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)