VKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVD 140 + + + D L P+ I VD++R + FLS T RV++I+ + Sbjct: 56 -RLIEAGNHPDLHRLE----PEGQS----IKVDQVRELVEFLSRTPQESGRRVVIIEDAE 106 Query: 141 GMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALEQ 200 MN AANALLK+LEEPP LFILI+ + +L TIRSRC + F LSE L + L + Sbjct: 107 RMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIR 166 >gnl|CDD|180215 PRK05707, PRK05707, DNA polymerase III subunit delta'; Validated. Length = 328 Score = 112 bits (283), Expect = 9e-26 Identities = 58/157 (36%), Positives = 77/157 (49%), Gaps = 22/157 (14%) Query: 30 SGRMHHALLFEGEQGIGKATLGFRYAGHVL-QNPDFSKAPVRMCNPDPC----SPFVKQM 84 GR HA L G GIGK L R A +L + P C + + Sbjct: 18 RGRHPHAYLLHGPAGIGKRALAERLAAALLCEAPQ---------GGGACGSCKGCQLLRA 68 Query: 85 ASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNR 144 SH D + L P+ I VD++R + F+ TA G +V++I+P + MNR Sbjct: 69 GSHP--DN----FVLEPEEAD--KTIKVDQVRELVSFVVQTAQLGGRKVVLIEPAEAMNR 120 Query: 145 NAANALLKSLEEPPQKVLFILISHASPTILSTIRSRC 181 NAANALLKSLEEP + +LISH +L TI+SRC Sbjct: 121 NAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRC 157 >gnl|CDD|181538 PRK08699, PRK08699, DNA polymerase III subunit delta'; Validated. Length = 325 Score = 104 bits (261), Expect = 3e-23 Identities = 61/153 (39%), Positives = 84/153 (54%), Gaps = 10/153 (6%) Query: 32 RMHHALLFEGEQGIGKATLGFRYAGHVL--QNPDFSKAPVRMCNPDPCSPFVKQMASHAL 89 R +A LF G++GIGK R+A L + P P C C F SH Sbjct: 19 RRPNAWLFAGKKGIGKTAFA-RFAAQALLCETPAPGHKPCGEC--MSCHLF--GQGSHP- 72 Query: 90 HDFLYLS-YSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAAN 148 DF ++ S P+ G+ I +D +R I + LT+ G RVI+I P + MN AAN Sbjct: 73 -DFYEITPLSDEPENGRKLLQIKIDAVREIIDNVYLTSVRGGLRVILIHPAESMNLQAAN 131 Query: 149 ALLKSLEEPPQKVLFILISHASPTILSTIRSRC 181 +LLK LEEPP +V+F+L+SHA+ +L TI+SRC Sbjct: 132 SLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRC 164 >gnl|CDD|181551 PRK08769, PRK08769, DNA polymerase III subunit delta'; Validated. Length = 319 Score = 95.4 bits (237), Expect = 2e-20 Identities = 58/159 (36%), Positives = 85/159 (53%), Gaps = 13/159 (8%) Query: 30 SGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPC-SPFVKQMASHA 88 +GR+ H LL G +G+GK + A HVL + PDP + +Q+ + Sbjct: 22 AGRLGHGLLICGPEGLGKRAVALALAEHVLAS-----------GPDPAAAQRTRQLIAAG 70 Query: 89 LHDFLYLSYSLNPKTG-KWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAA 147 H L L + +TG K RT I ++++R I L+LT G +V+++DP D +NR A Sbjct: 71 THPDLQLVSFIPNRTGDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAAC 130 Query: 148 NALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKF 186 NALLK+LEEP LIS + +TIRSRC ++F Sbjct: 131 NALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEF 169 >gnl|CDD|184925 PRK14961, PRK14961, DNA polymerase III subunits gamma and tau; Provisional. Length = 363 Score = 90.3 bits (224), Expect = 7e-19 Identities = 75/277 (27%), Positives = 127/277 (45%), Gaps = 34/277 (12%) Query: 4 RAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPD 63 R + P Y + + G + I +S GR+HHA L G +G+GK T+ A + Sbjct: 8 RKWRPQYFRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNG 67 Query: 64 FSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLS 123 + P R C K++ D + + RT V+E+R I + Sbjct: 68 ITSNPCRKCI------ICKEIEKGLCLDLIEID-------AASRT--KVEEMREILDNIY 112 Query: 124 LTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLS 183 + + ++V +ID V ++R++ NALLK+LEEPPQ + FIL + I TI SRCL Sbjct: 113 YSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSRCLQ 172 Query: 184 IKFNSLSENNLYKALEQ-LKIMGWDSKRDFVKIAAY---GSVARAIKILHYDCD------ 233 K +SE ++ L+ L D+ +K+ AY GS+ A+ +L + + Sbjct: 173 FKLKIISEEKIFNFLKYILIKESIDTDEYALKLIAYHAHGSMRDALNLLEHAINLGKGNI 232 Query: 234 --KIISSYIDLIHIPRQEYALQKMQQIADELLSQDQK 268 K ++ D++ + ++ + + D LL +D K Sbjct: 233 NIKNVT---DMLGLLNEKQSF----LLTDALLKKDSK 262 >gnl|CDD|180394 PRK06090, PRK06090, DNA polymerase III subunit delta'; Validated. Length = 319 Score = 84.9 bits (210), Expect = 3e-17 Identities = 49/153 (32%), Positives = 80/153 (52%), Gaps = 15/153 (9%) Query: 30 SGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHAL 89 +GR+ ALL + ++G+G +L ++ L ++ C+ C + M S Sbjct: 21 AGRIPGALLLQSDEGLGVESLVELFS-RALLCQNYQSEACGFCHS--C----ELMQSGNH 73 Query: 90 HDFLYLSYSLNP-KTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAAN 148 D + + P K GK ITV++IR+ ++ +R+ +I+P D MN +A+N Sbjct: 74 PDL----HVIKPEKEGK---SITVEQIRQCNRLAQESSQLNGYRLFVIEPADAMNESASN 126 Query: 149 ALLKSLEEPPQKVLFILISHASPTILSTIRSRC 181 ALLK+LEEP LF+L++H +L TI SRC Sbjct: 127 ALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRC 159 >gnl|CDD|180738 PRK06871, PRK06871, DNA polymerase III subunit delta'; Validated. Length = 325 Score = 84.8 bits (210), Expect = 3e-17 Identities = 54/159 (33%), Positives = 78/159 (49%), Gaps = 15/159 (9%) Query: 24 LSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL-QNPDFSKAPVRMCNPDPCSPFVK 82 ++Q + G HHALLF+ + G+G L A ++ Q P + P C+ S + Sbjct: 14 ITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQ-PCGQCH----SCHLF 68 Query: 83 QMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGM 142 Q +H DF + L P K I VD++R I +S A G +V+ I + + Sbjct: 69 QAGNHP--DF----HILEPIDNK---DIGVDQVREINEKVSQHAQQGGNKVVYIQGAERL 119 Query: 143 NRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRC 181 AANALLK+LEEP F+L + S +L TI SRC Sbjct: 120 TEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRC 158 >gnl|CDD|184926 PRK14962, PRK14962, DNA polymerase III subunits gamma and tau; Provisional. Length = 472 Score = 83.3 bits (206), Expect = 9e-17 Identities = 56/198 (28%), Positives = 91/198 (45%), Gaps = 19/198 (9%) Query: 4 RAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL--QN 61 R + P + G + ++K + + HA +F G +G GK T+ R L +N Sbjct: 6 RKYRPKTFSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVA-RILAKSLNCEN 64 Query: 62 PDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYF 121 + P C C + + D + L + N +DEIR+IR Sbjct: 65 RKGVE-PCNECRA--CRSIDE--GTFM--DVIELDAASNRG---------IDEIRKIRDA 108 Query: 122 LSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRC 181 + G ++V +ID V + + A NALLK+LEEPP V+F+L + + TI SRC Sbjct: 109 VGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIISRC 168 Query: 182 LSIKFNSLSENNLYKALE 199 I+F ++S+ + K L+ Sbjct: 169 QVIEFRNISDELIIKRLQ 186 >gnl|CDD|184927 PRK14963, PRK14963, DNA polymerase III subunits gamma and tau; Provisional. Length = 504 Score = 83.0 bits (205), Expect = 1e-16 Identities = 58/205 (28%), Positives = 93/205 (45%), Gaps = 26/205 (12%) Query: 2 IDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHV-LQ 60 + + P+ + G E +++ L GR+ HA LF G +G+GK T A V Sbjct: 4 LYQRARPITFDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCS 63 Query: 61 NPDFSKAPVRMCNPDPC----SPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIR 116 D P PC S + +H D L + + N +V+++R Sbjct: 64 GED----------PKPCGECESCLAVRRGAHP--DVLEIDAASNN---------SVEDVR 102 Query: 117 RIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILST 176 +R + L G +V ++D M+++A NALLK+LEEPP+ V+FIL + + T Sbjct: 103 DLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPT 162 Query: 177 IRSRCLSIKFNSLSENNLYKALEQL 201 I SR +F L+E + L +L Sbjct: 163 ILSRTQHFRFRRLTEEEIAGKLRRL 187 >gnl|CDD|180959 PRK07399, PRK07399, DNA polymerase III subunit delta'; Validated. Length = 314 Score = 79.6 bits (197), Expect = 1e-15 Identities = 68/273 (24%), Positives = 110/273 (40%), Gaps = 60/273 (21%) Query: 12 QRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRM 71 L G + L+ R+ A LF G +G+G+ + +L Sbjct: 4 ANLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLL------------ 51 Query: 72 CNPDPCSPFVKQMASHALH-DFLYL--SYSLNPK----------TGKWRTV--ITVDEIR 116 + S +++ H D L++ +Y K K + I +++IR Sbjct: 52 -SQGSPSKNIRRRLEEGNHPDLLWVEPTYQHQGKLITASEAEEAGLKRKAPPQIRLEQIR 110 Query: 117 RIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILST 176 I+ FLS +V++I+ + MN AANALLK+LEEP ILI+ + ++L T Sbjct: 111 EIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGNG-TLILIAPSPESLLPT 169 Query: 177 IRSRCLSIKFNSLSENNLYKALEQLKIMGWDSKRDFVK---IA-AYGSVARAIKILHYDC 232 I SRC I F LS+ L + L++L G + + +A A GS AI Sbjct: 170 IVSRCQIIPFYRLSDEQLEQVLKRL---GDEEILNINFPELLALAQGSPGAAIA------ 220 Query: 233 DKIISSYIDLIHIPRQEYALQKMQQIADELLSQ 265 ++++Q I ELL + Sbjct: 221 ------------------NIEQLQSIPPELLQK 235 >gnl|CDD|184923 PRK14959, PRK14959, DNA polymerase III subunits gamma and tau; Provisional. Length = 624 Score = 77.8 bits (191), Expect = 4e-15 Identities = 53/181 (29%), Positives = 81/181 (44%), Gaps = 19/181 (10%) Query: 16 GHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPV-RMCNP 74 G E ++ LS+ R+ A LF G +G+GK T+ +A + + AP CN Sbjct: 20 GQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKAL----NCETAPTGEPCNT 75 Query: 75 -DPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRV 133 + C H D + + + N +D+ +R++ + G ++V Sbjct: 76 CEQCRKVT--QGMHV--DVVEIDGASNRG---------IDDAKRLKEAIGYAPMEGRYKV 122 Query: 134 IMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSENN 193 +ID + R A NALLK+LEEPP +V F+L + TI SRC F LSE Sbjct: 123 FIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSRCQHFTFTRLSEAG 182 Query: 194 L 194 L Sbjct: 183 L 183 >gnl|CDD|184914 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau; Provisional. Length = 585 Score = 77.5 bits (191), Expect = 4e-15 Identities = 68/267 (25%), Positives = 119/267 (44%), Gaps = 29/267 (10%) Query: 14 LFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHV-LQNPDFSKAPVRMC 72 L G E + + L GR+ HA LF G +G+GK + A V D P C Sbjct: 18 LVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTC 77 Query: 73 NPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWR 132 + +A + D + + + + T VD+ R I + ++ Sbjct: 78 ------EMCRAIAEGSAVDVIEMDAASH--TS-------VDDAREIIERVQFRPALARYK 122 Query: 133 VIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSEN 192 V +ID V ++ A NALLK+LEEPP +FIL + + +TI SRC F+ S Sbjct: 123 VYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATILSRCQRFDFHRHSVA 182 Query: 193 NLYKALEQLKIM-GWDSKRDFVKI---AAYGSVARAIKILHYDCDKIISSYIDLIHIPRQ 248 ++ L ++ G + + ++ AA GS+ A +L ++ ++Y I + + Sbjct: 183 DMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAENLL----QQLATTYGGEISLSQV 238 Query: 249 EYAL-----QKMQQIADELLSQDQKIA 270 + L ++++ +A+ LL++D K A Sbjct: 239 QSLLGISGDEEVKALAEALLAKDLKAA 265 >gnl|CDD|180779 PRK06964, PRK06964, DNA polymerase III subunit delta'; Validated. Length = 342 Score = 77.1 bits (190), Expect = 5e-15 Identities = 50/169 (29%), Positives = 77/169 (45%), Gaps = 23/169 (13%) Query: 32 RMHHALLFEGEQGIGKATLGFRYA-GHVLQNPDFSKAPVRMCNPDPCSPFVKQMASH--- 87 R+ HALL G+ GIGK A G + + P P C C+ F + +H Sbjct: 19 RLPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDGEPCGTCAA--CNWFAQ--GNHPDY 74 Query: 88 ------ALHDFLYLSYSLNPKTG------KWRT---VITVDEIRRIRYFLSLTANTGYWR 132 AL + + K + I ++++R + F + + G R Sbjct: 75 RIVRPEALAAEAPGAADEAKEADADEGGKKTKAPSKEIKIEQVRALLDFCGVGTHRGGAR 134 Query: 133 VIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRC 181 V+++ P + +N AANALLK+LEEPP +F+L+S +L TI SRC Sbjct: 135 VVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRC 183 >gnl|CDD|184917 PRK14953, PRK14953, DNA polymerase III subunits gamma and tau; Provisional. Length = 486 Score = 76.0 bits (187), Expect = 1e-14 Identities = 57/208 (27%), Positives = 92/208 (44%), Gaps = 27/208 (12%) Query: 4 RAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQ--N 61 R + P + + + G E + + L R+ HA +F G +G GK T+ R VL N Sbjct: 8 RKYRPKFFKEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIA-RILAKVLNCLN 66 Query: 62 PDFSKAPVRMCNPDPCS--PFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIR 119 P +PC ++ + D + + + N +D+IR +R Sbjct: 67 PQ---------EGEPCGKCENCVEIDKGSFPDLIEIDAASNRG---------IDDIRALR 108 Query: 120 YFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRS 179 +S T G ++V +ID + + A NALLK+LEEPP + +FIL + I TI S Sbjct: 109 DAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTILS 168 Query: 180 RCLSIKFNSLSENN----LYKALEQLKI 203 RC F+ ++ L + + KI Sbjct: 169 RCQRFIFSKPTKEQIKEYLKRICNEEKI 196 >gnl|CDD|184921 PRK14957, PRK14957, DNA polymerase III subunits gamma and tau; Provisional. Length = 546 Score = 75.1 bits (184), Expect = 2e-14 Identities = 75/285 (26%), Positives = 137/285 (48%), Gaps = 38/285 (13%) Query: 32 RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHD 91 ++HHA LF G +G+GK TLG A + + P C + C + +++ D Sbjct: 36 KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKC--ENCV----AINNNSFID 89 Query: 92 FLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALL 151 + + + +TG V+E + I + + G ++V +ID V +++ + NALL Sbjct: 90 LIEIDAA--SRTG-------VEETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALL 140 Query: 152 KSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALEQLKIM------- 204 K+LEEPP+ V FIL + I TI SRC+ + +S+ ++ +QLKI+ Sbjct: 141 KTLEEPPEYVKFILATTDYHKIPVTILSRCIQLHLKHISQADIK---DQLKIILAKENIN 197 Query: 205 GWDSKRDFVKIAAYGSVARAIKILHYDCDKIISSYIDLIHIPRQEYALQKMQQIADELLS 264 + +++ A GS+ A+ +L D+ IS E +++Q+ + S Sbjct: 198 SDEQSLEYIAYHAKGSLRDALSLL----DQAIS-------FCGGELKQAQIKQMLGIIDS 246 Query: 265 QDQKIAFDFLIEFILKEICKSAKAAALSGQLEEA--DQIAQIYFS 307 ++ + +I+ K I + K AL+ +A D+IA+I+F+ Sbjct: 247 EEVYSIINAIIDNDPKAILPAIKNLALTESSADAVLDRIAEIWFA 291 >gnl|CDD|181175 PRK07940, PRK07940, DNA polymerase III subunit delta'; Validated. Length = 394 Score = 74.9 bits (185), Expect = 3e-14 Identities = 50/154 (32%), Positives = 76/154 (49%), Gaps = 19/154 (12%) Query: 30 SGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMA-SHA 88 M HA LF G G G++ +A LQ D + C C +A +H Sbjct: 32 GSGMTHAWLFTGPPGSGRSVAARAFAA-ALQCTDPDEPGCGEC--RACR---TVLAGTHP 85 Query: 89 LHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAAN 148 D ++ P+ I VDE+R + + +TG WR+++I+ D + AAN Sbjct: 86 --DVRVVA----PE----GLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAAN 135 Query: 149 ALLKSLEEPPQKVLFILISHASPT-ILSTIRSRC 181 ALLK++EEPP + +++L + SP +L TIRSRC Sbjct: 136 ALLKAVEEPPPRTVWLLCA-PSPEDVLPTIRSRC 168 >gnl|CDD|169554 PRK08691, PRK08691, DNA polymerase III subunits gamma and tau; Validated. Length = 709 Score = 74.4 bits (182), Expect = 4e-14 Identities = 65/229 (28%), Positives = 103/229 (44%), Gaps = 19/229 (8%) Query: 4 RAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPD 63 R + P L G E + K L GR+HHA L G +G+GK T+ A + Sbjct: 8 RKWRPKTFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENA 67 Query: 64 FSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLS 123 P +C C+ Q+ + D L + + N TG +D IR + Sbjct: 68 QHGEPCGVC--QSCT----QIDAGRYVDLLEIDAASN--TG-------IDNIREVLENAQ 112 Query: 124 LTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLS 183 G ++V +ID V ++++A NA+LK+LEEPP+ V FIL + + T+ SRCL Sbjct: 113 YAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRCLQ 172 Query: 184 IKFNSLS----ENNLYKALEQLKIMGWDSKRDFVKIAAYGSVARAIKIL 228 +++ ++L L+ KI + AA GS+ A+ +L Sbjct: 173 FVLRNMTAQQVADHLAHVLDSEKIAYEPPALQLLGRAAAGSMRDALSLL 221 >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 = 73.0 bits (180), Expect = 1e-13 Identities = 61/198 (30%), Positives = 96/198 (48%), Gaps = 27/198 (13%) Query: 14 LFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLG--FRYAGHVLQNPDFSKAPVRM 71 + G E I + L +GR+ HA LF G +G GK ++ F A + PD Sbjct: 16 VIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPD-------- 67 Query: 72 CNPDPCS--PFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTG 129 +PC+ K++ S + D + + + N G VD+IR I + ++G Sbjct: 68 --GEPCNECESCKEINSGSSLDVIEIDAASN--NG-------VDDIREILDNVKYAPSSG 116 Query: 130 YWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFNSL 189 ++V +ID V ++++A NALLK+LEEPP+ V+FIL + I +TI SRC F + Sbjct: 117 KYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPATILSRCQRFDFKRI 176 Query: 190 SE----NNLYKALEQLKI 203 L K L++ I Sbjct: 177 PLEDIVERLKKILDKEGI 194 >gnl|CDD|180132 PRK05564, PRK05564, DNA polymerase III subunit delta'; Validated. Length = 313 Score = 72.8 bits (179), Expect = 1e-13 Identities = 55/187 (29%), Positives = 80/187 (42%), Gaps = 29/187 (15%) Query: 13 RLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMC 72 + GHE+I+ + R HA + GE GIGK+ L A +L Sbjct: 5 TIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGK----------- 53 Query: 73 NPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWR 132 Q + D + +N K+ I VD+IR I ++ G + Sbjct: 54 ---------SQQREYV--DIIEF-KPINKKS------IGVDDIRNIIEEVNKKPYEGDKK 95 Query: 133 VIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSEN 192 VI+I + M A NA LK++EEPP+ V IL+ IL TI+SRC K N LS+ Sbjct: 96 VIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKE 155 Query: 193 NLYKALE 199 + K + Sbjct: 156 EIEKFIS 162 >gnl|CDD|180523 PRK06305, PRK06305, DNA polymerase III subunits gamma and tau; Validated. Length = 451 Score = 72.5 bits (178), Expect = 1e-13 Identities = 51/174 (29%), Positives = 84/174 (48%), Gaps = 19/174 (10%) Query: 32 RMHHALLFEGEQGIGKATLGFRYAGHV-LQNPDFSKAPVRMCNPDPCSPFVKQMASHALH 90 R HA LF G +G GK TL +A + QNP + P C S K+++S Sbjct: 37 RAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQC----AS--CKEISSGTSL 90 Query: 91 DFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANAL 150 D L + + + +++IR+I + T + +++ +ID V + + A N+L Sbjct: 91 DVLEIDGASHRG---------IEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSL 141 Query: 151 LKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALEQLKIM 204 LK+LEEPPQ V F L + I TI SRC + + E + +++L ++ Sbjct: 142 LKTLEEPPQHVKFFLATTEIHKIPGTILSRCQKMHLKRIPEETI---IDKLALI 192 >gnl|CDD|181190 PRK07993, PRK07993, DNA polymerase III subunit delta'; Validated. Length = 334 Score = 72.0 bits (177), Expect = 2e-13 Identities = 54/169 (31%), Positives = 81/169 (47%), Gaps = 23/169 (13%) Query: 19 DIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGF---RYAGHVLQNPDFSKA--PVRMCN 73 D E+ + Y +GR HHALL + G+G L + R+ + Q P K+ R C Sbjct: 10 DYEQLVGSYQ-AGRGHHALLIQALPGMGDDALIYALSRWL--MCQQPQGHKSCGHCRGCQ 66 Query: 74 PDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRV 133 + Q +H D+ Y+L P+ GK + + VD +R + L A G +V Sbjct: 67 -------LMQAGTHP--DY----YTLTPEKGK--SSLGVDAVREVTEKLYEHARLGGAKV 111 Query: 134 IMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCL 182 + + + AANALLK+LEEPP+ F L +L+T+RSRC Sbjct: 112 VWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCR 160 >gnl|CDD|184920 PRK14956, PRK14956, DNA polymerase III subunits gamma and tau; Provisional. Length = 484 Score = 71.5 bits (175), Expect = 3e-13 Identities = 52/173 (30%), Positives = 80/173 (46%), Gaps = 17/173 (9%) Query: 30 SGRMHHALLFEGEQGIGKATLGFRYAGHV-LQNPDFSKAPVRMCNPDPCSPFVKQMASHA 88 SG++ HA +F G +G+GK T+ A + +NP P C C K ++S Sbjct: 36 SGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPI-GNEPCNECTS--CLEITKGISS-- 90 Query: 89 LHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAAN 148 D L + + N ++ IR +R + G ++V +ID V + + N Sbjct: 91 --DVLEIDAASNRG---------IENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFN 139 Query: 149 ALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALEQL 201 ALLK+LEEPP ++FIL + I TI SRC F + + L E+L Sbjct: 140 ALLKTLEEPPAHIVFILATTEFHKIPETILSRCQDFIFKKVPLSVLQDYSEKL 192 >gnl|CDD|181214 PRK08058, PRK08058, DNA polymerase III subunit delta'; Validated. Length = 329 Score = 71.1 bits (175), Expect = 4e-13 Identities = 50/171 (29%), Positives = 76/171 (44%), Gaps = 16/171 (9%) Query: 31 GRMHHALLFEGEQGIGKATLGFRYAGHVL-QNPDFSKAPVRMCNPDPCSPFVKQMASHAL 89 R+ HA LFEG +G GK A + + + P C C K++ S Sbjct: 25 NRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVE-PCGTCTN--C----KRIDSGNH 77 Query: 90 HDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANA 149 D ++ P I D+IR ++ S + +V +I+ D M +AAN+ Sbjct: 78 PDVHLVA----PDGQS----IKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANS 129 Query: 150 LLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNLYKALEQ 200 LLK LEEP IL++ IL TI SRC ++F L +L + L++ Sbjct: 130 LLKFLEEPSGGTTAILLTENKHQILPTILSRCQVVEFRPLPPESLIQRLQE 180 >gnl|CDD|183438 PRK12323, PRK12323, DNA polymerase III subunits gamma and tau; Provisional. Length = 700 Score = 70.7 bits (173), Expect = 6e-13 Identities = 54/178 (30%), Positives = 80/178 (44%), Gaps = 20/178 (11%) Query: 14 LFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQ--NPDFSKAPVRM 71 L G E + + L+ R+HHA LF G +G+GK TL R L D Sbjct: 18 LVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLS-RILAKSLNCTGADGEGG---- 72 Query: 72 CNPDPCS--PFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTG 129 PC ++ + D++ + + N VDE+ ++ G Sbjct: 73 ITAQPCGQCRACTEIDAGRFVDYIEMDAASNRG---------VDEMAQLLDKAVYAPTAG 123 Query: 130 YWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFN 187 ++V MID V + +A NA+LK+LEEPP+ V FIL + I T+ SRCL +FN Sbjct: 124 RFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCL--QFN 179 >gnl|CDD|180629 PRK06581, PRK06581, DNA polymerase III subunit delta'; Validated. Length = 263 Score = 70.3 bits (172), Expect = 6e-13 Identities = 37/108 (34%), Positives = 63/108 (58%), Gaps = 5/108 (4%) Query: 110 ITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHA 169 I++++IR+++ FLS T+ ++V +I + MN NAAN+ LK LE+ P+ LI+ Sbjct: 69 ISIEQIRKLQDFLSKTSAISGYKVAIIYSAELMNLNAANSCLKILEDAPKNSYIFLITSR 128 Query: 170 SPTILSTIRSRCLSIKFNSL---SENNLYKALEQLKIMGWDSKRDFVK 214 + +I+STIRSRC I S + N LY + ++ + + DF+ Sbjct: 129 AASIISTIRSRCFKINVRSSILHAYNELY--SQFIQPIADNKTLDFIN 174 >gnl|CDD|184929 PRK14965, PRK14965, DNA polymerase III subunits gamma and tau; Provisional. Length = 576 Score = 68.6 bits (168), Expect = 2e-12 Identities = 59/180 (32%), Positives = 82/180 (45%), Gaps = 39/180 (21%) Query: 14 LFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL---QNPDFSKAPVR 70 L G E + + L +GR+ HA LF G +G+GK + R L Q + P Sbjct: 18 LTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTA-RILAKALNCEQGL--TAEP-- 72 Query: 71 MCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGY 130 CN C P V+ ++ D + + N TG VD+IR +R N Y Sbjct: 73 -CNV--CPPCVEITEGRSV-DVFEIDGASN--TG-------VDDIRELR------ENVKY 113 Query: 131 ------WRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILIS---HASPTILSTIRSRC 181 +++ +ID V ++ NA NALLK+LEEPP V FI + H P TI SRC Sbjct: 114 LPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPI---TILSRC 170 >gnl|CDD|184935 PRK14971, PRK14971, DNA polymerase III subunits gamma and tau; Provisional. Length = 614 Score = 67.1 bits (164), Expect = 7e-12 Identities = 56/189 (29%), Positives = 89/189 (47%), Gaps = 18/189 (9%) Query: 4 RAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHV-LQNP 62 R + P + + G E + L + ++ HA LF G +G+GK T +A + QN Sbjct: 9 RKYRPSTFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNL 68 Query: 63 DFSKAPVRMCNP-DPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYF 121 A CN + C F +Q S+ +H+ S + +VD+IR + Sbjct: 69 ---TADGEACNECESCVAFNEQ-RSYNIHELDAASNN------------SVDDIRNLIEQ 112 Query: 122 LSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRC 181 + + G +++ +ID V +++ A NA LK+LEEPP +FIL + IL TI SRC Sbjct: 113 VRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILSRC 172 Query: 182 LSIKFNSLS 190 FN + Sbjct: 173 QIFDFNRIQ 181 >gnl|CDD|184919 PRK14955, PRK14955, DNA polymerase III subunits gamma and tau; Provisional. Length = 397 Score = 66.8 bits (163), Expect = 8e-12 Identities = 54/207 (26%), Positives = 89/207 (42%), Gaps = 19/207 (9%) Query: 1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHV-- 58 +I R + P + E I + + GR+ H +F G +G+GK T +A V Sbjct: 5 VIARKYRPKKFADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNC 64 Query: 59 ---LQNPDFSKAPVRMCNP-DPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDE 114 + + D+ + C + C F S + +F S + +VD+ Sbjct: 65 QRMIDDADYLQEVTEPCGECESCRDF-DAGTSLNISEFDAASNN------------SVDD 111 Query: 115 IRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTIL 174 IR +R + G +RV +ID V ++ A NA LK+LEEPP +FI + I Sbjct: 112 IRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIP 171 Query: 175 STIRSRCLSIKFNSLSENNLYKALEQL 201 +TI SRC F + + + L+ + Sbjct: 172 ATIASRCQRFNFKRIPLEEIQQQLQGI 198 >gnl|CDD|184933 PRK14969, PRK14969, DNA polymerase III subunits gamma and tau; Provisional. Length = 527 Score = 66.3 bits (162), Expect = 1e-11 Identities = 54/179 (30%), Positives = 83/179 (46%), Gaps = 27/179 (15%) Query: 14 LFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCN 73 L G E + + L+ R+HHA LF G +G+GK TL A + + P +C+ Sbjct: 18 LVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCS 77 Query: 74 PDPCSP-----FVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANT 128 C FV D + + + N + VD +R + Sbjct: 78 A--CLEIDSGRFV---------DLIEVDAASNTQ---------VDAMRELLDNAQYAPTR 117 Query: 129 GYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFN 187 G ++V +ID V ++++A NA+LK+LEEPP+ V FIL + I T+ SRCL +FN Sbjct: 118 GRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCL--QFN 174 >gnl|CDD|180643 PRK06645, PRK06645, DNA polymerase III subunits gamma and tau; Validated. Length = 507 Score = 66.4 bits (162), Expect = 1e-11 Identities = 66/230 (28%), Positives = 101/230 (43%), Gaps = 17/230 (7%) Query: 4 RAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHV-LQNP 62 R + P L G E + K LS + R+ L G +G+GK T A V Sbjct: 13 RKYRPSNFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCSAL 72 Query: 63 DFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFL 122 ++ C + C+ + +H D + + + KT VD+IRRI Sbjct: 73 ITENTTIKTC--EQCTNCI-SFNNHNHPDIIEIDAA--SKTS-------VDDIRRIIESA 120 Query: 123 SLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCL 182 G ++ +ID V +++ A NALLK+LEEPP ++FI + I +TI SRC Sbjct: 121 EYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIISRCQ 180 Query: 183 SIKFNSLSENNLYKALEQL-KIMGWDSKRDFVKIAAY---GSVARAIKIL 228 LS ++K LE + K + + ++I AY GS A+ IL Sbjct: 181 RYDLRRLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEGSARDAVSIL 230 >gnl|CDD|184924 PRK14960, PRK14960, DNA polymerase III subunits gamma and tau; Provisional. Length = 702 Score = 65.8 bits (160), Expect = 2e-11 Identities = 51/195 (26%), Positives = 85/195 (43%), Gaps = 15/195 (7%) Query: 4 RAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPD 63 R + P L G + + LS GR+HHA LF G +G+GK T+ A + Sbjct: 7 RKYRPRNFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETG 66 Query: 64 FSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLS 123 + P +C K + D + + + K V++ R + + Sbjct: 67 VTSTPCEVCAT------CKAVNEGRFIDLIEIDAASRTK---------VEDTRELLDNVP 111 Query: 124 LTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLS 183 G ++V +ID V ++ ++ NALLK+LEEPP+ V F+ + + T+ SRCL Sbjct: 112 YAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRCLQ 171 Query: 184 IKFNSLSENNLYKAL 198 L+ + + K L Sbjct: 172 FTLRPLAVDEITKHL 186 >gnl|CDD|184922 PRK14958, PRK14958, DNA polymerase III subunits gamma and tau; Provisional. Length = 509 Score = 64.4 bits (156), Expect = 4e-11 Identities = 59/232 (25%), Positives = 99/232 (42%), Gaps = 19/232 (8%) Query: 1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQ 60 ++ R + P Q + G + + LS +HHA LF G +G+GK T+ A + Sbjct: 5 VLARKWRPRCFQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNC 64 Query: 61 NPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRY 120 S P C + C +++ D + + K V++ R + Sbjct: 65 EKGVSANPCNDC--ENC----REIDEGRFPDLFEVDAASRTK---------VEDTRELLD 109 Query: 121 FLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSR 180 + G ++V +ID V ++ ++ NALLK+LEEPP V FIL + + T+ SR Sbjct: 110 NIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSR 169 Query: 181 CLSIKFNSLSENNLYKALEQL----KIMGWDSKRDFVKIAAYGSVARAIKIL 228 CL L + + L + ++ D + AA GSV A+ +L Sbjct: 170 CLQFHLAQLPPLQIAAHCQHLLKEENVEFENAALDLLARAANGSVRDALSLL 221 >gnl|CDD|184918 PRK14954, PRK14954, DNA polymerase III subunits gamma and tau; Provisional. Length = 620 Score = 63.4 bits (154), Expect = 8e-11 Identities = 62/251 (24%), Positives = 103/251 (41%), Gaps = 27/251 (10%) Query: 1 MIDRAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHV-- 58 +I R + P + E I + R+ H +F G +G+GK T +A V Sbjct: 5 VIARKYRPSKFADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNC 64 Query: 59 ---LQNPDFSKAPVRMCNP-DPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDE 114 + +P + + C + C F S + +F S + +VD+ Sbjct: 65 QRMIDDPVYLQEVTEPCGECESCRDF-DAGTSLNISEFDAASNN------------SVDD 111 Query: 115 IRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTIL 174 IR++R + G +RV +ID V ++ A NA LK+LEEPP +FI + I Sbjct: 112 IRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIP 171 Query: 175 STIRSRCLSIKFNSLSENNLYKALEQL----KIMGWDSKRDFVKIAAYGSVARAIKILHY 230 +TI SRC F + + + L+ + I + A GS+ A IL Sbjct: 172 ATIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQIDADALQLIARKAQGSMRDAQSIL-- 229 Query: 231 DCDKIISSYID 241 D++I+ + Sbjct: 230 --DQVIAFSVG 238 >gnl|CDD|180644 PRK06647, PRK06647, DNA polymerase III subunits gamma and tau; Validated. Length = 563 Score = 62.9 bits (153), Expect = 1e-10 Identities = 50/191 (26%), Positives = 88/191 (46%), Gaps = 19/191 (9%) Query: 12 QRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRM 71 L G + + + L S ++ +A +F G +G+GK T R L + P M Sbjct: 16 NSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGK-TSSARAFARCL---NCVNGPTPM 71 Query: 72 CNPDPCS--PFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTG 129 PC K + + D + + + N +V ++R+I+ + + Sbjct: 72 ----PCGECSSCKSIDNDNSLDVIEIDGASN---------TSVQDVRQIKEEIMFPPASS 118 Query: 130 YWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFNSL 189 +RV +ID V ++ +A NALLK++EEPP ++FI + + +TI+SRC F L Sbjct: 119 RYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKSRCQHFNFRLL 178 Query: 190 SENNLYKALEQ 200 S +Y L++ Sbjct: 179 SLEKIYNMLKK 189 >gnl|CDD|184934 PRK14970, PRK14970, DNA polymerase III subunits gamma and tau; Provisional. Length = 367 Score = 61.4 bits (149), Expect = 4e-10 Identities = 50/187 (26%), Positives = 79/187 (42%), Gaps = 27/187 (14%) Query: 4 RAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPD 63 R + P + G I L + + ALLF G +G+GK T R + P Sbjct: 9 RKYRPQTFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCA-RILARKINQPG 67 Query: 64 FSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLS 123 + DP DF + + L+ + +VD+IR + + Sbjct: 68 YD---------DPNE------------DFSFNIFELDAASNN-----SVDDIRNLIDQVR 101 Query: 124 LTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLS 183 + TG +++ +ID V ++ A NA LK+LEEPP +FIL + I+ TI SRC Sbjct: 102 IPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQI 161 Query: 184 IKFNSLS 190 F ++ Sbjct: 162 FDFKRIT 168 >gnl|CDD|184915 PRK14951, PRK14951, DNA polymerase III subunits gamma and tau; Provisional. Length = 618 Score = 61.3 bits (149), Expect = 4e-10 Identities = 56/185 (30%), Positives = 84/185 (45%), Gaps = 34/185 (18%) Query: 14 LFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVL--QNPD----FSKA 67 + G E + + L+ R+HHA LF G +G+GK T+ R L Q PD + Sbjct: 18 MVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVS-RILAKSLNCQGPDGQGGITAT 76 Query: 68 PVRMCNPDPCSP-----FVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFL 122 P +C C FV D+ L + N R V DE++++ Sbjct: 77 PCGVC--QACRDIDSGRFV---------DYTELDAASN------RGV---DEVQQLLEQA 116 Query: 123 SLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCL 182 G ++V MID V + A NA+LK+LEEPP+ + F+L + + T+ SRCL Sbjct: 117 VYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLSRCL 176 Query: 183 SIKFN 187 +FN Sbjct: 177 --QFN 179 >gnl|CDD|180308 PRK05896, PRK05896, DNA polymerase III subunits gamma and tau; Validated. Length = 605 Score = 60.6 bits (147), Expect = 6e-10 Identities = 74/254 (29%), Positives = 111/254 (43%), Gaps = 38/254 (14%) Query: 4 RAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLG--FRYAGHVLQN 61 R + P +++ G E I+K L + ++ HA +F G +GIGK ++ F A + L N Sbjct: 8 RKYRPHNFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCL-N 66 Query: 62 PDFSKAPVRMCNP-DPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRY 120 P CN C + D + L + N VDEIR I Sbjct: 67 PK----DGDCCNSCSVCESINTNQSV----DIVELDAASNNG---------VDEIRNIID 109 Query: 121 FLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSR 180 ++ T ++V +ID ++ +A NALLK+LEEPP+ V+FI + I TI SR Sbjct: 110 NINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTIISR 169 Query: 181 CLSIKFNSLSENNLYKAL------EQLKIMGWDSKRDFVKIA--AYGSVARAIKILH--- 229 C F L+ + L + L E++KI KIA A GS+ + IL Sbjct: 170 CQRYNFKKLNNSELQELLKSIAKKEKIKI----EDNAIDKIADLADGSLRDGLSILDQLS 225 Query: 230 YDCDKIISSYIDLI 243 + I I+ I Sbjct: 226 TFKNSEID--IEDI 237 >gnl|CDD|180856 PRK07133, PRK07133, DNA polymerase III subunits gamma and tau; Validated. Length = 725 Score = 59.8 bits (145), Expect = 9e-10 Identities = 33/88 (37%), Positives = 50/88 (56%) Query: 112 VDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASP 171 VDEIR + + +++ +ID V ++++A NALLK+LEEPP+ V+FIL + Sbjct: 100 VDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVH 159 Query: 172 TILSTIRSRCLSIKFNSLSENNLYKALE 199 I TI SR F +SE+ + LE Sbjct: 160 KIPLTILSRVQRFNFRRISEDEIVSRLE 187 >gnl|CDD|181430 PRK08451, PRK08451, DNA polymerase III subunits gamma and tau; Validated. Length = 535 Score = 57.0 bits (138), Expect = 8e-09 Identities = 56/198 (28%), Positives = 91/198 (45%), Gaps = 35/198 (17%) Query: 14 LFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMC- 72 L G E + K LS + R+ HA LF G +G GK T R F++A +C Sbjct: 16 LIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGK-TSSARI---------FARA--LVCE 63 Query: 73 ---NPDPCSPFVK-QMASHALH-DFLYLSYSLNPKTGKWRTVITVDEIRRI----RYFLS 123 + PC ++ Q A H D + + + N +D+IR + +Y Sbjct: 64 QGPSSTPCDTCIQCQSALENRHIDIIEMDAASNRG---------IDDIRELIEQTKY--- 111 Query: 124 LTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLS 183 + +++ +ID V + + A NALLK+LEEPP V FIL + + +TI SR Sbjct: 112 -KPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATILSRTQH 170 Query: 184 IKFNSLSENNLYKALEQL 201 +F + +N++ L+ + Sbjct: 171 FRFKQIPQNSIISHLKTI 188 >gnl|CDD|181656 PRK09111, PRK09111, DNA polymerase III subunits gamma and tau; Validated. Length = 598 Score = 56.1 bits (136), Expect = 1e-08 Identities = 53/176 (30%), Positives = 72/176 (40%), Gaps = 58/176 (32%) Query: 30 SGRMHHALLFEGEQGIGKATL------GFRYAGHVLQNPDFSKAP-VRMCNP-DPCS--- 78 +GR+ A + G +G+GK T Y G PD P + +C + C Sbjct: 42 TGRIAQAFMLTGVRGVGKTTTARILARALNYEG-----PDGDGGPTIDLCGVGEHCQAIM 96 Query: 79 ----PFVKQM--ASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRI----RYFLSLTANT 128 V +M ASH TG VD+IR I RY + Sbjct: 97 EGRHVDVLEMDAASH---------------TG-------VDDIREIIESVRY----RPVS 130 Query: 129 GYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILS---TIRSRC 181 ++V +ID V ++ A NALLK+LEEPP V FI A+ I T+ SRC Sbjct: 131 ARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIF---ATTEIRKVPVTVLSRC 183 >gnl|CDD|180790 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau; Validated. Length = 830 Score = 55.2 bits (133), Expect = 2e-08 Identities = 27/57 (47%), Positives = 36/57 (63%), Gaps = 2/57 (3%) Query: 131 WRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFN 187 ++V MID V + +A NA+LK+LEEPP V FIL + I T+ SRCL +FN Sbjct: 120 FKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCL--QFN 174 Score = 40.6 bits (95), Expect = 6e-04 Identities = 17/37 (45%), Positives = 23/37 (62%) Query: 14 LFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATL 50 L G E + + L+ GR+HHA LF G +G+GK TL Sbjct: 18 LVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTL 54 >gnl|CDD|184916 PRK14952, PRK14952, DNA polymerase III subunits gamma and tau; Provisional. Length = 584 Score = 54.9 bits (132), Expect = 3e-08 Identities = 56/200 (28%), Positives = 85/200 (42%), Gaps = 39/200 (19%) Query: 4 RAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLG--FRYAGHVLQN 61 R + P + G E + + LS +GR++HA LF G +G GK + + + Q Sbjct: 5 RKYRPATFAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCAQG 64 Query: 62 PDFSKAPVRMCN------PD-PCSPFVKQM--ASHALHDFLYLSYSLNPKTGKWRTVITV 112 P + P +C P+ P S V ++ ASH V Sbjct: 65 P--TATPCGVCESCVALAPNGPGSIDVVELDAASHG----------------------GV 100 Query: 113 DEIR--RIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHAS 170 D+ R R R F + A + Y R+ ++D + NALLK +EEPP+ ++FI + Sbjct: 101 DDTRELRDRAFYA-PAQSRY-RIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEP 158 Query: 171 PTILSTIRSRCLSIKFNSLS 190 +L TIRSR F L Sbjct: 159 EKVLPTIRSRTHHYPFRLLP 178 >gnl|CDD|184928 PRK14964, PRK14964, DNA polymerase III subunits gamma and tau; Provisional. Length = 491 Score = 54.0 bits (130), Expect = 6e-08 Identities = 30/88 (34%), Positives = 45/88 (51%) Query: 111 TVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHAS 170 +VD+I+ I + ++V +ID V ++ +A NALLK+LEEP V FIL + Sbjct: 97 SVDDIKVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEV 156 Query: 171 PTILSTIRSRCLSIKFNSLSENNLYKAL 198 I TI SRC + + L + L Sbjct: 157 KKIPVTIISRCQRFDLQKIPTDKLVEHL 184 >gnl|CDD|184913 PRK14949, PRK14949, DNA polymerase III subunits gamma and tau; Provisional. Length = 944 Score = 52.8 bits (127), Expect = 1e-07 Identities = 32/80 (40%), Positives = 48/80 (60%), Gaps = 8/80 (10%) Query: 129 GYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILS-TIRSRCLSIKFN 187 G ++V +ID V ++R++ NALLK+LEEPP+ V F+L + P L T+ SRCL Sbjct: 118 GRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLAT-TDPQKLPVTVLSRCLQFNLK 176 Query: 188 SLSENNLYKAL------EQL 201 SL+++ + L EQL Sbjct: 177 SLTQDEIGTQLNHILTQEQL 196 Score = 33.2 bits (76), Expect = 0.11 Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 4/27 (14%) Query: 24 LSQYYCSGRMHHALLFEGEQGIGKATL 50 L+Q R+HHA LF G +G+GK +L Sbjct: 32 LTQQ----RLHHAYLFTGTRGVGKTSL 54 >gnl|CDD|184912 PRK14948, PRK14948, DNA polymerase III subunits gamma and tau; Provisional. Length = 620 Score = 52.3 bits (126), Expect = 2e-07 Identities = 26/52 (50%), Positives = 34/52 (65%), Gaps = 2/52 (3%) Query: 131 WRVIMIDPVDGMNRNAA-NALLKSLEEPPQKVLFILISHASPTILSTIRSRC 181 W+V +ID M AA NALLK+LEEPP +V+F+L + +L TI SRC Sbjct: 122 WKVYVIDECH-MLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTIISRC 172 >gnl|CDD|180855 PRK07132, PRK07132, DNA polymerase III subunit delta'; Validated. Length = 299 Score = 51.6 bits (124), Expect = 3e-07 Identities = 18/59 (30%), Positives = 32/59 (54%) Query: 132 RVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFNSLS 190 ++++I ++ + + NALLK++EEPP+ F+L + +L TI SRC Sbjct: 92 KILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPD 150 >gnl|CDD|181445 PRK08485, PRK08485, DNA polymerase III subunit delta'; Validated. Length = 206 Score = 50.0 bits (120), Expect = 9e-07 Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 13/77 (16%) Query: 146 AANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIK-------------FNSLSEN 192 A NALLK LEEPP+ + FI+++ + +L TIRSR + K L Sbjct: 70 AQNALLKILEEPPKNICFIIVAKSKNLLLPTIRSRLIIEKRKQKKPVKPLDLDLKKLDLK 129 Query: 193 NLYKALEQLKIMGWDSK 209 ++Y+ L++L+ SK Sbjct: 130 DIYEFLKELEKENKLSK 146 >gnl|CDD|180131 PRK05563, PRK05563, DNA polymerase III subunits gamma and tau; Validated. Length = 559 Score = 49.9 bits (120), Expect = 9e-07 Identities = 34/74 (45%), Positives = 44/74 (59%), Gaps = 8/74 (10%) Query: 112 VDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILIS---H 168 VDEIR IR + + ++V +ID V ++ A NALLK+LEEPP V+FIL + H Sbjct: 101 VDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPH 160 Query: 169 ASP-TILSTIRSRC 181 P TIL SRC Sbjct: 161 KIPATIL----SRC 170 >gnl|CDD|102059 PRK05917, PRK05917, DNA polymerase III subunit delta'; Validated. Length = 290 Score = 49.4 bits (118), Expect = 1e-06 Identities = 25/74 (33%), Positives = 40/74 (54%) Query: 111 TVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHAS 170 +++ R I+ + + +++ +I D M +A +A LK LE+PPQ + IL S Sbjct: 76 SIETPRAIKKQIWIHPYESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKP 135 Query: 171 PTILSTIRSRCLSI 184 + TIRSR LSI Sbjct: 136 QRLPPTIRSRSLSI 149 >gnl|CDD|180916 PRK07276, PRK07276, DNA polymerase III subunit delta'; Validated. Length = 290 Score = 48.5 bits (116), Expect = 2e-06 Identities = 28/78 (35%), Positives = 42/78 (53%) Query: 109 VITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISH 168 VI D IR + S + G +V +I D M+ NAAN+LLK +EEP ++ L+++ Sbjct: 83 VIKTDTIRELVKNFSQSGYEGKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTN 142 Query: 169 ASPTILSTIRSRCLSIKF 186 +L TI+SR F Sbjct: 143 DENKVLPTIKSRTQIFHF 160 >gnl|CDD|181191 PRK07994, PRK07994, DNA polymerase III subunits gamma and tau; Validated. Length = 647 Score = 46.0 bits (110), Expect = 2e-05 Identities = 27/57 (47%), Positives = 36/57 (63%), Gaps = 14/57 (24%) Query: 133 VIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHAS--P-----TILSTIRSRCL 182 V +ID V ++R++ NALLK+LEEPP+ V F+L A+ P TIL SRCL Sbjct: 122 VYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLL---ATTDPQKLPVTIL----SRCL 171 Score = 36.0 bits (84), Expect = 0.014 Identities = 12/22 (54%), Positives = 16/22 (72%) Query: 30 SGRMHHALLFEGEQGIGKATLG 51 GR+HHA LF G +G+GK T+ Sbjct: 34 LGRLHHAYLFSGTRGVGKTTIA 55 >gnl|CDD|180274 PRK05818, PRK05818, DNA polymerase III subunit delta'; Validated. Length = 261 Score = 42.9 bits (101), Expect = 1e-04 Identities = 20/57 (35%), Positives = 34/57 (59%) Query: 132 RVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFNS 188 ++ +I ++ +N+ +AN+LLK +EEPP+ I + IL+TI SRC+ S Sbjct: 90 KIYIIYGIEKLNKQSANSLLKLIEEPPKNTYGIFTTRNENNILNTILSRCVQYVVLS 146 >gnl|CDD|179744 PRK04132, PRK04132, replication factor C small subunit; Provisional. Length = 846 Score = 42.9 bits (101), Expect = 1e-04 Identities = 30/105 (28%), Positives = 52/105 (49%), Gaps = 8/105 (7%) Query: 131 WRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFNSLS 190 +++I +D D + ++A AL +++E V FIL + S I+ I+SRC +F L Sbjct: 631 FKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLR 690 Query: 191 ENNLYKAL------EQLKIMGWDSKRDFVKIAAYGSVARAIKILH 229 + ++ K L E L++ + + A G + RAI IL Sbjct: 691 DEDIAKRLRYIAENEGLELT--EEGLQAILYIAEGDMRRAINILQ 733 Score = 30.6 bits (69), Expect = 0.57 Identities = 17/36 (47%), Positives = 19/36 (52%), Gaps = 1/36 (2%) Query: 16 GHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLG 51 G E I K L Y +G M H LLF G G+GK G Sbjct: 23 GQEHIVKRLKHYVKTGSMPH-LLFAGPPGVGKCLTG 57 >gnl|CDD|179778 PRK04195, PRK04195, replication factor C large subunit; Provisional. Length = 482 Score = 42.2 bits (100), Expect = 2e-04 Identities = 23/77 (29%), Positives = 43/77 (55%), Gaps = 13/77 (16%) Query: 132 RVIMIDPVDGMN----RNAANALLKSLEEPPQKVLFILISHA----SPTILSTIRSRCLS 183 ++I++D VDG++ R A A+L+ +++ Q + IL A P+ L +R+ CL Sbjct: 100 KLILLDEVDGIHGNEDRGGARAILELIKKAKQPI--ILT--ANDPYDPS-LRELRNACLM 154 Query: 184 IKFNSLSENNLYKALEQ 200 I+F LS ++ L++ Sbjct: 155 IEFKRLSTRSIVPVLKR 171 >gnl|CDD|181106 PRK07764, PRK07764, DNA polymerase III subunits gamma and tau; Validated. Length = 824 Score = 40.0 bits (94), Expect = 8e-04 Identities = 16/35 (45%), Positives = 22/35 (62%) Query: 146 AANALLKSLEEPPQKVLFILISHASPTILSTIRSR 180 NALLK +EEPP+ + FI + ++ TIRSR Sbjct: 136 GFNALLKIVEEPPEHLKFIFATTEPDKVIGTIRSR 170 Score = 31.5 bits (72), Expect = 0.33 Identities = 13/26 (50%), Positives = 17/26 (65%) Query: 24 LSQYYCSGRMHHALLFEGEQGIGKAT 49 LS SGR++HA LF G +G GK + Sbjct: 27 LSTALDSGRINHAYLFSGPRGCGKTS 52 >gnl|CDD|179026 PRK00440, rfc, replication factor C small subunit; Reviewed. Length = 319 Score = 39.9 bits (94), Expect = 0.001 Identities = 49/198 (24%), Positives = 70/198 (35%), Gaps = 60/198 (30%) Query: 4 RAFDPVYNQRLFGHEDIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPD 63 R D + G E+I + L Y M H LLF G G GK T Sbjct: 14 RTLDEIV-----GQEEIVERLKSYVKEKNMPH-LLFAGPPGTGKTT-------------- 53 Query: 64 FSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVIT---------VDE 114 A+ AL LY WR +D Sbjct: 54 ---------------------AALALARELYGED--------WRENFLELNASDERGIDV 84 Query: 115 IR-RIRYFLSLTANTGY-WRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPT 172 IR +I+ F G +++I +D D + +A AL +++E Q FIL + S Sbjct: 85 IRNKIKEFARTAPVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSK 144 Query: 173 ILSTIRSRCLSIKFNSLS 190 I+ I+SRC +F+ L Sbjct: 145 IIDPIQSRCAVFRFSPLK 162 >gnl|CDD|177379 PHA02544, 44, clamp loader, small subunit; Provisional. Length = 316 Score = 38.8 bits (91), Expect = 0.002 Identities = 46/189 (24%), Positives = 71/189 (37%), Gaps = 49/189 (25%) Query: 19 DIEKFLSQYYCSGRMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCS 78 D E F S GR+ + LL G GK T+ +KA +CN Sbjct: 29 DKETFKS-IVKKGRIPNMLLHSPSPGTGKTTV--------------AKA---LCNEVGAE 70 Query: 79 PFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDEIR-RIRYFLSLTANTGYWRVIMID 137 +N + +D +R R+ F S + TG +VI+ID Sbjct: 71 VLF-----------------VNGSDCR------IDFVRNRLTRFASTVSLTGGGKVIIID 107 Query: 138 PVDGMNRNAANALLKSLEEPPQK-VLFILISHASPTILSTIRSRCLSIKFNSLSENNLYK 196 D + A L+S E K FI+ ++ I+ +RSRC I F ++ Sbjct: 108 EFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDFGVPTKE---- 163 Query: 197 ALEQLKIMG 205 EQ+++M Sbjct: 164 --EQIEMMK 170 >gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional. Length = 319 Score = 37.4 bits (87), Expect = 0.005 Identities = 25/90 (27%), Positives = 46/90 (51%), Gaps = 3/90 (3%) Query: 112 VDEIR-RIRYFL--SLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISH 168 +D +R +I+ F +T G +++++D D M A AL +++E F L + Sbjct: 78 IDVVRNKIKMFAQKKVTLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACN 137 Query: 169 ASPTILSTIRSRCLSIKFNSLSENNLYKAL 198 S I+ I+SRC ++F+ LS+ + L Sbjct: 138 TSSKIIEPIQSRCAIVRFSRLSDQEILGRL 167 >gnl|CDD|183503 PRK12402, PRK12402, replication factor C small subunit 2; Reviewed. Length = 337 Score = 36.9 bits (86), Expect = 0.007 Identities = 24/112 (21%), Positives = 54/112 (48%), Gaps = 4/112 (3%) Query: 118 IRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTI 177 ++ + S + ++ I++D + + +A AL + +E+ + FI+ + ++ I Sbjct: 113 LKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPPI 172 Query: 178 RSRCLSIKFNSLSENNLYKALEQL----KIMGWDSKRDFVKIAAYGSVARAI 225 RSRCL + F + +++ L LE + + D + + A G + +AI Sbjct: 173 RSRCLPLFFRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAI 224 >gnl|CDD|183959 PRK13300, PRK13300, tRNA CCA-pyrophosphorylase; Provisional. Length = 447 Score = 35.6 bits (83), Expect = 0.019 Identities = 36/155 (23%), Positives = 62/155 (40%), Gaps = 35/155 (22%) Query: 105 KWR--TVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLE------- 155 KW+ I +++ + F +++IDPVD NRN A AL SLE Sbjct: 201 KWKPPVKIDLEKHGKEYKFDD--------PLVVIDPVD-PNRNVAAAL--SLENLATFIL 249 Query: 156 ------EPPQKVLFILISHASPTILSTIRSR---CLSIKFN--SLSENNLYKALEQL--K 202 + P F + IL + R L+++F + E+ LY LE+ Sbjct: 250 AAREFLKNPSLEFFFPSDLSPEEILEELERRGTTVLALEFPRPDIVEDILYPQLERSLRS 309 Query: 203 IMGWDSKRDF--VKIAAYGSVARAIKILHYDCDKI 235 I+ + F ++ A+ RA +L + ++ Sbjct: 310 IVKLLEREGFEVLRSGAWADEDRAYLLLELEVAEL 344 >gnl|CDD|162225 TIGR01146, ATPsyn_F1gamma, ATP synthase, F1 gamma subunit. This model describes the ATP synthase gamma subunit in bacteria and its equivalents in organelles, namely, mitochondria and chloroplast. F1/F0-ATP synthase is a multisubunit, membrane associated enzyme found in bacteria and organelles of higher eukaryotes, namely, mitochondria and chloroplast. This enzyme is principally involed in the synthesis of ATP from ADP and inorganic phosphate by coupling the energy derived from the proton electrochemical gradient across the biological membrane. A brief description of this multisubunit enzyme complex: F1 and F0 represent two major clusters of subunits. The gamma subunit is the part of F1 cluster. Surrounding the gamma subunit in a cylinder-like structure are three alpha and three subunits in an alternating fashion. This is the central catalytic unit whose different conformations permit the binding of ADP and inorganic phosphate and release of ATP. Length = 287 Score = 35.3 bits (82), Expect = 0.026 Identities = 31/138 (22%), Positives = 51/138 (36%), Gaps = 23/138 (16%) Query: 135 MIDPVDGMNRNAANALLKSLEEPPQKVLFILISHASPTILSTIRSRCLSIKFNSLSENNL 194 ++ + N + LLKS E +KV ++I+ R L +NS N+ Sbjct: 52 VLGNLATKLLNYDHPLLKSRE--VKKVGILVIT----------SDRGLCGGYNS----NV 95 Query: 195 YKALEQLKIMGWDSKRDFVKIAAYGSVARAIKILHYDCDKIISSYIDLIHIPRQEYALQK 254 K + Q + + VK+ G ++ D I+ S L P ++ Sbjct: 96 LKRVRQ-RAKELKAAGKEVKLVVIGRKGKSF--FKRRGDNIVLSITGLSDQP----TFEE 148 Query: 255 MQQIADELLSQDQKIAFD 272 IAD+LL FD Sbjct: 149 ASGIADKLLDAFASGEFD 166 >gnl|CDD|150054 pfam09249, tRNA_NucTransf2, tRNA nucleotidyltransferase, second domain. Members of this family adopt a structure consisting of a five helical bundle core. They are predominantly found in Archaeal tRNA nucleotidyltransferase, following the catalytic nucleotidyltransferase domain. Length = 114 Score = 29.1 bits (66), Expect = 1.6 Identities = 13/23 (56%), Positives = 17/23 (73%), Gaps = 3/23 (13%) Query: 133 VIMIDPVDGMNRNAANALLKSLE 155 +++IDPVD NRN A A+ SLE Sbjct: 72 LVVIDPVD-PNRNVAAAV--SLE 91 >gnl|CDD|183986 PRK13342, PRK13342, recombination factor protein RarA; Reviewed. Length = 413 Score = 28.5 bits (65), Expect = 2.7 Identities = 20/101 (19%), Positives = 34/101 (33%), Gaps = 38/101 (37%) Query: 107 RTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLEEPPQKVLFILI 166 RT++ +DEI R N+ +ALL +E LI Sbjct: 93 RTILFIDEIHR------------------------FNKAQQDALLPHVE----DGTITLI 124 Query: 167 -------SHASPTILSTIRSRCLSIKFNSLSENNLYKALEQ 200 S + + SR + LSE ++ + L++ Sbjct: 125 GATTENPSFE---VNPALLSRAQVFELKPLSEEDIEQLLKR 162 >gnl|CDD|149459 pfam08405, Calici_PP_N, Viral polyprotein N-terminal. This domain is found at the N-terminus of non-structural viral polyproteins of the Caliciviridae subfamily. Length = 358 Score = 28.2 bits (63), Expect = 2.8 Identities = 7/35 (20%), Positives = 17/35 (48%) Query: 143 NRNAANALLKSLEEPPQKVLFILISHASPTILSTI 177 ++ +A A ++ L+ +K + A P ++ T Sbjct: 310 DKQSAAAYMRILDLEEEKARKLSAKSADPHVVGTT 344 >gnl|CDD|173611 PTZ00421, PTZ00421, coronin; Provisional. Length = 493 Score = 28.3 bits (63), Expect = 3.2 Identities = 12/38 (31%), Positives = 16/38 (42%) Query: 170 SPTILSTIRSRCLSIKFNSLSENNLYKALEQLKIMGWD 207 +P IL + + FN L+ A E IMGW Sbjct: 67 NPPILLGQEGPIIDVAFNPFDPQKLFTASEDGTIMGWG 104 >gnl|CDD|163386 TIGR03671, cca_archaeal, CCA-adding enzyme. Length = 408 Score = 28.0 bits (63), Expect = 3.8 Identities = 12/22 (54%), Positives = 16/22 (72%), Gaps = 2/22 (9%) Query: 134 IMIDPVDGMNRNAANAL-LKSL 154 ++IDPVD RN A AL L++L Sbjct: 221 VVIDPVD-PKRNVAAALSLENL 241 >gnl|CDD|181459 PRK08533, PRK08533, flagellar accessory protein FlaH; Reviewed. Length = 230 Score = 27.7 bits (62), Expect = 4.6 Identities = 22/66 (33%), Positives = 31/66 (46%), Gaps = 11/66 (16%) Query: 37 LLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLS 96 +L EG++ GK+ L R A LQN +S + V + F+KQM S L Sbjct: 27 ILIEGDESTGKSILSQRLAYGFLQN-GYSVSYVS--TQLTTTEFIKQMMS--------LG 75 Query: 97 YSLNPK 102 Y +N K Sbjct: 76 YDINKK 81 >gnl|CDD|183283 PRK11706, PRK11706, TDP-4-oxo-6-deoxy-D-glucose transaminase; Provisional. Length = 375 Score = 27.1 bits (61), Expect = 7.1 Identities = 10/16 (62%), Positives = 11/16 (68%) Query: 288 AAALSGQLEEADQIAQ 303 AA L QLE AD+I Q Sbjct: 239 AAYLWAQLEAADRINQ 254 >gnl|CDD|150442 pfam09771, Tmemb_18A, Transmembrane protein 188. The function of this family of transmembrane proteins has not, as yet, been determined. Length = 126 Score = 27.1 bits (60), Expect = 7.9 Identities = 26/106 (24%), Positives = 37/106 (34%), Gaps = 29/106 (27%) Query: 98 SLNPKTGKWRTVITVDEIRRIRYFLSLTANTG-YWRVIMIDPVDGMNRNAANALLKSLEE 156 L P T +WR V++V T YW + DP + SL Sbjct: 22 YLGPTTFRWRIVLSV--------MSVCTFVGAWYW---LADP-----ETFQVPFIDSLWN 65 Query: 157 PPQ--------KVLFILISHASPTILSTIRSRCLSIKFNSLSENNL 194 P +LF+ H S I SRC ++ L+E N+ Sbjct: 66 HPDFTFSTLTLLLLFVFGIHKRVVAPSIIASRCRTV----LAEFNM 107 >gnl|CDD|149292 pfam08154, NLE, NLE (NUC135) domain. This domain is located N terminal to WD40 repeats. It is found in the microtubule-associated yeast protein YTM1. Length = 64 Score = 26.7 bits (60), Expect = 9.2 Identities = 8/27 (29%), Positives = 17/27 (62%), Gaps = 2/27 (7%) Query: 254 KMQQIADELLSQDQKIAFDFLI--EFI 278 + ++ ++LL ++ + FDFLI E + Sbjct: 30 GLSELVNQLLENEEPVPFDFLINGEEL 56 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 0.326 0.139 0.415 Gapped Lambda K H 0.267 0.0769 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 5,786,987 Number of extensions: 372513 Number of successful extensions: 1152 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1118 Number of HSP's successfully gapped: 104 Length of query: 347 Length of database: 5,994,473 Length adjustment: 94 Effective length of query: 253 Effective length of database: 3,963,321 Effective search space: 1002720213 Effective search space used: 1002720213 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 58 (26.0 bits)