RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780277|ref|YP_003064690.1| DNA polymerase I [Candidatus Liberibacter asiaticus str. psy62] (976 letters) >gnl|CDD|180237 PRK05755, PRK05755, DNA polymerase I; Provisional. Length = 880 Score = 1072 bits (2775), Expect = 0.0 Identities = 406/987 (41%), Positives = 581/987 (58%), Gaps = 125/987 (12%) Query: 4 ENHLFLVDGSSFIYRAFYATPLLSRKHDGLPVNAIAGFCNMLWKLLQNSRKESIASHFAV 63 L L+DGSS ++RAFYA R DGLP A+ GF NML KLL ++E +H AV Sbjct: 1 MKTLLLIDGSSLLFRAFYALLPTLRNSDGLPTGAVYGFLNMLLKLL---KEEK-PTHVAV 56 Query: 64 IFDYPAVTFRNEIYPDYKANRPKIPEMLLPQLPLVRLATQAFGIPAIEIQGFEADDIIAT 123 FD TFR+E+YP+YKANRP +PE L Q+PL+R +A GIP +E++G+EADD+I T Sbjct: 57 AFDAKGKTFRHELYPEYKANRPPMPEDLREQIPLIRELLRALGIPLLELEGYEADDVIGT 116 Query: 124 YTYIAEKEGFAVTIISTDKDLMQLVSPTTCLYDTV---KEEKIDIEHVIKKWGIPPEKMV 180 AE G+ V I++ DKDL+QLV L DT+ K E++D E V++K+G+ PE+++ Sbjct: 117 LAKQAEAAGYEVLIVTGDKDLLQLVDDNVTLLDTMGVSKNEELDPEEVVEKYGVTPEQII 176 Query: 181 CLQALTGDSIDNIPGIPGIGYKTAALLLQEYGNLENILINASRIKQKKRRENILEYAETA 240 AL GDS DNIPG+PGIG KTAA LLQEYG+L E + E + Sbjct: 177 DYLALMGDSSDNIPGVPGIGEKTAAKLLQEYGSL----------------EGLYENLDE- 219 Query: 241 RLSRKLVMLRTDVPITIPLEHLILEDCNGPRLISFLKALEFTKLIN--------RVATTY 292 +K + KL R T Sbjct: 220 -----------------------------------IKGKKKEKLRENKEQAFLSRKLATI 244 Query: 293 DCDAANIEPVVLDINTTENKGIAIETEIDRDTTI---KTSQFSSLSDQTSKINSEQTPQK 349 D P+ +D+ E + DR+ I K +F SL Sbjct: 245 KTDV----PLEVDLEDLELQ------PPDREKLIALFKELEFKSL--------------- 279 Query: 350 LFLERLQKLSQYPINNDSYTKIVNTKDIQQWVQKLETIGSASFKIITDTMDAFHSKPIAI 409 L R P++ + Y I++ ++++ W+ KL+ G +F T ++D ++ + + Sbjct: 280 --LRRAAAAEAAPLDEEDYETILDEEELEAWLAKLKAAGLFAFDTETTSLDPMQAELVGL 337 Query: 410 AISTLDQKDDTSFKVETIFIDLSVHTSQDSTGKNTLTKEILSYLKKFFENEHFLKIGHNI 469 + + E +I L + L +E+L+ LK E+ K+G N+ Sbjct: 338 SFAVEPG--------EAAYIPL-----------DQLDREVLAALKPLLEDPAIKKVGQNL 378 Query: 470 KYDKLVLHRYGISMRG-FEDIMLMSYVLDSGRSSHDIASIAQKWLSYTRKEILKSRKSSI 528 KYD VL RYGI +RG D ML SY+LD GR H + S+A+++L + + + Sbjct: 379 KYDLHVLARYGIELRGIAFDTMLASYLLDPGRR-HGLDSLAERYLGHKTISFEEVAGKQL 437 Query: 529 PIDKISDSQVQEHAIENSNVILQLWLLLRPKLIVE-KLLHVYERLDKPMIDVVSQMEITG 587 ++ + E+A E+++V L+L +L+PKL+ E LL +YE ++ P++ V+++ME G Sbjct: 438 TFAQVDLEEAAEYAAEDADVTLRLHEVLKPKLLEEPGLLELYEEIELPLVPVLARMERNG 497 Query: 588 IQIDQDLLKQVSAEISKNLLSLEENIYDLSGEKFNLSSPKQLGDILFTKLKFPSGAKTKT 647 I++D++ LK++SAE+++ L LE+ IY+L+GE+FN++SPKQLG+ILF KL P G KTKT Sbjct: 498 IKVDREYLKELSAELAQRLAELEQEIYELAGEEFNINSPKQLGEILFEKLGLPVGKKTKT 557 Query: 648 GQWKTTAQDLEQINCGDNPIIKNILEWRQLSKIKSTYADSLPNHINKRTQRVHTFYSLAS 707 G + T A+ LE++ D+PI ILE+RQLSK+KSTY D+LP IN T R+HT ++ Sbjct: 558 G-YSTDAEVLEKLA-DDHPIPDKILEYRQLSKLKSTYTDALPKLINPDTGRIHTSFNQTV 615 Query: 708 TMTGRLASLEPNLQNIPIKTDLGQKIRRAFISPPTKKLISADYSQIELRILAHIAKITPL 767 T TGRL+S +PNLQNIPI+T+ G++IR+AF++P KL+SADYSQIELRILAH++ L Sbjct: 616 TATGRLSSSDPNLQNIPIRTEEGRRIRKAFVAPEGYKLLSADYSQIELRILAHLSGDEGL 675 Query: 768 YQVFENSLDIHRMVAAEIFGVNIEKVSPQMRRHAKTINFSIIYGISPFRLATQLRIPRSE 827 + F DIH A+E+FGV +E+V+ + RR AK INF IIYG+S F LA QL I R E Sbjct: 676 IEAFAEGEDIHTATASEVFGVPLEEVTSEQRRRAKAINFGIIYGMSAFGLAQQLGISRKE 735 Query: 828 AADYIKRYFHRFPGIHEYIEKTKNFVRQNGYVETIFGRRIHYDEINSPKSSIRNINERAA 887 A +YI RYF R+PG+ EY+E+T R+ GYVET+FGRR + +INS + R ERAA Sbjct: 736 AKEYIDRYFERYPGVKEYMERTVEQAREKGYVETLFGRRRYLPDINSRNGNRRAFAERAA 795 Query: 888 INAPIQGSAADITRRAMISVHKSLEDHKLATKMLLQIHDELVFEVPEEEITTASQIIVHS 947 INAPIQGSAADI + AMI V K+L++ L ++MLLQ+HDELVFEVPE+E+ +++ Sbjct: 796 INAPIQGSAADIIKLAMIRVDKALKEEGLKSRMLLQVHDELVFEVPEDELEEVKKLVKEV 855 Query: 948 MEKACLPKINLRVPLKVNIKVSNNWQE 974 ME A + L VPL V++ V +NW E Sbjct: 856 MENA----VELSVPLVVDVGVGDNWDE 878 >gnl|CDD|161944 TIGR00593, pola, DNA polymerase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Length = 887 Score = 823 bits (2129), Expect = 0.0 Identities = 382/977 (39%), Positives = 549/977 (56%), Gaps = 101/977 (10%) Query: 7 LFLVDGSSFIYRAFYA---TPLLSRKHDGLPVNAIAGFCNMLWKLLQNSRKESIASHFAV 63 L L+DG S +RA++A PL + K G P NA+ GF ML KLL KE ++ AV Sbjct: 1 LLLIDGHSLAFRAYFALKNKPLTNSK--GEPTNAVYGFTKMLLKLL----KEEKPTYVAV 54 Query: 64 IFDYPAVTFRNEIYPDYKANRPKIPEMLLPQLPLVRLATQAFGIPAIEIQGFEADDIIAT 123 FD TFR+E Y +YKANR PE L+ Q+PL++ A GIP +E++G+EADD+IAT Sbjct: 55 AFDSGTPTFRHEAYAEYKANRAPTPEELIEQIPLIKELLDALGIPILEVEGYEADDVIAT 114 Query: 124 YTYIAEKEGFAVTIISTDKDLMQLVSPTTCLYDT---VKEEKIDIEHVIKKWGIPPEKMV 180 AEKEG+ V IIS DKDL+QLVS + +I E+V++K+G+ P+++V Sbjct: 115 LAKQAEKEGYEVRIISGDKDLLQLVSDNVKVLIPKGKTSFTEITPEYVVEKYGVTPDQLV 174 Query: 181 CLQALTGDSIDNIPGIPGIGYKTAALLLQEYGNLENILINASRIKQKKRRENILEYAETA 240 L+AL GDS DNIPG+ GIG KTAA LLQE+G+LENI N +IK K RE ++ + E A Sbjct: 175 DLKALVGDSSDNIPGVKGIGEKTAAKLLQEFGSLENIYENLDQIKSAKMREKLIAHKEDA 234 Query: 241 RLSRKLVMLRTDVPITIPLEHLILEDCNGPRLISFLKALEFTKLINRVATTYDCDAANIE 300 LS++L + TDVP+ + LE L L + + RL + L Sbjct: 235 FLSKELATIVTDVPLEVDLEDLRLSEPDRERLYALL------------------------ 270 Query: 301 PVVLDINTTENKGIAIETEIDRDTTIKT--SQFSSLSDQTSKINSEQTPQKLFLERLQKL 358 E++ + + + S + D + + +E+T E L Sbjct: 271 -----------------QELEFKSLLDRLENLESPVIDDHAPVLTEKTSCAKESEEAAPL 313 Query: 359 SQYPINNDSYTKIVNTKDIQQWVQKLETIGSASFKIITDTMDAFHSKPIAIAISTLDQKD 418 + + +G + + + K +A+A +T +Q Sbjct: 314 A--------------------NPAEKAEVG----GFVLERLLDQLKKALALAFATENQSY 349 Query: 419 DTSFKVETIFIDLSVHTSQDSTGKNTLTKEILSYLKKFFENEHFLKIGHNIKYDKLVLHR 478 + E I L + D ++ NE KIGH+ K+ +L R Sbjct: 350 VA-YASEADGIPLLTILTDDK-------------FARWLLNEQIKKIGHDAKFLMHLLKR 395 Query: 479 YGISMRG-FEDIMLMSYVLDSGRSSHDIASIAQKWLSYTRKEILKSRKSSIPIDKISDSQ 537 GI + G D ML +Y+LD + S + ++A+++L K + Sbjct: 396 EGIELGGVIFDTMLAAYLLDPAQVST-LDTLARRYLVEELILDEKIGGKLAKFAFPPLEE 454 Query: 538 VQEHAIENSNVILQLWLLLRPKLIVEKLLHVYERLDKPMIDVVSQMEITGIQIDQDLLKQ 597 E+ + +L L +L KLL +Y ++ P+ V+++ME TGI++D D L++ Sbjct: 455 ATEYLARRAAATKRLAEELLKELDENKLLSLYREIELPLSKVLAEMEKTGIKVDADYLQE 514 Query: 598 VSAEISKNLLSLEENIYDLSGEKFNLSSPKQLGDILFTKLKFPSGAKTKTGQWKTTAQDL 657 +S E + + LEE IY+L+GE+FN++SPKQLG++LF KL P G KTKTG + T A L Sbjct: 515 LSQEFGEEIADLEEEIYELAGEEFNINSPKQLGEVLFEKLGLPVGKKTKTG-YSTDADVL 573 Query: 658 EQINCGDNPIIKNILEWRQLSKIKSTYADSLPNHINKRTQRVHTFYSLASTMTGRLASLE 717 E++ +PII ILE+RQL+K+KSTY D LP +N T R+HT ++ T TGRL+S Sbjct: 574 EKLRE-KHPIIALILEYRQLTKLKSTYVDGLPELVNPDTGRIHTTFNQTGTATGRLSSSN 632 Query: 718 PNLQNIPIKTDLGQKIRRAFISPPTKKLISADYSQIELRILAHIAKITPLYQVFENSLDI 777 PNLQNIPI+++ G+KIR+AF++ LISADYSQIELR+LAH+++ L + F+N DI Sbjct: 633 PNLQNIPIRSEEGRKIRKAFVAEKGWLLISADYSQIELRVLAHLSQDENLIEAFQNGEDI 692 Query: 778 HRMVAAEIFGVNIEKVSPQMRRHAKTINFSIIYGISPFRLATQLRIPRSEAADYIKRYFH 837 H A+ +FGV IE V+P MRR AKTINF ++YG+S F LA +L I R EA ++I+RYF Sbjct: 693 HTETASRLFGVEIEDVTPNMRRIAKTINFGVVYGMSAFGLAQELGISRKEAKEFIERYFA 752 Query: 838 RFPGIHEYIEKTKNFVRQNGYVETIFGRRIHYDEINSPKSSIRNINERAAINAPIQGSAA 897 R+PG+ +YIE T R+ GYVET+FGRR + +INS ++R ER AINAPIQGSAA Sbjct: 753 RYPGVKDYIENTVEEARKKGYVETLFGRRRYIPDINSRNRNVREAAERMAINAPIQGSAA 812 Query: 898 DITRRAMISVHKSLEDHKLATKMLLQIHDELVFEVPEEEITTASQIIVHSMEKACLPKIN 957 DI + AMI + K L++ KL ++LLQ+HDEL+FE PEEE + ++ ME A Sbjct: 813 DIMKIAMIKLDKRLKERKLKARLLLQVHDELIFEAPEEEAEEVAALVKEVMEHA----YP 868 Query: 958 LRVPLKVNIKVSNNWQE 974 L VPL+V + NW E Sbjct: 869 LAVPLEVEVGTGKNWGE 885 >gnl|CDD|128751 smart00475, 53EXOc, 5'-3' exonuclease. Length = 259 Score = 315 bits (809), Expect = 4e-86 Identities = 133/262 (50%), Positives = 178/262 (67%), Gaps = 10/262 (3%) Query: 5 NHLFLVDGSSFIYRAFYATPLLSRKHDGLPVNAIAGFCNMLWKLLQNSRKESIASHFAVI 64 L LVDGSS +RA++A P L + G P NA+ GF ML KL+ KE ++ AV+ Sbjct: 1 KKLLLVDGSSLAFRAYFALPPL-KNSKGEPTNAVYGFLRMLLKLI----KEEKPTYVAVV 55 Query: 65 FDYPAVTFRNEIYPDYKANRPKIPEMLLPQLPLVRLATQAFGIPAIEIQGFEADDIIATY 124 FD TFR+E+YP+YKANRPK P+ LL Q+PL++ A GIP +E++G+EADD+IAT Sbjct: 56 FDAKGKTFRHELYPEYKANRPKTPDELLEQIPLIKELLDALGIPVLEVEGYEADDVIATL 115 Query: 125 TYIAEKEGFAVTIISTDKDLMQLVSPTTCLYDTVKEEK----IDIEHVIKKWGIPPEKMV 180 AE EG+ V I+S DKDL+QLVS + D K K E+VI+K+G+ PE+++ Sbjct: 116 AKKAEAEGYEVRIVSGDKDLLQLVSDKVSVLDPTKGIKEFELYTPENVIEKYGLTPEQII 175 Query: 181 CLQALTGDSIDNIPGIPGIGYKTAALLLQEYGNLENILINASRIKQKKRRENILEYAETA 240 +AL GDS DNIPG+PGIG KTAA LL+E+G+LENIL N ++K KK RE +L + E A Sbjct: 176 DYKALMGDSSDNIPGVPGIGEKTAAKLLKEFGSLENILENLDKLK-KKLREKLLAHKEDA 234 Query: 241 RLSRKLVMLRTDVPITIPLEHL 262 +LSRKL + TDVP+ + LE L Sbjct: 235 KLSRKLATIETDVPLEVDLEDL 256 >gnl|CDD|128758 smart00482, POLAc, DNA polymerase A domain. Length = 206 Score = 294 bits (755), Expect = 8e-80 Identities = 111/206 (53%), Positives = 147/206 (71%) Query: 730 GQKIRRAFISPPTKKLISADYSQIELRILAHIAKITPLYQVFENSLDIHRMVAAEIFGVN 789 G++IRRAF++PP L+SADYSQIELRILAH++ L + F N DIH AA++FGV Sbjct: 1 GREIRRAFVAPPGYVLVSADYSQIELRILAHLSGDENLLEAFNNGGDIHSKTAAQVFGVP 60 Query: 790 IEKVSPQMRRHAKTINFSIIYGISPFRLATQLRIPRSEAADYIKRYFHRFPGIHEYIEKT 849 E+V+ ++RR AK INF IIYG+ LA QL I +EA + IK YF RFPG+ YI++T Sbjct: 61 EEEVTKELRRAAKAINFGIIYGMGAKGLAEQLGISEAEAKELIKAYFARFPGVKRYIKRT 120 Query: 850 KNFVRQNGYVETIFGRRIHYDEINSPKSSIRNINERAAINAPIQGSAADITRRAMISVHK 909 R+ GYV T+FGRR + +I+S +R ERAA+NAPIQGSAADI + AMI + + Sbjct: 121 LEEARRKGYVTTLFGRRRYIPDIDSRNPVLRAAAERAAVNAPIQGSAADILKLAMIKMDE 180 Query: 910 SLEDHKLATKMLLQIHDELVFEVPEE 935 +L++ L ++LLQ+HDELVFEVPEE Sbjct: 181 ALKEKGLRARLLLQVHDELVFEVPEE 206 >gnl|CDD|184938 PRK14975, PRK14975, bifunctional 3'-5' exonuclease/DNA polymerase; Provisional. Length = 553 Score = 273 bits (699), Expect = 2e-73 Identities = 140/510 (27%), Positives = 233/510 (45%), Gaps = 53/510 (10%) Query: 488 DIMLMSYVL--DSGRSSHDIASIAQKWLSYTRKEILKSRKSSIPIDKISDSQVQEHAIEN 545 D+ML S +L GR+ +++ A + L K ++S D + Q+ +A + Sbjct: 74 DLMLASQLLLGSEGRAGSSLSAAAARALGEGLD---KPPQTSALSDPPDEEQL-LYAAAD 129 Query: 546 SNVILQLWLLLRPKLIVEKLLHVYERLDKPMID-------VVSQMEITGIQIDQDLLKQV 598 ++V+L+L+ +L +L RL + + ++ME+ G+ D D+ + + Sbjct: 130 ADVLLELYAVLADQLNRIAAAAHPGRL-RLLAAAESAGALAAAEMELAGLPWDTDVHEAL 188 Query: 599 SAEIS----------KNLLSLEENIYDLSGE-KFNLSSPKQLGDIL-FTKLKFPSGAKTK 646 AE+ L L I + G + N SP+Q+ L ++ PS Sbjct: 189 LAELLGPRPAAGGRPARLAELAAEIREALGRPRLNPDSPQQVLRALRRAGIELPS----- 243 Query: 647 TGQWKTTAQDLEQINCGDNPIIKNILEWRQLSKIKSTYADSLPNHINKRTQRVHTFYSLA 706 T +W +L +I D+P ++ +LE+R+LSK+ S + ++ R R H Y Sbjct: 244 TRKW-----ELREI---DHPAVEPLLEYRKLSKLLSANGWAWLDYWV-RDGRFHPEYVPG 294 Query: 707 STMTGRLASLEPNLQNIPIKTDLGQKIRRAFISPPTKKLISADYSQIELRILAHIAKITP 766 +TGR AS PN Q IP + IR AF++ P KL+ AD SQIELR+LA + Sbjct: 295 GVVTGRWASRGPNAQQIP------RDIRSAFVADPGWKLVVADASQIELRVLAAYSGDER 348 Query: 767 LYQVFENSLDIHRMVAAEIFGVNIEKVSPQMRRHAKTINFSIIYGISPFRLATQLRIPRS 826 + + F D+HR+ A+ FG E+ + R AK NF IYG + L + Sbjct: 349 MIEAFRTGGDLHRLTASVGFGKPEEEK--EERALAKAANFGAIYGATSKGLQEYAK-NYG 405 Query: 827 EAADYIKRYFHRFPGIHEYIEKTKNFVRQNGYVETIFGRRIHYDEINSPKSSIRNINERA 886 EAA ++R +P ++E+ + G V T+ GR R Sbjct: 406 EAARLLERLRRAYPRAVGWVERAAREGERGGVVRTLLGRTSPPPGFAWRARRRARSRGRF 465 Query: 887 AINAPIQGSAADITRRAMISVHKSLEDHKLATKMLLQIHDELVFEVPEEEITTASQIIVH 946 N P+QG+AAD + A+ + + L + L +++ +HDE+V E PEEE + I Sbjct: 466 TRNFPVQGTAADWAKLALALLRRRLAEG-LDAELVFFVHDEVVVECPEEEAEEVAAAIEE 524 Query: 947 SMEKACLPKINL-RVPLKVNIKVSNNWQEE 975 +ME+A ++ VP V + V ++ E Sbjct: 525 AMEEA--GRLLFGPVPFPVEVAVVESYAEA 552 >gnl|CDD|184939 PRK14976, PRK14976, 5'-3' exonuclease; Provisional. Length = 281 Score = 222 bits (568), Expect = 4e-58 Identities = 107/285 (37%), Positives = 159/285 (55%), Gaps = 11/285 (3%) Query: 3 KENHLFLVDGSSFIYRAFYAT--PLLSRK-HDGLPVNAIAGFCNMLWKLLQNSRKESIAS 59 L+DG+S I+R++YAT K + GLP NAI F M++K+L+ S Sbjct: 1 MMKKALLIDGNSLIFRSYYATLKQGPKLKNNKGLPTNAIHTFLTMIFKILKKLNP----S 56 Query: 60 HFAVIFDYPAVTFRNEIYPDYKANRPKIPEMLLPQLPLVRLATQAFGIPAIEIQGFEADD 119 + + FD TFR+++Y +YK R K PE L+ Q+PL++ + GI E G+EADD Sbjct: 57 YILIAFDAGRKTFRHQLYDEYKQGRKKTPESLISQIPLLKKILKLAGIKWEEQPGYEADD 116 Query: 120 IIATYTYIAEKEGFAVTIISTDKDLMQLVSPTTCLYDTVKEEKIDIEH---VIKKWGIPP 176 +I + K+ V I S+DKDL+QLV+ T + K I + + +GI P Sbjct: 117 LIGSLAKKLSKQNITVLIYSSDKDLLQLVNENTDVLLKKKGTSHFILNTNNFFELYGIEP 176 Query: 177 EKMVCLQALTGDSIDNIPGIPGIGYKTAALLLQEYGNLENILINASRIKQKKRRENILEY 236 ++++ + L GDS DNI G+ GIG KTA LL +YGN+ENI N +IK KK + + E Sbjct: 177 KQIIDYKGLVGDSSDNIKGVKGIGPKTAIKLLNKYGNIENIYENIDKIK-KKIKNKLSEA 235 Query: 237 AETARLSRKLVMLRTDVPITIPLEHLILEDCNGPRLISFLKALEF 281 E A LS+KL ++TDVP+ +E + L+ + P L + LE Sbjct: 236 KEKALLSKKLATIKTDVPLDFQIEDIKLKKLDQPELKKIFEELEL 280 >gnl|CDD|181896 PRK09482, PRK09482, flap endonuclease-like protein; Provisional. Length = 256 Score = 190 bits (484), Expect = 2e-48 Identities = 90/264 (34%), Positives = 140/264 (53%), Gaps = 12/264 (4%) Query: 5 NHLFLVDGSSFIYRAFYATPLLSRKHDGLPVNAIAGFCNMLWKLLQNSRKESIASHFAVI 64 NHL ++D + I R P S V + KL+++S+ +H + Sbjct: 3 NHLLIIDALNLIRRIHAVQP--SPNDINACVETCQHALD---KLIRHSQ----PTHAVAV 53 Query: 65 FDY--PAVTFRNEIYPDYKANRPKIPEMLLPQLPLVRLATQAFGIPAIEIQGFEADDIIA 122 FD + +R+++ PDYKA R +PE L LP +R A + GI + G EADD+IA Sbjct: 54 FDGDARSSGWRHQLLPDYKAGRKPMPEALQQGLPAIRAAFEELGIDSWHADGNEADDLIA 113 Query: 123 TYTYIAEKEGFAVTIISTDKDLMQLVSPTTCLYDTVKEEKIDIEHVIKKWGIPPEKMVCL 182 T + G TI+STDK QL+SPT + D ++ +D + +++G+ P+++ Sbjct: 114 TLAVKVAQAGHQATIVSTDKGYCQLLSPTIQIRDYFQKRWLDAPFIEQEFGVEPQQLPDY 173 Query: 183 QALTGDSIDNIPGIPGIGYKTAALLLQEYGNLENILINASRIKQKKRRENILEYAETARL 242 L G S IPG+ GIG K+AA LL ++ +LENI + + +K R+ + E+ E ARL Sbjct: 174 WGLAGISSSKIPGVAGIGPKSAAELLNQFRSLENIYESLDALP-EKWRKKLEEHKEMARL 232 Query: 243 SRKLVMLRTDVPITIPLEHLILED 266 RKL L+TD+P+ L+ L L Sbjct: 233 CRKLAQLQTDLPLGGNLQQLRLNR 256 >gnl|CDD|128750 smart00474, 35EXOc, 3'-5' exonuclease. 3\' -5' exonuclease proofreading domain present in DNA polymerase I, Werner syndrome helicase, RNase D and other enzymes. Length = 172 Score = 80.9 bits (200), Expect = 2e-15 Identities = 46/192 (23%), Positives = 87/192 (45%), Gaps = 24/192 (12%) Query: 371 IVNTKDIQQWVQKLET-IGSASFKIITDTMDAFHSKPIAIAISTLDQKDDTSFKVETIFI 429 + +++ +++ ++KL G + T ++++ K + I IS E FI Sbjct: 4 VTDSETLEELLEKLRAAGGEVALDTETTGLNSYSGKLVLIQISVTG---------EGAFI 54 Query: 430 DLSVHTSQDSTGKNTLTKEILSYLKKFFENEHFLKIGHNIKYDKLVLHRYGISMRGFEDI 489 + + L LK E+E K+GHN K+D VL R+GI + D Sbjct: 55 IDPLAL-----------GDDLEILKDLLEDETITKVGHNAKFDLHVLARFGIELENIFDT 103 Query: 490 MLMSYVLDSGRSSHDIASIAQKWLSYTRKEILKSRKSSIPIDKISDSQVQEHAIENSNVI 549 ML +Y+L G S H +A++ + Y E+ K + S + + ++A E+++ + Sbjct: 104 MLAAYLLLGGPSKHGLATLLK---EYLGVELDKEEQKSDWGARPLSEEQLQYAAEDADAL 160 Query: 550 LQLWLLLRPKLI 561 L+L+ L +L Sbjct: 161 LRLYEKLEKELE 172 >gnl|CDD|177280 PHA00439, PHA00439, exonuclease. Length = 286 Score = 50.9 bits (122), Expect = 1e-06 Identities = 37/144 (25%), Positives = 52/144 (36%), Gaps = 15/144 (10%) Query: 70 VTFRNEIYPDYKANRPKIPEMLLPQLPLVRLATQAFGIPAIEIQGFEADDIIATYTYIAE 129 V +R E+ P YKANR K + + +I G E DD++ Sbjct: 75 VNWRKEVVPTYKANR-KAKRKPVGYRKFLEELMAREEWKSILEPGLEGDDVMGIIGTNPS 133 Query: 130 KEGFA-VTIISTDKDLMQLVSPTTCLYD--TVKEEKIDIEHVIKKWGIPPEKMVCLQALT 186 GF ++S DKD + C + T +W + Q + Sbjct: 134 LFGFKKAVLVSCDKDFKTI---PNCDFLWCTTGNILTQTPETADRWHL-------FQTIK 183 Query: 187 GDSIDNIPGIPGIGYKTAALLLQE 210 GDS D GIPG G TA L+ Sbjct: 184 GDSTDGYSGIPGWG-DTAEAFLEN 206 >gnl|CDD|128575 smart00279, HhH2, Helix-hairpin-helix class 2 (Pol1 family) motifs. Length = 36 Score = 50.9 bits (123), Expect = 1e-06 Identities = 19/36 (52%), Positives = 25/36 (69%) Query: 176 PEKMVCLQALTGDSIDNIPGIPGIGYKTAALLLQEY 211 PE+++ L GD DNIPG+ GIG KTA LL+E+ Sbjct: 1 PEQLIDYAILVGDYSDNIPGVKGIGPKTALKLLREF 36 >gnl|CDD|163388 TIGR03674, fen_arch, flap structure-specific endonuclease. Endonuclease that cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA. Length = 338 Score = 49.2 bits (118), Expect = 5e-06 Identities = 33/89 (37%), Positives = 49/89 (55%), Gaps = 10/89 (11%) Query: 150 PTTCLYDTVKEEKIDIEHVIKKWGIPPEKMVCLQALTGDSIDNIPGIPGIGYKTAALLLQ 209 P +Y VK E I++E V+ + GI E+++ + L G D G+ GIG KTA L++ Sbjct: 197 PGKNIYVEVKPELIELEEVLSELGITREQLIDIAILVG--TDYNEGVKGIGPKTALKLIK 254 Query: 210 EYGNLENILINASRIKQKKRRENILEYAE 238 E+G+LE +L K R E+I Y E Sbjct: 255 EHGDLEKVL--------KARGEDIENYDE 275 >gnl|CDD|179693 PRK03980, PRK03980, flap endonuclease-1; Provisional. Length = 292 Score = 48.3 bits (116), Expect = 1e-05 Identities = 33/89 (37%), Positives = 50/89 (56%), Gaps = 10/89 (11%) Query: 150 PTTCLYDTVKEEKIDIEHVIKKWGIPPEKMVCLQALTGDSIDNIPGIPGIGYKTAALLLQ 209 P +Y VK E I++E V+K+ GI E+++ + L G D PGI GIG KTA L++ Sbjct: 150 PGKNVYVEVKPELIELEEVLKELGITREQLIDIAILVG--TDYNPGIKGIGPKTALKLIK 207 Query: 210 EYGNLENILINASRIKQKKRRENILEYAE 238 ++G+LE +L ++R I Y E Sbjct: 208 KHGDLEKVL--------EERGFEIENYDE 228 >gnl|CDD|177397 PHA02567, rnh, RnaseH; Provisional. Length = 304 Score = 44.7 bits (106), Expect = 1e-04 Identities = 32/91 (35%), Positives = 42/91 (46%), Gaps = 13/91 (14%) Query: 110 IEIQGFEADDIIATYTYIAEKEGFAVTIISTDKDLMQLVSPTTCLYDTVKEEKIDIEHVI 169 ++I EADDIIA T EG V I+S+D D QL Y VK+ + Sbjct: 124 MKIDKAEADDIIAVLTKKFSAEGRPVLIVSSDGDFTQLHK-----YPGVKQ----WSPMQ 174 Query: 170 KKWGIP----PEKMVCLQALTGDSIDNIPGI 196 KKW P PEK + + + GD D + I Sbjct: 175 KKWVKPKYGSPEKDLMTKIIKGDKKDGVASI 205 >gnl|CDD|185517 PTZ00217, PTZ00217, flap endonuclease-1; Provisional. Length = 393 Score = 38.8 bits (91), Expect = 0.007 Identities = 35/121 (28%), Positives = 56/121 (46%), Gaps = 17/121 (14%) Query: 106 GIPAIEIQGFEADDIIATYTYIAEKEGFAVTIISTDKDLMQLVSPTTCL------YDTVK 159 GIP IE EA+ A + K+G + + D D L T L + K Sbjct: 151 GIPVIEAPC-EAE---AQCAELV-KKGKVYAVATEDMD--ALTFGTPVLLRNLNFSEAKK 203 Query: 160 EE--KIDIEHVIKKWGIPPEKMVCLQALTGDSIDNIPGIPGIGYKTAALLLQEYGNLENI 217 +I++ V+++ G+ ++ + L L G D I GIG KTA L+++Y ++E I Sbjct: 204 RPIQEINLSTVLEELGLSMDQFIDLCILCG--CDYCDTIKGIGPKTAYKLIKKYKSIEEI 261 Query: 218 L 218 L Sbjct: 262 L 262 >gnl|CDD|181181 PRK07956, ligA, NAD-dependent DNA ligase LigA; Validated. Length = 665 Score = 32.8 bits (76), Expect = 0.50 Identities = 11/28 (39%), Positives = 16/28 (57%), Gaps = 1/28 (3%) Query: 195 GIPGIGYKTAALLLQEYGNLENILINAS 222 GI +G K A L + +G+LE + AS Sbjct: 515 GIRHVGEKAAKALARHFGSLEAL-RAAS 541 >gnl|CDD|184313 PRK13766, PRK13766, Hef nuclease; Provisional. Length = 773 Score = 32.1 bits (74), Expect = 0.63 Identities = 9/28 (32%), Positives = 17/28 (60%), Gaps = 1/28 (3%) Query: 195 GIPGIGYKTAALLLQEYGNLENILINAS 222 +P +G A LL+ +G++E + + AS Sbjct: 719 SLPDVGPVLARNLLEHFGSVEAV-MTAS 745 >gnl|CDD|182284 PRK10173, PRK10173, glucose-1-phosphatase/inositol phosphatase; Provisional. Length = 413 Score = 30.5 bits (69), Expect = 2.5 Identities = 11/21 (52%), Positives = 15/21 (71%) Query: 668 IKNILEWRQLSKIKSTYADSL 688 IK +W+ LSK+K+ Y DSL Sbjct: 253 IKTDQQWKVLSKLKNGYQDSL 273 >gnl|CDD|184786 PRK14671, uvrC, excinuclease ABC subunit C; Provisional. Length = 621 Score = 30.1 bits (68), Expect = 2.6 Identities = 11/23 (47%), Positives = 16/23 (69%) Query: 195 GIPGIGYKTAALLLQEYGNLENI 217 I GIG KTA LL+ +G++E + Sbjct: 573 DIAGIGEKTAEKLLEHFGSVEKV 595 >gnl|CDD|184640 PRK14351, ligA, NAD-dependent DNA ligase LigA; Provisional. Length = 689 Score = 29.7 bits (67), Expect = 4.1 Identities = 11/25 (44%), Positives = 15/25 (60%) Query: 195 GIPGIGYKTAALLLQEYGNLENILI 219 GIP +G TA L +E+G E I+ Sbjct: 532 GIPEVGPTTARNLAREFGTFEAIMD 556 >gnl|CDD|179065 PRK00558, uvrC, excinuclease ABC subunit C; Validated. Length = 598 Score = 29.3 bits (67), Expect = 4.7 Identities = 13/28 (46%), Positives = 17/28 (60%), Gaps = 1/28 (3%) Query: 195 GIPGIGYKTAALLLQEYGNLENILINAS 222 IPGIG K LL+ +G+L+ I AS Sbjct: 547 DIPGIGPKRRKALLKHFGSLKAIK-EAS 573 >gnl|CDD|183710 PRK12737, gatY, tagatose-bisphosphate aldolase; Reviewed. Length = 284 Score = 29.3 bits (66), Expect = 5.4 Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 9/49 (18%) Query: 793 VSPQMRRHAKTINFSIIYGISPFRLATQLRIPRSEAADYIKRYFHRFPG 841 V + + A I GI +AT+L+I S+A +K+YF+ P Sbjct: 213 VPDEDVKKA------ISLGICKVNVATELKIAFSDA---VKKYFYENPK 252 >gnl|CDD|150116 pfam09340, NuA4, Histone acetyltransferase subunit NuA4. The NuA4 histone acetyltransferase (HAT) multisubunit complex is responsible for acetylation of histone H4 and H2A N-terminal tails in yeast. NuA4 complexes are highly conserved in eukaryotes and play primary roles in transcription, cellular response to DNA damage, and cell cycle control. Length = 80 Score = 28.7 bits (65), Expect = 6.6 Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 12/73 (16%) Query: 593 DLLKQVSAEISKNLLSLEENIYDLSGEKFNLSSPKQLGDIL-----FTKLKFPSGAKTKT 647 +LL++ ++ K L +LE IYD E SS G+I+ + K S Sbjct: 6 ELLQK-KKKLEKELAALERQIYDKETEYLEDSSS--GGNIIKGFDGYLK----SSKNGSA 58 Query: 648 GQWKTTAQDLEQI 660 + K D ++I Sbjct: 59 QRRKRKFTDDDRI 71 >gnl|CDD|129319 TIGR00215, lpxB, lipid-A-disaccharide synthase. Lipid-A precursor biosynthesis producing lipid A disaccharide in a condensation reaction. transcribed as part of an operon including lpxA. Length = 385 Score = 28.7 bits (64), Expect = 7.1 Identities = 19/85 (22%), Positives = 33/85 (38%), Gaps = 1/85 (1%) Query: 154 LYDTVKEEKIDIEHVIKKWGIPPEKMVCLQALTGDSIDNIPGIPGIGYKTAALLLQEYGN 213 L D + K D + +K GI L L G + + + K A LL Q+ + Sbjct: 167 LLDAIPLYKPDRKSAREKLGIDHNGE-TLALLPGSRGSEVEKLFPLFLKAAQLLEQQEPD 225 Query: 214 LENILINASRIKQKKRRENILEYAE 238 L +L + ++ + + EY Sbjct: 226 LRRVLPVVNFKRRLQFEQIKAEYGP 250 >gnl|CDD|173132 PRK14669, uvrC, excinuclease ABC subunit C; Provisional. Length = 624 Score = 28.3 bits (63), Expect = 9.4 Identities = 11/22 (50%), Positives = 16/22 (72%) Query: 196 IPGIGYKTAALLLQEYGNLENI 217 IPG+G KT LL+ +G+LE + Sbjct: 557 IPGVGAKTVQRLLKHFGSLERV 578 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 0.319 0.135 0.381 Gapped Lambda K H 0.267 0.0761 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 15,716,906 Number of extensions: 1040271 Number of successful extensions: 2085 Number of sequences better than 10.0: 1 Number of HSP's gapped: 2050 Number of HSP's successfully gapped: 45 Length of query: 976 Length of database: 5,994,473 Length adjustment: 103 Effective length of query: 873 Effective length of database: 3,768,849 Effective search space: 3290205177 Effective search space used: 3290205177 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 62 (27.6 bits)