RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780163|ref|YP_003064576.1| ATP-dependent Clp protease ATP-binding subunit [Candidatus Liberibacter asiaticus str. psy62] (798 letters) >gnl|CDD|30888 COG0542, ClpA, ATPases with chaperone activity, ATP-binding subunit [Posttranslational modification, protein turnover, chaperones]. Length = 786 Score = 815 bits (2107), Expect = 0.0 Identities = 359/811 (44%), Positives = 493/811 (60%), Gaps = 89/811 (10%) Query: 4 FSENLEKVLHQALVLANERNHEYATLEHLLLALIDDSDAAIVMLSCNVDLKVLKNNLLNY 63 +E +K L A LA R HEY T EHLLLAL+D ++ C +DL L+ L + Sbjct: 2 LTERAQKALELAQELARMRRHEYVTPEHLLLALLDQPKGDELLNLCGIDLDKLRQELEEF 61 Query: 64 IDNDSSNKLKNGFRVECKPTSSFQRVVQRAVLHVQSTGRGIVTGANILVALFSEPDSHAT 123 ID + +RV++RA L QS G V+ ++L+AL +EP+S A Sbjct: 62 IDKLPK------VLGSPYLSPRLKRVLERAWLLAQSLGDEYVSTEHLLLALLNEPESVAA 115 Query: 124 YFLQEQEMTLYDAVNFISHGISKRKEFANFQSKLNVDGSSAGSDGEGFVNDYQAKTDLNL 183 Y L++ +T D I + VD +A D Sbjct: 116 YILKKLGVTRKDVEELI----------EELRGGNEVDSKNAEEDQ--------------- 150 Query: 184 FPALSAYCVDLTEKVKKGKVDILVGRHEEINRTIQILCRRSKNNPLYVGDPGVGKTAIAE 243 AL Y DLTE ++GK+D ++GR EEI RTIQIL RR+KNNP+ VG+PGVGKTAI E Sbjct: 151 -DALEKYTRDLTELAREGKLDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVE 209 Query: 244 GFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFEERIKKIVKEIESYANAILYID 303 G A++IV+G VP+ L RI+SLD+G+L+AG +YRG+FEER+K ++KE+E N IL+ID Sbjct: 210 GLAQRIVNGDVPESLKDKRIYSLDLGSLVAGAKYRGEFEERLKAVLKEVEKSKNVILFID 269 Query: 304 EIHTLVGAGSASGISVDASNLLKPALSSGAVRCIGSTTYSEYRQFFEKDKALVRRFQKID 363 EIHT+VGAG+ G ++DA+NLLKPAL+ G +RCIG+TT EYR++ EKD AL RRFQK+ Sbjct: 270 EIHTIVGAGATEGGAMDAANLLKPALARGELRCIGATTLDEYRKYIEKDAALERRFQKVL 329 Query: 364 VSEPSIEDAIEIVKGIKPYFEEHHQLRYSKEAIRAAVQLSVRHFTSRKLPDKAIDVIDEA 423 V EPS+ED I I++G+K +E HH +R + EA+ AAV LS R+ R LPDKAID++DEA Sbjct: 330 VDEPSVEDTIAILRGLKERYEAHHGVRITDEALVAAVTLSDRYIPDRFLPDKAIDLLDEA 389 Query: 424 GAS---QILQPLS------------------------KRRKFI----------------- 439 GA +I +P K +K I Sbjct: 390 GARVRLEIDKPEELDELERELAQLEIEKEALEREQDEKEKKLIDEIIKLKEGRIPELEKE 449 Query: 440 -----TEKDIKKTIASMNRSIHTTSFSRDDDSVLSNLEKNLGTVVYGQEEAIKKLSSSIK 494 E DI + +A I D+ L NLE+ L V GQ+EA++ +S +I+ Sbjct: 450 LEAEVDEDDIAEVVARWTG-IPVAKLLEDEKEKLLNLERRLKKRVIGQDEAVEAVSDAIR 508 Query: 495 IARAGLSDPNKPIGCYVFSGPTGVGKTEISKQLAFALG---VQLLRFDMSEYMERHAVSR 551 ARAGL DPN+PIG ++F GPTGVGKTE++K LA AL L+R DMSEYME+H+VSR Sbjct: 509 RARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSVSR 568 Query: 552 LIGAPPGYVGFGQGGILADSVDQNPYSVVLLDEIEKSHPDVLNILLQIMDYGILTDQSGK 611 LIGAPPGYVG+ +GG L ++V + PYSV+LLDEIEK+HPDV N+LLQ++D G LTD G+ Sbjct: 569 LIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGR 628 Query: 612 KISFRNVILIMTTNAGALEMSKARIGFGSSRNDDADK---EALRNFLSPEFLNRLDSIIP 668 + FRN I+IMT+NAG+ E+ + G + + + E L+ PEFLNR+D IIP Sbjct: 629 TVDFRNTIIIMTSNAGSEEILRDADGDDFADKEALKEAVMEELKKHFRPEFLNRIDEIIP 688 Query: 669 FFPLSSDIIRQVVHKFIMKLELQLQEKGISFHFSEEVINWLVSHGYDVKMGARPLERIIK 728 F PLS +++ ++V + +L +L E+GI+ S+E ++L GYD + GARPL R I+ Sbjct: 689 FNPLSKEVLERIVDLQLNRLAKRLAERGITLELSDEAKDFLAEKGYDPEYGARPLRRAIQ 748 Query: 729 EHVKVPLADEILFGKLKKGGGVVKVSLNPDK 759 + ++ PLADEILFGK++ GG VKV ++ +K Sbjct: 749 QEIEDPLADEILFGKIED-GGTVKVDVDDEK 778 >gnl|CDD|177027 CHL00095, clpC, Clp protease ATP binding subunit. Length = 821 Score = 625 bits (1613), Expect = e-179 Identities = 315/844 (37%), Positives = 470/844 (55%), Gaps = 107/844 (12%) Query: 4 FSENLEKVLHQALVLANERNHEYATLEHLLLALIDDSD--AAIVMLSCNVDLKVLKNNLL 61 F+E KV+ + A H + E +LL LI + AA + S V LK + + Sbjct: 5 FTEKAIKVIMLSQEEARRLGHNFVGTEQILLGLIGEGTGIAARALKSMGVTLKDARIEVE 64 Query: 62 NYIDNDSSNKLKNGF-RVECKPTSSFQRVVQRAVLHVQSTGRGIVTGANILVALFSEPDS 120 I GF VE T +RV++ ++ + G + ++L+AL E + Sbjct: 65 KII------GRGTGFVAVEIPFTPRAKRVLEMSLEEARDLGHNYIGTEHLLLALLEEGEG 118 Query: 121 HATYFLQEQEMTLYDAVNFISHGISKRKEFANFQSKLNVDGSSAGSDGEGFVNDYQAKTD 180 A L+ V+ R N G E + Q+++ Sbjct: 119 VAARVLE------NLGVDLSK----IRSLILNL----------IGEIIEAILGAEQSRSK 158 Query: 181 LNLFPALSAYCVDLTEKVKKGKVDILVGRHEEINRTIQILCRRSKNNPLYVGDPGVGKTA 240 P L + +LT++ G +D ++GR +EI R IQIL RR+KNNP+ +G+PGVGKTA Sbjct: 159 T---PTLEEFGTNLTKEAIDGNLDPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTA 215 Query: 241 IAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFEERIKKIVKEIESYANAIL 300 IAEG A++IV+ VPDIL + +LD+G L+AGT+YRG+FEER+K+I EI+ N IL Sbjct: 216 IAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAGTKYRGEFEERLKRIFDEIQENNNIIL 275 Query: 301 YIDEIHTLVGAGSASGISVDASNLLKPALSSGAVRCIGSTTYSEYRQFFEKDKALVRRFQ 360 IDE+HTL+GAG+A G ++DA+N+LKPAL+ G ++CIG+TT EYR+ EKD AL RRFQ Sbjct: 276 VIDEVHTLIGAGAAEG-AIDAANILKPALARGELQCIGATTLDEYRKHIEKDPALERRFQ 334 Query: 361 KIDVSEPSIEDAIEIVKGIKPYFEEHHQLRYSKEAIRAAVQLSVRHFTSRKLPDKAIDVI 420 + V EPS+E+ IEI+ G++ +E+HH L S +A+ AA +LS ++ R LPDKAID++ Sbjct: 335 PVYVGEPSVEETIEILFGLRSRYEKHHNLSISDKALEAAAKLSDQYIADRFLPDKAIDLL 394 Query: 421 DEAGASQIL---------QPLSKR-RKFITEKD--------------------IKKTIAS 450 DEAG+ L + L K R+ + +KD ++ IA+ Sbjct: 395 DEAGSRVRLINSRLPPAARELDKELREILKDKDEAIREQDFETAKQLRDREMEVRAQIAA 454 Query: 451 MNRSIHTTSFSRDDDSVLS----------------------------NLEKNLGTVVYGQ 482 + +S T R + V++ ++E+ L + GQ Sbjct: 455 IIQSKKTEEEKRLEVPVVTEEDIAEIVSAWTGIPVNKLTKSESEKLLHMEETLHKRIIGQ 514 Query: 483 EEAIKKLSSSIKIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQLA---FALGVQLLRFD 539 +EA+ +S +I+ AR GL +PN+PI ++FSGPTGVGKTE++K LA F ++R D Sbjct: 515 DEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLD 574 Query: 540 MSEYMERHAVSRLIGAPPGYVGFGQGGILADSVDQNPYSVVLLDEIEKSHPDVLNILLQI 599 MSEYME+H VS+LIG+PPGYVG+ +GG L ++V + PY+VVL DEIEK+HPD+ N+LLQI Sbjct: 575 MSEYMEKHTVSKLIGSPPGYVGYNEGGQLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQI 634 Query: 600 MDYGILTDQSGKKISFRNVILIMTTNAGA--LEMSKARIGFGSSRNDDADK--------- 648 +D G LTD G+ I F+N ++IMT+N G+ +E + +GF S N ++K Sbjct: 635 LDDGRLTDSKGRTIDFKNTLIIMTSNLGSKVIETNSGGLGFELSENQLSEKQYKRLSNLV 694 Query: 649 -EALRNFLSPEFLNRLDSIIPFFPLSSDIIRQVVHKFIMKLELQLQEKGISFHFSEEVIN 707 E L+ F PEFLNRLD II F L+ + + ++ + L +L E+GI +E + Sbjct: 695 NEELKQFFRPEFLNRLDEIIVFRQLTKNDVWEIAEIMLKNLFKRLNEQGIQLEVTERIKT 754 Query: 708 WLVSHGYDVKMGARPLERIIKEHVKVPLADEILFGKLKKGGGVVKVSLNPDKSASSPIFF 767 L+ GY+ GARPL R I ++ PLA+E+L K+K G ++ V +N +K + Sbjct: 755 LLIEEGYNPLYGARPLRRAIMRLLEDPLAEEVLSFKIKPGDIII-VDVNDEKEVKILLIN 813 Query: 768 EIEN 771 + Sbjct: 814 KDNL 817 >gnl|CDD|36269 KOG1051, KOG1051, KOG1051, Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]. Length = 898 Score = 241 bits (616), Expect = 5e-64 Identities = 147/440 (33%), Positives = 218/440 (49%), Gaps = 39/440 (8%) Query: 4 FSENLEKVLHQALVLANERNHEYATLEHLLLALIDDSDAAIVML---SCNVDLKVLKNNL 60 +E VL QA+ A R H T H+ L+ + S + + L+ Sbjct: 12 LTEEAATVLKQAVTEARRRGHAQVTPLHVASTLLSSPTGILRRACIKSHPLQCRALELCF 71 Query: 61 LNYIDNDSSNKL-KNGFRVECKP-TSSFQRVVQRAVLHVQSTGRGIVTGANILVALFSEP 118 N S N+L + ++ +R + + V + L Sbjct: 72 -----NVSLNRLPTSYGPPVSNALMAALKRAQAHQRRGCEEQQQQAVKVELEQLILSILD 126 Query: 119 DSHATYFLQEQEMTLYDAVNFISHGISKRKEFANFQSKLNVDGSSAGSDGEGFVNDYQAK 178 D + ++E F S + E + Sbjct: 127 DPSVSRVMRE--------AGFSSSAVKSAVE--QPVGQFRSPSRGPLWP----------- 165 Query: 179 TDLNLFPALSAYCVDLTEKVKKGKVDILVGRH-EEINRTIQILCRRSKNNPLYVGDPGVG 237 L Y DLT + ++GK+D ++GRH EEI R I+IL R++KNNP+ VG+PGVG Sbjct: 166 -----LLFLENYGTDLTPRARQGKLDPVIGRHDEEIRRVIEILSRKTKNNPVLVGEPGVG 220 Query: 238 KTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFEERIKKIVKEIESYA- 296 KTAI EG A++I G VP+ L ++ +LD G+L+AG + RG+FEER+K+++KE+ES Sbjct: 221 KTAIVEGLAQRIATGDVPETLKDKKLIALDFGSLVAGAKRRGEFEERLKELLKEVESGGG 280 Query: 297 NAILYIDEIHTLVGAGSASGISVDASNLLKPALSSGAVRCIGSTTYSEYRQFFEKDKALV 356 IL++ E+H LVG+GS G ++DA+NLLKP L+ G + CIG+TT YR+ EKD AL Sbjct: 281 GVILFLGELHWLVGSGSNYG-AIDAANLLKPLLARGGLWCIGATTLETYRKCIEKDPALE 339 Query: 357 RRFQKIDVSEPSIEDAIEIVKGIKPYFEEHHQLRYSKEAIRAAVQLSVRHFTSRKLPDKA 416 RR+Q + V PS+E+ I+ G+ +E HH +R S E++ +A QLS R+ T LPD A Sbjct: 340 RRWQLVLVPIPSVENLSLILPGLSERYEVHHGVRISDESLFSAAQLSARYITLSFLPDCA 399 Query: 417 IDVIDEAGASQILQPLSKRR 436 ID+ DEA A Q S Sbjct: 400 IDLEDEAAALVKSQAESLPP 419 Score = 224 bits (571), Expect = 9e-59 Identities = 126/347 (36%), Positives = 190/347 (54%), Gaps = 23/347 (6%) Query: 413 PDKAIDVIDEAGASQILQPLSKRRKFITEKDIKKTIASMNRSIHTTSFSRDDDSVLSNLE 472 D + G E DI + + S I + + L LE Sbjct: 499 NDYTRETDLRYGRIPDELSEKSNDNQGGESDISE-VVSRWTGIPVDRLAEAEAERLKKLE 557 Query: 473 KNLGTVVYGQEEAIKKLSSSIKIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQLA---F 529 + L V GQ+EA+ ++++I+ +RAGL DPN P ++F GP GVGKTE++K LA F Sbjct: 558 ERLHERVIGQDEAVAAIAAAIRRSRAGLKDPN-PDAWFLFLGPDGVGKTELAKALAEYVF 616 Query: 530 ALGVQLLRFDMSEYMERHAVSRLIGAPPGYVGFGQGGILADSVDQNPYSVVLLDEIEKSH 589 +R DMSE+ E VS+LIG+PPGYVG +GG L ++V + PYSVVL +EIEK+H Sbjct: 617 GSEENFIRLDMSEFQE---VSKLIGSPPGYVGKEEGGQLTEAVKRRPYSVVLFEEIEKAH 673 Query: 590 PDVLNILLQIMDYGILTDQSGKKISFRNVILIMTTNAGALE-MSKARIGFGSSRND---- 644 PDVLNILLQ++D G LTD G+++ F+N I IMT+N G+ + A + D Sbjct: 674 PDVLNILLQLLDRGRLTDSHGREVDFKNAIFIMTSNVGSSAIANDASLEEKLLDMDEKRG 733 Query: 645 ----------DADKEALRNFLSPEFLNRLDSIIPFFPLSSDIIRQVVHKFIMKLELQLQE 694 DA + + F EFLNR+D + PL D + ++V+K + ++E +L+E Sbjct: 734 SYRLKKVQVSDAVRIYNKQFFRKEFLNRIDELDLNLPLDRDELIEIVNKQLTEIEKRLEE 793 Query: 695 KGISFHFSEEVINWLVSHGYDVKMGARPLERIIKEHVKVPLADEILF 741 + + ++ V + ++ GYD GARP++R I+E + LA+ +L Sbjct: 794 RELLLLVTDRVDDKVLFKGYDFDYGARPIKRSIEERFENRLAEALLG 840 >gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.. Length = 151 Score = 83.3 bits (206), Expect = 2e-16 Identities = 40/158 (25%), Positives = 60/158 (37%), Gaps = 14/158 (8%) Query: 207 VGRHEEINRTIQILCRRSKNNPLYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSL 266 VG+ E I + L N L G PG GKT +A A ++ GA L Sbjct: 1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANEL-------FRPGAPFLYL 53 Query: 267 DMGNLIAGTRYRGDFEERIKKIVKEIESYA-NAILYIDEIHTLVGAGSASGISVDASNLL 325 + +L+ G F + +++ E+ A +L+IDEI +L + A + L Sbjct: 54 NASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSL--SRGAQNALLRVLETL 111 Query: 326 KPAL-SSGAVRCIGSTTYSEYRQFFEKDKALVRRFQKI 362 VR IG+T D+AL R Sbjct: 112 NDLRIDRENVRVIGATNRPLLGDL---DRALYDRLDIR 146 Score = 69.9 bits (171), Expect = 3e-12 Identities = 37/149 (24%), Positives = 62/149 (41%), Gaps = 24/149 (16%) Query: 480 YGQEEAIKKLSSSIKIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQLA---FALGVQLL 536 GQEEAI+ L +++ P + GP G GKT +++ +A F G L Sbjct: 1 VGQEEAIEALREALE---------LPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFL 51 Query: 537 RFDMSEYMERHAVSRLIGAPPGYVGFGQGGILADSVDQNPYSVVLLDEIEKSHPDVLNIL 596 + S+ +E V+ L G + F ++ V+ +DEI+ N L Sbjct: 52 YLNASDLLEGLVVAELFGHFLVRLLFEL-------AEKAKPGVLFIDEIDSLSRGAQNAL 104 Query: 597 LQIMDYGILTDQSGKKISFRNVILIMTTN 625 L++++ +I NV +I TN Sbjct: 105 LRVLETLNDL-----RIDRENVRVIGATN 128 >gnl|CDD|143797 pfam00004, AAA, ATPase family associated with various cellular activities (AAA). AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes. Length = 131 Score = 70.7 bits (174), Expect = 1e-12 Identities = 41/142 (28%), Positives = 65/142 (45%), Gaps = 25/142 (17%) Query: 229 LYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFEERIKKI 288 L G PG GKT +A+ AK+ LGA + L++ Y G+ E+R++++ Sbjct: 2 LLYGPPGTGKTTLAKAVAKE----------LGAPFIEISGSELVSK--YVGESEKRLREL 49 Query: 289 VKEIESYANAILYIDEIHTLVGAGSASGISV--DASNLLKPAL-----SSGAVRCIGSTT 341 + + A +++IDEI L G+ + G S N L L S V I +T Sbjct: 50 FEAAKKLAPCVIFIDEIDALAGSRGSGGDSESRRVVNQLLTELDGFTSSLSKVIVIAATN 109 Query: 342 YSEYRQFFEKDKALVR-RFQKI 362 + + D AL+R RF +I Sbjct: 110 RPD-----KLDPALLRGRFDRI 126 Score = 55.7 bits (135), Expect = 5e-08 Identities = 32/125 (25%), Positives = 47/125 (37%), Gaps = 29/125 (23%) Query: 512 FSGPTGVGKTEISKQLAFALGVQLLRFDMSEYMERHAVSRLIGAPPGYVGFGQGGILADS 571 GP G GKT ++K +A LG + SE VS+ +G + + + Sbjct: 3 LYGPPGTGKTTLAKAVAKELGAPFIEISGSE-----LVSKYVGESEKRL----RELFEAA 53 Query: 572 VDQNPYSVVLLDEIEKSHP-----------DVLNILLQIMDYGILTDQSGKKISFRNVIL 620 P V+ +DEI+ V+N LL +D G S VI+ Sbjct: 54 KKLAP-CVIFIDEIDALAGSRGSGGDSESRRVVNQLLTELD--------GFTSSLSKVIV 104 Query: 621 IMTTN 625 I TN Sbjct: 105 IAATN 109 >gnl|CDD|37381 KOG2170, KOG2170, KOG2170, ATPase of the AAA+ superfamily [General function prediction only]. Length = 344 Score = 67.6 bits (165), Expect = 1e-11 Identities = 64/264 (24%), Positives = 107/264 (40%), Gaps = 35/264 (13%) Query: 468 LSNLEKNLGTVVYGQEEAIKKLSSSIKIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQL 527 L LEK+L ++GQ A + + +++K A +P KP+ F G TG GK +++ + Sbjct: 73 LDGLEKDLARALFGQHLAKQLVVNALKSHWAN-PNPRKPL-VLSFHGWTGTGKNYVAEII 130 Query: 528 AFALGVQLLRFDMSEYMERHAVSRLIGAPPGYVGFGQGGI---LADSVDQNPYSVVLLDE 584 A L LR S ++ H V+ L + + + + +V S+ + DE Sbjct: 131 AENLYRGGLR---SPFV-HHFVATLHFPHASKIEDYKEELKNRVRGTVQACQRSLFIFDE 186 Query: 585 IEKSHPDVLNILLQIMDYGILTDQSGKKISFRNVILIMTTNAGALEMSKARIGF---GSS 641 ++K P +L++L +DY + FR I I +NAG E+++ + G Sbjct: 187 VDKLPPGLLDVLKPFLDYYPQVS----GVDFRKAIFIFLSNAGGSEIARIALENARNGKP 242 Query: 642 RNDDADKEALRNFLSPEF--------------LNRLDSIIPFFPLSSDIIRQVVHKFIMK 687 R K + F N +D IPF PL +R + + Sbjct: 243 REQLRLKSFEPALMQSAFNEKAGGLVHSRLISNNLIDHFIPFLPLEKRHVRSCI-----R 297 Query: 688 LELQLQEKGISFHFSEEVINWLVS 711 EL+ + F E V N L Sbjct: 298 AELRKRGLAPDQDFVERVANSLSF 321 >gnl|CDD|31058 COG0714, COG0714, MoxR-like ATPases [General function prediction only]. Length = 329 Score = 63.6 bits (154), Expect = 2e-10 Identities = 58/250 (23%), Positives = 105/250 (42%), Gaps = 25/250 (10%) Query: 468 LSNLEKNLGTVVYGQEEAIKKLSSSIKIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQL 527 L + L VV G EE I+ ++ L GP GVGKT +++ L Sbjct: 15 LGKIRSELEKVVVGDEEVIELALLALLAGGHVL-----------LEGPPGVGKTLLARAL 63 Query: 528 AFALGVQLLRFDMSEYMERHAVSRLIGAPPGYVGFGQGGILADSVDQNPYSVVLLDEIEK 587 A ALG+ +R + + + + G+ + + ++LLDEI + Sbjct: 64 ARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFRFVPGPLFAAVRVILLLDEINR 123 Query: 588 SHPDVLNILLQIMDYGILTDQSGKKISFRN-VILIMTTNAGALEMSKARIGFGSSRNDDA 646 + P+V N LL+ ++ +T I I+I T N G E G+ +A Sbjct: 124 APPEVQNALLEALEERQVTVPGLTTIRLPPPFIVIATQNPGEYE--------GTYPLPEA 175 Query: 647 --DKEALRNFLS-PEFLNRLDSIIPFFPLSSDIIRQVVHKFIMKLE--LQLQEKGISFHF 701 D+ LR ++ P+ I+ ++ + + K ++ E L+LQ++ Sbjct: 176 LLDRFLLRIYVDYPDSEEEERIILARVGGVDELDLESLVKPVLSDEELLRLQKEVKKVPV 235 Query: 702 SEEVINWLVS 711 S+EVI+++V+ Sbjct: 236 SDEVIDYIVT 245 Score = 41.6 bits (97), Expect = 8e-04 Identities = 50/236 (21%), Positives = 75/236 (31%), Gaps = 31/236 (13%) Query: 204 DILVGRHEEINRTIQILCRRSKNNPLYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARI 263 ++VG E I + L + + L G PGVGKT +A A+ + I + Sbjct: 24 KVVVGDEEVIELAL--LALLAGGHVLLEGPPGVGKTLLARALARAL-GLPFVRIQCTPDL 80 Query: 264 FSLDM-GNLIAGTRYRGDFEERIKKIVKEIESYANAILYIDEIHTLVGAGSASGISVDAS 322 D+ G E R + + IL +DEI+ + Sbjct: 81 LPSDLLGTYAYAALLLEPGEFRFVP--GPLFAAVRVILLLDEINR---------APPEVQ 129 Query: 323 NLLKPALSSGAVRCIGSTTYSEYRQFF--------------EKDKALVRRFQ-KIDVSEP 367 N L AL V G TT F +AL+ RF +I V P Sbjct: 130 NALLEALEERQVTVPGLTTIRLPPPFIVIATQNPGEYEGTYPLPEALLDRFLLRIYVDYP 189 Query: 368 SIEDAIEIVKGIKPYFEEHHQLRYSKEAIRAAVQL-SVRHFTSRKLPDKAIDVIDE 422 E+ I+ +E K + L + + D+ ID I Sbjct: 190 DSEEEERIILARVGGVDELDLESLVKPVLSDEELLRLQKEVKKVPVSDEVIDYIVT 245 >gnl|CDD|35949 KOG0730, KOG0730, KOG0730, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 693 Score = 53.4 bits (128), Expect = 2e-07 Identities = 108/519 (20%), Positives = 174/519 (33%), Gaps = 128/519 (24%) Query: 209 RHEEINRTIQILCRRSKNNPLYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDM 268 RH + ++I I + L G PG GKT + A + GA +F ++ Sbjct: 205 RHPALFKSIGI---KPPRGLLLYGPPGTGKTFLVRAVANEY----------GAFLFLING 251 Query: 269 GNLIAGTRYRGDFEERIKKIVKEIESYAN-AILYIDEIHTLVG-----AGSASGISVDAS 322 LI+ + G+ E ++K E + +I++IDE+ L S + Sbjct: 252 PELISK--FPGETESNLRKAFAEALKFQVPSIIFIDELDALCPKREGADDVESRVVSQLL 309 Query: 323 NLLKPALSSGAVRCIGSTTYSEYRQFFEKDKALVR-RF-QKIDVSEPSIEDAIEIVK--G 378 LL V + +T + D AL R RF +++++ P + ++I++ Sbjct: 310 TLLDGLKPDAKVIVLAATNRPD-----SLDPALRRGRFDREVEIGIPGSDGRLDILRVLT 364 Query: 379 IKPYFEEHHQLRYSKE-----AIRAAVQLSVRHFTSRKLPDKAIDVIDEAGASQILQPLS 433 K L L + + + + S Sbjct: 365 KKMNLLSDVDLEDIAVSTHGYVGADLAALCREA-SLQATRRTLEIFQEALMGIRP----S 419 Query: 434 KRRKFITEKDIKKTIASMNRSIHTTSFSRDDDSVLSNLEKNLGTVVYGQEEAIKKLSSSI 493 R+ + E S+ DD L L++ L Q+ L Sbjct: 420 ALREILVEMP-------------NVSW--DDIGGLEELKREL------QQAVEWPLKHPE 458 Query: 494 KIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQLAFALGVQLLRFDMSEYMERHAVSRLI 553 K AR G+S P + GP G GKT ++K LA G+ L E + Sbjct: 459 KFARFGISPPKGVL----LYGPPGCGKTLLAKALANEAGMNFLSVKGPELFSK------- 507 Query: 554 GAPPGYVGFGQGGI--LADSVDQNPYSVVLLDEIEKSHPD-----------VLNILLQIM 600 YVG + I + Q ++ DEI+ VL+ LL M Sbjct: 508 -----YVGESERAIREVFRKARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEM 562 Query: 601 DYGILTDQSGKKISFRNVILIMTTNAGALEMSKARIGFGSSRNDDADKEALRNFLSPEFL 660 D G+ + NV++I TN R D D LR Sbjct: 563 D-GLEALK--------NVLVIAATN----------------RPDMIDPALLRP------- 590 Query: 661 NRLDSIIPFFPLSS-----DIIRQVVHKFIMKLELQLQE 694 RLD II + PL +I++Q K ++ L+E Sbjct: 591 GRLDRII-YVPLPDLEARLEILKQCAKKMPFSEDVDLEE 628 Score = 29.1 bits (65), Expect = 5.0 Identities = 44/219 (20%), Positives = 74/219 (33%), Gaps = 37/219 (16%) Query: 471 LEKNLGTVVYGQEEAIKKLSSSIKIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQLAFA 530 L++ L + E ++ + I G+ P + GP G GKT + + +A Sbjct: 189 LKRQLSVIRELVELPLRHPALFKSI---GIKPPRGLL----LYGPPGTGKTFLVRAVANE 241 Query: 531 LGVQLLRFDMSEYMERHAVSRLIGAPPGYVGFGQGGILADSVDQNPYSVVLLDEIEKSHP 590 G L + E LI PG A+++ S++ +DE++ P Sbjct: 242 YGAFLFLINGPE---------LISKFPGETESNLRKAFAEALKFQVPSIIFIDELDALCP 292 Query: 591 DVLNILLQIMDYGILTDQSGKKISFRNVILIMTTNAGALEMSKARIGFGSSRNDDADKEA 650 + R V ++T G +K I ++ D+ A Sbjct: 293 KREGA---------------DDVESRVVSQLLTLLDGLKPDAKV-IVLAATNRPDSLDPA 336 Query: 651 LRNFLSPEFLNRLDSIIPFFPLSSDIIRQVVHKFIMKLE 689 LR F ++ IP DI+R V M L Sbjct: 337 LRR---GRFDREVEIGIPGSDGRLDILR--VLTKKMNLL 370 >gnl|CDD|30812 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]. Length = 494 Score = 52.5 bits (125), Expect = 5e-07 Identities = 90/485 (18%), Positives = 158/485 (32%), Gaps = 96/485 (19%) Query: 277 YRGDFEERIKKIVKEIESYANAILYIDEIHTLVGAGSASGISVDASNLLKPALSSGAVRC 336 Y G+ E R++++ +E E A +I++IDEI L S+ V Sbjct: 57 YVGESELRLRELFEEAEKLAPSIIFIDEIDALAPKRSSDQGEV----------------- 99 Query: 337 IGSTTYSEYRQFFEKDKALVRRFQKIDVSEPSIEDAIEIVKGIKPYFEEHHQLRYSKEAI 396 Q L +R Q I + + D ++ K F+ ++ EA Sbjct: 100 ----ERRVVAQLLALMDGL-KRGQVIVIGATNRPDGLDPAKRRPGRFDREIEVNLPDEAG 154 Query: 397 RAAVQLSVRHFTSRKLPDKAIDVIDE------AGASQILQPLSKRRKFITEKDIKKTIA- 449 R + P + A + + + R + + I Sbjct: 155 RLEILQIHTRLMFLGPPGTGKTLAARTVGKSGADLGALAKEAALRELRRAIDLVGEYIGV 214 Query: 450 SMNRSIHTTSFSRDDDSVLSNLEKNLGTVVYGQEEAIKKLSSSI----KIARAGLSDPNK 505 + + VL E + G EEA ++L +I K + Sbjct: 215 TEDDFEEALKKVLPSRGVLFEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLR 274 Query: 506 PIGCYVFSGPTGVGKTEISKQLAFALGVQLLRFDMSEYMERHAVSRLIGAPPGYVGFGQG 565 P + GP G GKT ++K +A + + SE + S+ +G + Sbjct: 275 PPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELL-----SKWVGESEKNI----- 324 Query: 566 GILADSVDQNPYSVVLLDEIEK-----------SHPDVLNILLQIMDYGILTDQSGKKIS 614 L + + S++ +DEI+ S V+ LL +D GI Sbjct: 325 RELFEKARKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELD-GIE--------K 375 Query: 615 FRNVILIMTTNAGALEMSKARIGFGSSRNDDADKEALRNFLSPEFLNRLDSIIPFFPLSS 674 V++I TN R DD D LR R D +I + PL Sbjct: 376 AEGVLVIAATN----------------RPDDLDPALLRP-------GRFDRLI-YVPLPD 411 Query: 675 DIIRQVVHKFIMKLELQLQEKGISFHFSEEVINWLVSHGYDVKMGARPLERIIKEHVKVP 734 R I K+ L+ ++ +E+V ++ + GA + +++E Sbjct: 412 LEERLE----IFKIHLRDKKP----PLAEDVDLEELAEITEGYSGAD-IAALVREAALEA 462 Query: 735 LADEI 739 L + Sbjct: 463 LREAR 467 >gnl|CDD|31412 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]. Length = 408 Score = 51.0 bits (122), Expect = 1e-06 Identities = 77/319 (24%), Positives = 124/319 (38%), Gaps = 71/319 (22%) Query: 471 LEKNLGTVVYGQEEAIKKLSSSIKIARAGLSDPNKPIGCYVFS------GPTGVGKTEIS 524 ++ +L V GQE+A K LS ++ L++ + GPTG GKT ++ Sbjct: 55 IKAHLDEYVIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLA 114 Query: 525 KQLAFALGVQLLRFDMSEYMERHAVSRLIGAPPGYVGFGQGGIL------AD-SVDQNPY 577 + LA L V D + E GYVG IL AD V++ Sbjct: 115 QTLAKILNVPFAIADATTLTE-----------AGYVGEDVENILLKLLQAADYDVERAER 163 Query: 578 SVVLLDEIEK--------------SHPDVLNILLQIMDYGI--LTDQSGKKISFRNVILI 621 ++ +DEI+K S V LL+I++ + + Q G+K + I + Sbjct: 164 GIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKIIEGTVASVPPQGGRKHPQQEFIQV 223 Query: 622 MTTN-----AGALE---------MSKARIGFGSSRNDDADKEALRNFLS----------- 656 T+N GA + K IGFG+ + K+ L Sbjct: 224 DTSNILFICGGAFAGLEKIIKKRLGKKGIGFGAEVKSKSKKKEEGELLKQVEPEDLVKFG 283 Query: 657 --PEFLNRLDSIIPFFPLSSDIIRQVVHK----FIMKLELQLQEKGISFHFSEEVINWLV 710 PEF+ RL I L D + Q++ + + + + + G+ F+EE + + Sbjct: 284 LIPEFIGRLPVIATLEELDEDALVQILTEPKNALVKQYQKLFEMDGVELEFTEEALKAIA 343 Query: 711 SHGYDVKMGARPLERIIKE 729 + K GAR L II+E Sbjct: 344 KKAIERKTGARGLRSIIEE 362 Score = 29.0 bits (65), Expect = 6.0 Identities = 31/104 (29%), Positives = 49/104 (47%), Gaps = 16/104 (15%) Query: 224 SKNNPLYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRG-DFE 282 SK+N L +G G GKT +A+ AK I++ VP F++ + Y G D E Sbjct: 96 SKSNILLIGPTGSGKTLLAQTLAK-ILN--VP--------FAIADATTLTEAGYVGEDVE 144 Query: 283 ERIKKIVK----EIESYANAILYIDEIHTLVGAGSASGISVDAS 322 + K+++ ++E I+YIDEI + I+ D S Sbjct: 145 NILLKLLQAADYDVERAERGIIYIDEIDKIARKSENPSITRDVS 188 >gnl|CDD|145814 pfam02861, Clp_N, Clp amino terminal domain. This short domain is found in one or two copies at the amino terminus of ClpA and ClpB proteins from bacteria and eukaryotes. The function of these domains is uncertain but they may form a protein binding site. Length = 53 Score = 48.7 bits (117), Expect = 6e-06 Identities = 20/53 (37%), Positives = 29/53 (54%), Gaps = 2/53 (3%) Query: 15 ALVLANERNHEYATLEHLLLALIDDSD--AAIVMLSCNVDLKVLKNNLLNYID 65 A LA E H+Y EHLLLAL+++ D AA ++ VDL L+ + + Sbjct: 1 AQELAKELGHQYIGTEHLLLALLEEDDGIAARLLKKAGVDLDALREAIEKLLG 53 >gnl|CDD|37215 KOG2004, KOG2004, KOG2004, Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]. Length = 906 Score = 46.9 bits (111), Expect = 2e-05 Identities = 35/103 (33%), Positives = 52/103 (50%), Gaps = 14/103 (13%) Query: 506 PIGCYVFSGPTGVGKTEISKQLAFALGVQLLRFDMSEYMERHAVSRLIGAPPGYVGFGQG 565 I C F GP GVGKT I+K +A AL + RF + + V+ + G YVG G Sbjct: 439 KILC--FVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTD---VAEIKGHRRTYVGAMPG 493 Query: 566 GI---LADSVDQNPYSVVLLDEIEK----SHPDVLNILLQIMD 601 I L +NP ++L+DE++K D + LL+++D Sbjct: 494 KIIQCLKKVKTENP--LILIDEVDKLGSGHQGDPASALLELLD 534 Score = 32.2 bits (73), Expect = 0.63 Identities = 35/120 (29%), Positives = 59/120 (49%), Gaps = 32/120 (26%) Query: 196 EKVKKGKVD-ILVGRHEEINRTIQ--ILCRRSKNNPLYVGDPGVGKTAIAEGFAKQIVDG 252 E VK+ ++ I VG+ + ++Q ILC +VG PGVGKT+IA+ A+ Sbjct: 417 EDVKERILEFIAVGK---LRGSVQGKILC--------FVGPPGVGKTSIAKSIARA---- 461 Query: 253 MVPDILLGARIFSLDMGNL-----IAGTR--YRGDFEERIKKIVKEIESYANAILYIDEI 305 L + F +G + I G R Y G +I + +K++++ N ++ IDE+ Sbjct: 462 ------LNRKFFRFSVGGMTDVAEIKGHRRTYVGAMPGKIIQCLKKVKT-ENPLILIDEV 514 >gnl|CDD|31416 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General function prediction only]. Length = 368 Score = 44.6 bits (105), Expect = 1e-04 Identities = 56/271 (20%), Positives = 111/271 (40%), Gaps = 39/271 (14%) Query: 192 VDLTEKVKKGKVDILVGRHEEINRTIQILCRRSKN----------NPLYVGDPGVGKTAI 241 + E + +D ++G EE R +++ +N N L+ G PG GKT + Sbjct: 109 EEDREIISDITLDDVIG-QEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMM 167 Query: 242 AEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFEERIKKIVKEIESYANAILY 301 A+ A + VP +L+ A LI + GD RI ++ + A I++ Sbjct: 168 AKALANEA---KVPLLLVKA-------TELIG--EHVGDGARRIHELYERARKAAPCIVF 215 Query: 302 IDEIHTLVGAGSASGISVDASNLLKPALSS--GAVRCIGSTTYSEYRQFFEKDKALVRRF 359 IDE+ + + D S ++ L+ G G T + + D A+ RF Sbjct: 216 IDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIAATNRPELLDPAIRSRF 275 Query: 360 Q-KIDVSEPSIEDAIEIVKGIKPYFEEHHQLRYSKEAIRAAVQLSVRHFTSRKLPDKAID 418 + +I+ P+ E+ +EI L Y + V +R+ ++ D Sbjct: 276 EEEIEFKLPNDEERLEI-------------LEYYAKKFPLPVDADLRYLAAKTKGMSGRD 322 Query: 419 VIDEAGASQILQPLSKRRKFITEKDIKKTIA 449 + ++ + + + +++ R+ + +DI+K + Sbjct: 323 IKEKVLKTALHRAIAEDREKVEREDIEKALK 353 Score = 34.9 bits (80), Expect = 0.082 Identities = 47/187 (25%), Positives = 71/187 (37%), Gaps = 46/187 (24%) Query: 407 FTSRKLPDKAIDVIDEAGASQILQPLSKRRKFITEKDIKKTIASMNRSIHTTSFSRDDDS 466 F +R PD A VI + + + T ++ + I S + DD Sbjct: 73 FDTRMFPDYAFKVIRVVPSGGGIITSTTIFVLETPREEDREIIS--------DITLDD-- 122 Query: 467 VLSNLEKNLGTVVYGQEEAIKKLSSSIKIARAGLSDPNK-----PIGCYVFSGPTGVGKT 521 V GQEEA +K ++ L +P + P +F GP G GKT Sbjct: 123 ------------VIGQEEAKRKCRLIMEY----LENPERFGDWAPKNV-LFYGPPGTGKT 165 Query: 522 EISKQLAFALGVQLLRFDMSEYMERHAVSRLIGAPPGYVGFGQGGI--LADSVDQNPYSV 579 ++K LA V LL +E LIG +VG G I L + + + Sbjct: 166 MMAKALANEAKVPLLLVKATE---------LIGE---HVGDGARRIHELYERARKAAPCI 213 Query: 580 VLLDEIE 586 V +DE++ Sbjct: 214 VFIDELD 220 >gnl|CDD|30814 COG0466, Lon, ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]. Length = 782 Score = 43.2 bits (102), Expect = 2e-04 Identities = 50/153 (32%), Positives = 69/153 (45%), Gaps = 39/153 (25%) Query: 468 LSNLEKNLGTVVYGQEE---------AIKKLSSSIKIARAGLSDPNKPIGCYVFSGPTGV 518 L EK L YG E+ A++KL+ +K PI C V GP GV Sbjct: 314 LKKAEKILDKDHYGLEKVKERILEYLAVQKLTKKLK----------GPILCLV--GPPGV 361 Query: 519 GKTEISKQLAFALGVQLLRF------DMSEYMERHAVSRLIGAPPGYVGFGQGGILADSV 572 GKT + K +A ALG + +R D +E R IGA PG + G + + Sbjct: 362 GKTSLGKSIAKALGRKFVRISLGGVRDEAEI--RGHRRTYIGAMPGKIIQG----MKKAG 415 Query: 573 DQNPYSVVLLDEIEK----SHPDVLNILLQIMD 601 +NP V LLDEI+K D + LL+++D Sbjct: 416 VKNP--VFLLDEIDKMGSSFRGDPASALLEVLD 446 Score = 30.9 bits (70), Expect = 1.5 Identities = 62/258 (24%), Positives = 100/258 (38%), Gaps = 60/258 (23%) Query: 219 ILCRRSKNNPLYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNL-----IA 273 ILC VG PGVGKT++ + AK LG + + +G + I Sbjct: 352 ILC--------LVGPPGVGKTSLGKSIAKA----------LGRKFVRISLGGVRDEAEIR 393 Query: 274 GTR--YRGDFEERIKKIVKEIESYANAILYIDEIHTLVGAGSASGISVDASNLLKPALSS 331 G R Y G +I + +K+ N + +DEI + S D ++ L L Sbjct: 394 GHRRTYIGAMPGKIIQGMKKAGV-KNPVFLLDEIDKM-----GSSFRGDPASALLEVLDP 447 Query: 332 GAVRCIGSTTYSEYRQFFEKD-----------------KALVRRFQKIDVSEPSIEDAIE 374 + T+S++ D L+ R + I +S + ++ +E Sbjct: 448 EQ-----NNTFSDHYLEVPYDLSKVMFIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLE 502 Query: 375 IVKG--IKPYFEEH----HQLRYSKEAIRAAVQLSVRHFTSRKLPDKAIDVIDEAGASQI 428 I K I +EH +L + EAI+ ++ R R L ++ I I A +I Sbjct: 503 IAKRHLIPKQLKEHGLKKGELTITDEAIKDIIRYYTREAGVRNL-EREIAKICRKAAKKI 561 Query: 429 LQPLSKRRKFITEKDIKK 446 L K I EK++KK Sbjct: 562 LLKKEKSIVKIDEKNLKK 579 >gnl|CDD|35957 KOG0738, KOG0738, KOG0738, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 491 Score = 43.4 bits (102), Expect = 2e-04 Identities = 58/258 (22%), Positives = 101/258 (39%), Gaps = 58/258 (22%) Query: 156 KLNVDGSSAGSDGEGFVNDYQAKTDLNLFPALSAYCVDLTEKVKKGKVDILVG----RHE 211 +G S G K + F +L Y DL E +++ DIL + + Sbjct: 157 ARETNGESKGLGNSNEQPHASLKGEDKKFDSL-GYDADLVEALER---DILQRNPNIKWD 212 Query: 212 EI---NRTIQIL----------------CRRSKNNPLYVGDPGVGKTAIAEGFAKQIVDG 252 +I + ++L RR L VG PG GKT +A+ A + Sbjct: 213 DIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATEC--- 269 Query: 253 MVPDILLGARIFSLDMGNLIAGTRYRGDFEERIKKIVKEIESYANAILYIDEIHTLVGAG 312 G F++ L +++RG+ E+ ++ + + YA + ++IDEI +L Sbjct: 270 -------GTTFFNVSSSTLT--SKWRGESEKLVRLLFEMARFYAPSTIFIDEIDSLCSQR 320 Query: 313 SASGISVDASNLLKPAL------------SSGAVRCIGSTTYSEYRQFFEKDKALVRRFQ 360 S +AS +K L +S V + +T + ++ D+AL RR + Sbjct: 321 GGSS-EHEASRRVKSELLVQMDGVQGTLENSKVVMVLAATNFP-----WDIDEALRRRLE 374 Query: 361 K-IDVSEPSIEDAIEIVK 377 K I + P E ++K Sbjct: 375 KRIYIPLPDAEARSALIK 392 >gnl|CDD|35952 KOG0733, KOG0733, KOG0733, Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]. Length = 802 Score = 43.1 bits (101), Expect = 3e-04 Identities = 23/77 (29%), Positives = 40/77 (51%), Gaps = 12/77 (15%) Query: 229 LYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFEERIKKI 288 L G PG GKT++A A + LG S+ +++G G+ E++I+++ Sbjct: 227 LLHGPPGCGKTSLANAIAGE----------LGVPFLSISAPEIVSG--VSGESEKKIREL 274 Query: 289 VKEIESYANAILYIDEI 305 + +S A I++IDEI Sbjct: 275 FDQAKSNAPCIVFIDEI 291 Score = 31.9 bits (72), Expect = 0.75 Identities = 54/234 (23%), Positives = 84/234 (35%), Gaps = 42/234 (17%) Query: 417 IDVIDEAGASQILQPLSKRRKFITEKDIKKTIASMN-----RSIHTTSFSRDDDSVLSNL 471 I+V ++L +KR + TE K A M S+H + + L Sbjct: 121 IEVDSNEANKKLLSLWAKRAEKRTEDSKPKNHAEMIVPGTKVSLHLSLARGILRQFVEGL 180 Query: 472 EKNLGTVVY----GQEEAIKKLSS---SIKIARAGLSDPNKPIGCYVFSGPTGVGKTEIS 524 E V + G ++ + +L IK S +P + GP G GKT ++ Sbjct: 181 EFPESNVSFSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLA 240 Query: 525 KQLAFALGVQLLRFDMSEYMERHAVSRLIGAPPGYVGFGQGGI--LADSVDQNPYSVVLL 582 +A LGV L E ++ G G + I L D N +V + Sbjct: 241 NAIAGELGVPFLSISAPE---------IVS---GVSGESEKKIRELFDQAKSNAPCIVFI 288 Query: 583 DEIEKSHPD-----------VLNILLQIMDYGILTDQSGKKISFRNVILIMTTN 625 DEI+ P ++ LL MD + S +K V++I TN Sbjct: 289 DEIDAITPKREEAQREMERRIVAQLLTSMD-----ELSNEKTKGDPVLVIGATN 337 >gnl|CDD|34868 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]. Length = 4600 Score = 42.8 bits (100), Expect = 3e-04 Identities = 30/168 (17%), Positives = 66/168 (39%), Gaps = 5/168 (2%) Query: 514 GPTGVGKTEISKQLAFALGVQLLRFDMSEYMERHAVSRLIGAP-PGYVGFGQGGILADSV 572 G G GK+ + +L G +++ + E + + +P PG + G+L ++V Sbjct: 156 GGRGSGKSFLISELCDEGGQRIVEIHLREITDAKVLIGTYTSPKPGDFEW-MKGVLIEAV 214 Query: 573 DQNPYSVVLLDEIEKSHPDVLNILLQIMDYGILTDQS-GKKISFRNVILIMTTNAGALEM 631 + +L I+K+ VL+ LL +++ L S G+ + + I T++ ++ Sbjct: 215 VSGDW--ILFKRIDKAPHGVLSYLLTLLEKRRLLIPSRGETVLAHDNFQIFFTSSMKTKI 272 Query: 632 SKARIGFGSSRNDDADKEALRNFLSPEFLNRLDSIIPFFPLSSDIIRQ 679 R+ + + F P+ + + F+ Q Sbjct: 273 LGQRLWQILDLTQPDECVEVVRFDMPDLVFVGPLLFVFYKAIEMFEAQ 320 Score = 30.4 bits (68), Expect = 1.9 Identities = 31/100 (31%), Positives = 43/100 (43%), Gaps = 8/100 (8%) Query: 505 KPIGCYVFSGPTGVGKTEISKQLAFALGVQLLRFDMSEYMERHAV--SRLIGAPPGYVGF 562 KPI + G GVGKT + LA G +L+R ++SE + + S L G + Sbjct: 1544 KPI---LLEGSPGVGKTSLITALARKTGKKLIRINLSEQTDLCDLFGSDLPVEEGGEFRW 1600 Query: 563 GQGGILADSVDQNPYSVVLLDEIEKSHPDVLNILLQIMDY 602 L D VLLDEI + VL L +D+ Sbjct: 1601 MDAPFLHAMRDGG---WVLLDEINLASQSVLEGLNACLDH 1637 Score = 29.7 bits (66), Expect = 3.6 Identities = 25/89 (28%), Positives = 47/89 (52%), Gaps = 4/89 (4%) Query: 514 GPTGVGKTEISKQLAFALGVQLLRFDMSEYME-RHAVSRLIGAPPGYVGFGQGGILADSV 572 GPT GKT + LA G + +R + E+ + + + + G + F + G+L +++ Sbjct: 895 GPTSSGKTSMILYLARETGHKFVRINNHEHTDLQEYIGTYVTDDDGSLSFKE-GVLVEAL 953 Query: 573 DQNPYSVVLLDEIEKSHPDVLNILLQIMD 601 + Y +V LDE+ + DVL L +++D Sbjct: 954 -RRGYWIV-LDELNLAPTDVLEALNRLLD 980 Score = 28.5 bits (63), Expect = 7.3 Identities = 36/208 (17%), Positives = 66/208 (31%), Gaps = 20/208 (9%) Query: 353 KALVRRFQKIDVSEPSIEDAIEIVKGIKPYFEEHHQLRYSKEAIRAAVQLSVRHFTSRKL 412 K+ + RF + + + +D I + P E +L+ K R + Sbjct: 1676 KSFLNRFSVVKMDGLTTDDITHIANKMYPQVNEDWRLKIIKFMSRLQDNIEKDISFGSFG 1735 Query: 413 PDKAIDVIDEAGASQILQPLSK--------------RRKFITEKDIKKTIASMNRSIHTT 458 ++ D +L + R+ T +D +T Sbjct: 1736 SPWEFNLRDTLRWLILLNQVGTLEDVDTSDFIDESVVRRMRTVEDRVRTCELFKEVFGDY 1795 Query: 459 SFSRDDDSVLSNLEKNLGTVVYGQEEAIKKLSSSIKIARAGLSDPNKPIGCY------VF 512 S+ S K +V +E +L S + + L + C + Sbjct: 1796 EPRTIGFSLSSQCFKVGHSVTVRMKERRPRLDDSFVLLHSQLQVLESVMRCINMNWPLIL 1855 Query: 513 SGPTGVGKTEISKQLAFALGVQLLRFDM 540 G TGVGKT + + LA G ++ F+ Sbjct: 1856 VGDTGVGKTSLLRFLASIFGQEMTLFNC 1883 >gnl|CDD|35964 KOG0745, KOG0745, KOG0745, Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]. Length = 564 Score = 41.1 bits (96), Expect = 0.001 Identities = 57/281 (20%), Positives = 103/281 (36%), Gaps = 77/281 (27%) Query: 514 GPTGVGKTEISKQLAFALGVQLLRFDMSEYMERHAVSRLIGAPPGYVGFGQGGILADSVD 573 GPTG GKT +++ LA L V D + + GYVG ++ + Sbjct: 233 GPTGSGKTLLAQTLARVLDVPFAICDCTTLTQ-----------AGYVGEDVESVIQKLLQ 281 Query: 574 QNPYSV-------VLLDEIEK--------------SHPDVLNILLQIMDYGILT-DQSGK 611 + Y+V V LDE++K S V LL++++ ++ + G Sbjct: 282 EAEYNVEKAQQGIVFLDEVDKITKKAESIHTSRDVSGEGVQQALLKLLEGTVVNVPEKGS 341 Query: 612 KISFRN-VILIMTTN-----AGAL---------EMSKARIGFGSSRN------------- 643 + R + I TTN +GA + +GFG+ + Sbjct: 342 RRKPRGDTVQIDTTNILFIASGAFVGLDKIISRRLDDKSLGFGAPSSKGVRANMATKSGV 401 Query: 644 -----------DDADKEALRNF-LSPEFLNRLDSIIPFFPLSSDIIRQVV----HKFIMK 687 + + L +F + PEF+ R ++P L D + +V+ + + Sbjct: 402 ENDAEKRDELLEKVESGDLISFGMIPEFVGRFPVLVPLHSLDEDQLVRVLTEPKNALGKQ 461 Query: 688 LELQLQEKGISFHFSEEVINWLVSHGYDVKMGARPLERIIK 728 + + HF+E+ + + K GAR L I++ Sbjct: 462 YKKLFGMDNVELHFTEKALEAIAQLALKRKTGARGLRSILE 502 Score = 32.7 bits (74), Expect = 0.40 Identities = 29/104 (27%), Positives = 49/104 (47%), Gaps = 16/104 (15%) Query: 224 SKNNPLYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRG-DFE 282 K+N L +G G GKT +A+ A+ ++D VP + + AG Y G D E Sbjct: 225 EKSNVLLLGPTGSGKTLLAQTLAR-VLD--VPFAICDCTTLTQ------AG--YVGEDVE 273 Query: 283 ERIKKIVKE----IESYANAILYIDEIHTLVGAGSASGISVDAS 322 I+K+++E +E I+++DE+ + + S D S Sbjct: 274 SVIQKLLQEAEYNVEKAQQGIVFLDEVDKITKKAESIHTSRDVS 317 >gnl|CDD|35959 KOG0740, KOG0740, KOG0740, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 428 Score = 40.8 bits (95), Expect = 0.001 Identities = 40/168 (23%), Positives = 69/168 (41%), Gaps = 26/168 (15%) Query: 221 CRRSKNNPLYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGD 280 R L G PG GKT +A+ A + GA F++ +L + +Y G+ Sbjct: 182 LREPVRGLLLFGPPGTGKTMLAKAIATE----------SGATFFNISASSLTS--KYVGE 229 Query: 281 FEERIKKIVKEIESYANAILYIDEIHTLVGAGSASGISVD--------ASNLLKPALSSG 332 E+ ++ + K S ++++IDEI +L+ S + K + Sbjct: 230 SEKLVRALFKVARSLQPSVIFIDEIDSLLSKRSDNEHESSRRLKTEFLLQFDGKNSAPDD 289 Query: 333 AVRCIGSTTYSEYRQFFEKDKALVRRFQK-IDVSEPSIEDAIEIVKGI 379 V IG+T + +E D+A RRF K + + P E + K + Sbjct: 290 RVLVIGAT-----NRPWELDEAARRRFVKRLYIPLPDYETRSLLWKQL 332 >gnl|CDD|32437 COG2256, MGS1, ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]. Length = 436 Score = 39.1 bits (91), Expect = 0.005 Identities = 36/145 (24%), Positives = 57/145 (39%), Gaps = 28/145 (19%) Query: 232 GDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFEERIKKIVKE 291 G PG GKT +A L A + L A T D E I++ K Sbjct: 55 GPPGTGKTTLAR---------------LIAGTTNAAFEALSAVTSGVKDLREIIEEARKN 99 Query: 292 IESYANAILYIDEIHTLVGAGSASGISVDASNLLKPALSSGAVRCIGSTTYSEYRQFFEK 351 IL++DEIH + + L P + +G + IG+TT + FE Sbjct: 100 RLLGRRTILFLDEIHRF---------NKAQQDALLPHVENGTIILIGATTENPS---FEL 147 Query: 352 DKALVRRFQKIDVSEPSIEDAIEIV 376 + AL+ R + + +P + I+ + Sbjct: 148 NPALLSRAR-VFELKPLSSEDIKKL 171 Score = 29.0 bits (65), Expect = 5.7 Identities = 29/142 (20%), Positives = 51/142 (35%), Gaps = 36/142 (25%) Query: 473 KNLGTVVYGQEEAIKKLSSSIKIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQLAFALG 532 K+L VV GQE + + K R + + + GP G GKT +++ +A Sbjct: 21 KSLDEVV-GQEHLLGE----GKPLRRAVE--AGHLHSMILWGPPGTGKTTLARLIAGTTN 73 Query: 533 VQLLRF--------DMSEYMERHAVSRLIGAPPGYVGFGQGGILADSVDQNPYSVVLLDE 584 D+ E +E +RL+G ++ LDE Sbjct: 74 AAFEALSAVTSGVKDLREIIEEARKNRLLGRRT---------------------ILFLDE 112 Query: 585 IEKSHPDVLNILLQIMDYGILT 606 I + + + LL ++ G + Sbjct: 113 IHRFNKAQQDALLPHVENGTII 134 >gnl|CDD|32436 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]. Length = 332 Score = 39.0 bits (91), Expect = 0.005 Identities = 35/151 (23%), Positives = 58/151 (38%), Gaps = 23/151 (15%) Query: 451 MNRSIHTTSFSRDDDSVLSNLEKNLGTVVYGQEEAIKKLSSSIKIARAGLSDPNKPIGCY 510 M+R I + S K L + GQE+ ++L IK A+ + + Sbjct: 1 MDRIISPEKQEEEMKIERSLRPKTLDEFI-GQEKVKEQLQIFIKAAK----KRGEALDHV 55 Query: 511 VFSGPTGVGKTEISKQLAFALGVQLLRFDMSEYMERHAVSRLIGAPPGYVGFGQGGILAD 570 + GP G+GKT ++ +A LGV L ++ P G + A Sbjct: 56 LLFGPPGLGKTTLAHIIANELGVNL---------------KITSGP---ALEKPGDLAAI 97 Query: 571 SVDQNPYSVVLLDEIEKSHPDVLNILLQIMD 601 + V+ +DEI + P V +L M+ Sbjct: 98 LTNLEEGDVLFIDEIHRLSPAVEEVLYPAME 128 >gnl|CDD|31414 COG1221, PspF, Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]. Length = 403 Score = 38.1 bits (88), Expect = 0.011 Identities = 51/293 (17%), Positives = 91/293 (31%), Gaps = 39/293 (13%) Query: 413 PDKAIDVIDEAGASQILQPLSKRRKFITEKD-----IKKTIASMNRSIHTTSFSRDDDSV 467 A ++ A S L L + + SM+ T Sbjct: 12 EAIAEQLMLRANVSHELNGLGREGDLAKINGRPVIFLPSEAFSMSEL---TELQALLPQA 68 Query: 468 LSNLEKNLGTVVYGQEEAIKKLSSSIKIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQL 527 L+ + G+ ++++L IK + P+ + G TG GK ++ + Sbjct: 69 RPYLKSEALDDLIGESPSLQELREQIK----AYAPSGLPV---LIIGETGTGKELFARLI 121 Query: 528 AF----ALGVQLLRFDMSEYMERHAVSRLIGAPPG-YVG--FGQGGILADSVDQNPYSVV 580 + F+ + Y E + L G G + G G+ G+ + + Sbjct: 122 HALSARRAEAPFIAFNCAAYSENLQEAELFGHEKGAFTGAQGGKAGLFEQANG----GTL 177 Query: 581 LLDEIEKSHPDVLNILLQIMDYGILTDQSGKKISFRNVILIMTTNAGALEMSKARIGFGS 640 LDEI + P+ LL++++ G G + +V LI T E A Sbjct: 178 FLDEIHRLPPEGQEKLLRVLEEGEYRRVGGSQPRPVDVRLICATTEDLEEAVLAGADLTR 237 Query: 641 SRNDD-----------ADKEALRNFLSPEFLNRLDSIIPFFPLSSDIIRQVVH 682 N D L RL +P S + +R ++ Sbjct: 238 RLNILTITLPPLRERKEDILLLAEHFLKSEARRLG--LPLSVDSPEALRALLA 288 >gnl|CDD|37891 KOG2680, KOG2680, KOG2680, DNA helicase TIP49, TBP-interacting protein [Transcription]. Length = 454 Score = 38.0 bits (88), Expect = 0.011 Identities = 26/66 (39%), Positives = 36/66 (54%), Gaps = 1/66 (1%) Query: 229 LYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTR-YRGDFEERIKK 287 L G PG GKTAIA G +K + D + G+ I+SL+M A T+ +R RIK+ Sbjct: 70 LIAGQPGTGKTAIAMGMSKSLGDDTPFTSISGSEIYSLEMSKTEALTQAFRKSIGVRIKE 129 Query: 288 IVKEIE 293 + IE Sbjct: 130 ETEVIE 135 >gnl|CDD|35956 KOG0737, KOG0737, KOG0737, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 386 Score = 36.8 bits (85), Expect = 0.025 Identities = 26/93 (27%), Positives = 46/93 (49%), Gaps = 20/93 (21%) Query: 223 RSKNNPLYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFE 282 R L G PG GKT +A+ AK+ GA ++ + NL +++ G+ + Sbjct: 125 RPPKGILLYGPPGTGKTMLAKAIAKEA----------GANFINVSVSNLT--SKWFGEAQ 172 Query: 283 ERIKKIVKEIESYAN----AILYIDEIHTLVGA 311 K+VK + S A+ +I++IDE+ + +G Sbjct: 173 ----KLVKAVFSLASKLQPSIIFIDEVDSFLGQ 201 >gnl|CDD|33687 COG3899, COG3899, Predicted ATPase [General function prediction only]. Length = 849 Score = 36.5 bits (84), Expect = 0.026 Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 3/50 (6%) Query: 206 LVGRHEEINRTIQILCRRSKNNP---LYVGDPGVGKTAIAEGFAKQIVDG 252 L GR E+ + + R SK L G+ G+GK+A+ K I Sbjct: 2 LYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQ 51 >gnl|CDD|37239 KOG2028, KOG2028, KOG2028, ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]. Length = 554 Score = 36.6 bits (84), Expect = 0.028 Identities = 51/273 (18%), Positives = 97/273 (35%), Gaps = 42/273 (15%) Query: 113 ALFSEPDSHATYFLQEQEMTLYDAVNFISHGISKR---KEFANFQSKLNVD--GSSAGSD 167 A + P S F Q +E D S + ++ S G Sbjct: 50 AGSASPKSWDEAFAQLEEKAHGDGDGDGSADSDGEDDPGHWDADAAEPATAFAASEPGRP 109 Query: 168 GEGFVNDYQAKTDLNLFPALSAYCVDLTEKVKKGKVDILVGRHEEI--NRTIQILCRRSK 225 + + + + L P L E+++ +D VG+ + + ++ L +++ Sbjct: 110 HKRALAAEEIRQMLQHKP--------LAERMRPKTLDDYVGQSHLVGQDGLLRSLIEQNR 161 Query: 226 NNPLYV-GDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFEER 284 + + G PG GKT +A A ++ S L A D + Sbjct: 162 IPSMILWGPPGTGKTTLARLIAST------------SKKHSYRFVELSATNAKTNDVRDI 209 Query: 285 IKKIVKE-IESYANAILYIDEIHTLVGAGSASGISVDASNLLKPALSSGAVRCIGSTTYS 343 ++ E + IL+IDEIH + + P + +G + IG+TT + Sbjct: 210 FEQAQNEKSLTKRKTILFIDEIHRFNKS---------QQDTFLPHVENGDITLIGATTEN 260 Query: 344 EYRQFFEKDKALVRRFQKIDVSEPSIEDAIEIV 376 F+ + AL+ R ++ V E +A+ + Sbjct: 261 PS---FQLNAALLSRC-RVFVLEKLPVNAVVTI 289 >gnl|CDD|31417 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein [Transcription]. Length = 450 Score = 36.4 bits (84), Expect = 0.030 Identities = 24/81 (29%), Positives = 40/81 (49%), Gaps = 1/81 (1%) Query: 229 LYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTR-YRGDFEERIKK 287 L VG PG GKTA+A G A+++ + + + G+ I+SL++ A T+ R RIK+ Sbjct: 69 LIVGPPGTGKTALAMGIARELGEDVPFVAISGSEIYSLEVKKTEALTQALRRAIGVRIKE 128 Query: 288 IVKEIESYANAILYIDEIHTL 308 + E + + L Sbjct: 129 TREVYEGEVVELEIRRARNPL 149 >gnl|CDD|37019 KOG1808, KOG1808, KOG1808, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]. Length = 1856 Score = 36.1 bits (83), Expect = 0.038 Identities = 25/91 (27%), Positives = 47/91 (51%), Gaps = 4/91 (4%) Query: 512 FSGPTGVGKTEISKQLAFALGVQLLRFDMSEYME-RHAVSRLIGAPPGYVGFGQGGILAD 570 GPT GKT I K+LA A G ++R + E+ + + + + G + F +G ++ Sbjct: 445 LQGPTSSGKTSIIKELARATGKNIVRINNHEHTDLQEYIGTYVADDNGDLVFREGVLVQA 504 Query: 571 SVDQNPYSVVLLDEIEKSHPDVLNILLQIMD 601 + + ++LDE+ + DVL L +++D Sbjct: 505 LRNGD---WIVLDELNLAPHDVLEALNRLLD 532 >gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional. Length = 489 Score = 36.2 bits (84), Expect = 0.038 Identities = 27/77 (35%), Positives = 41/77 (53%), Gaps = 12/77 (15%) Query: 229 LYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFEERIKKI 288 L VG G GK+ A+ A D +P LL LD+G L G G+ E R++++ Sbjct: 263 LLVGIQGTGKSLTAKAIAN---DWQLP--LL-----RLDVGKLFGGIV--GESESRMRQM 310 Query: 289 VKEIESYANAILYIDEI 305 ++ E+ + IL+IDEI Sbjct: 311 IRIAEALSPCILWIDEI 327 >gnl|CDD|36208 KOG0990, KOG0990, KOG0990, Replication factor C, subunit RFC5 [Replication, recombination and repair]. Length = 360 Score = 35.4 bits (81), Expect = 0.059 Identities = 18/76 (23%), Positives = 28/76 (36%), Gaps = 2/76 (2%) Query: 175 YQAKTDLNLFPALSAYCVDLTEKVKKGKVDILVGRHEEINRTIQILCRRSK-NNPLYVGD 233 Y+A + P Y EK + + I++ E I T + L+ G Sbjct: 12 YKAGMPMPYIPQSPQYPQPWVEKYRPPFLGIVIK-QEPIWSTENRYSGMPGLPHLLFYGP 70 Query: 234 PGVGKTAIAEGFAKQI 249 PG GKT+ A+ Sbjct: 71 PGTGKTSTILANARDF 86 >gnl|CDD|73174 COG0470, HolB, ATPase involved in DNA replication [DNA replication, recombination, and repair]. Length = 325 Score = 35.3 bits (80), Expect = 0.062 Identities = 31/138 (22%), Positives = 50/138 (36%), Gaps = 23/138 (16%) Query: 479 VYGQEEAIKKLSSSIKIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQLAFALGVQLLRF 538 + +EA+K+L + P+ +F GP GVGKT + LA L + Sbjct: 3 LVPWQEAVKRLLVQALESGRL---PHA----LLFYGPPGVGKTTAALALAKELLCENPTG 55 Query: 539 DMSEYMERHAVSRLIGAPPGYVGFGQGG--ILADSVDQ--------------NPYSVVLL 582 + R G P ++ + V+Q Y VV++ Sbjct: 56 LLPCGHCRSCKLIPAGNHPDFLELNPSDLRKIDIIVEQVRELAEFLSESPLEGGYKVVII 115 Query: 583 DEIEKSHPDVLNILLQIM 600 DE +K D N LL+ + Sbjct: 116 DEADKLTEDAANALLKTL 133 >gnl|CDD|31413 COG1220, HslU, ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]. Length = 444 Score = 35.6 bits (82), Expect = 0.062 Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 11/60 (18%) Query: 514 GPTGVGKTEISKQLAFALGVQLLRFDMSEYMERHAVSRLIGAPPGYVGFGQGGILADSVD 573 GPTGVGKTEI+++LA G ++ + +++ E GYVG I+ D V+ Sbjct: 57 GPTGVGKTEIARRLAKLAGAPFIKVEATKFTE-----------VGYVGRDVESIIRDLVE 105 >gnl|CDD|33644 COG3854, SpoIIIAA, ncharacterized protein conserved in bacteria [Function unknown]. Length = 308 Score = 35.3 bits (81), Expect = 0.065 Identities = 28/107 (26%), Positives = 48/107 (44%), Gaps = 14/107 (13%) Query: 213 INRTIQILCRRSKNNPLYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLI 272 N I+ L + N L +G P VGKT + A+ + DG+ + L ++ +D + I Sbjct: 125 ANPLIKDLYQNGWLNTLIIGPPQVGKTTLLRDIARLLSDGI--NQFLPKKVGIIDERSEI 182 Query: 273 AG------TRYRG------DFEERIKKIVKEIESYANAILYIDEIHT 307 AG RG D + + ++ I S + ++ +DEI T Sbjct: 183 AGCLNGVPQHGRGRRMDVLDPCPKAEGMMMAIRSMSPEVIIVDEIGT 229 >gnl|CDD|30835 COG0489, Mrp, ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]. Length = 265 Score = 35.4 bits (81), Expect = 0.067 Identities = 27/103 (26%), Positives = 45/103 (43%), Gaps = 9/103 (8%) Query: 483 EEAIKKLSSSIKIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQLAFAL---GVQLLRFD 539 EA++ L +++K A+ I V SG GVGK+ ++ LA AL G ++L D Sbjct: 36 SEALRALRTNLKFAKVLRKGVKNVI--AVTSGKGGVGKSTVAVNLAAALAQLGKRVLLLD 93 Query: 540 MSEYMERHAVSRLIGA--PPGYVGFGQGGILADSVDQNPYSVV 580 ++ R++G PG G L + + V+ Sbjct: 94 ADLR--GPSIPRMLGLENLPGLTELLAGEALEPVIQHDGIKVL 134 >gnl|CDD|146436 pfam03796, DnaB_C, DnaB-like helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. Length = 186 Score = 35.2 bits (82), Expect = 0.068 Identities = 21/88 (23%), Positives = 32/88 (36%), Gaps = 26/88 (29%) Query: 234 PGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGN------LIA------------GT 275 P +GKTA A A+ +L FSL+M L++ G Sbjct: 28 PSMGKTAFALNIARNAALKQDKPVL----FFSLEMSAEQLAERLLSSESRISSSKLRSGQ 83 Query: 276 RYRGDFEERIKKIVKEIESYANAILYID 303 D+E ++ + + A LYID Sbjct: 84 LSDEDWE----RLAEAAGELSEAPLYID 107 >gnl|CDD|35958 KOG0739, KOG0739, KOG0739, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 439 Score = 34.9 bits (80), Expect = 0.092 Identities = 34/142 (23%), Positives = 64/142 (45%), Gaps = 28/142 (19%) Query: 229 LYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFEERIKKI 288 L G PG GK+ +A+ A + + FS+ +L+ +++ G+ E+ +K + Sbjct: 170 LLYGPPGTGKSYLAKAVATEA----------NSTFFSVSSSDLV--SKWMGESEKLVKNL 217 Query: 289 VKEIESYANAILYIDEIHTLVGAGSASGISVDASNLLKPAL---------SSGAVRCIGS 339 + +I++IDEI +L G+ S + +AS +K + V +G+ Sbjct: 218 FEMARENKPSIIFIDEIDSLCGSRSEN--ESEASRRIKTEFLVQMQGVGNDNDGVLVLGA 275 Query: 340 TTYSEYRQFFEKDKALVRRFQK 361 T + D A+ RRF+K Sbjct: 276 TNIP-----WVLDSAIRRRFEK 292 >gnl|CDD|32641 COG2812, DnaX, DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]. Length = 515 Score = 34.7 bits (79), Expect = 0.11 Identities = 25/56 (44%), Positives = 33/56 (58%), Gaps = 14/56 (25%) Query: 479 VYGQEEAIKKLSSSI---KIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQLAFAL 531 V GQE +K LS+++ +IA A Y+FSGP GVGKT I++ LA AL Sbjct: 18 VVGQEHVVKTLSNALENGRIAHA-----------YLFSGPRGVGKTTIARILAKAL 62 >gnl|CDD|144489 pfam00910, RNA_helicase, RNA helicase. This family includes RNA helicases thought to be involved in duplex unwinding during viral RNA replication. Members of this family are found in a variety of single stranded RNA viruses. Length = 105 Score = 34.1 bits (79), Expect = 0.15 Identities = 27/122 (22%), Positives = 43/122 (35%), Gaps = 26/122 (21%) Query: 511 VFSGPTGVGKTEISKQLAFALGVQLLRFDMSEYMERHAVSRLIGAPP---GYVGFGQGGI 567 GP G GK+ ++K LA AL D ++ +V GY GQ + Sbjct: 2 WLYGPPGCGKSTLAKYLARALL------DHLGLPKKDSVYSRNPDDDFWDGYT--GQPVV 53 Query: 568 LADSVDQNPYSVVLLDEIEKSHPDVLNILLQIMDYGILT----DQSGKKISFRNVILIMT 623 + D QNP P L++++ K F + +I+T Sbjct: 54 IIDDFGQNP-----------DGPSDEAELIRLVSSTPYPPPMAALEEKGTPFTSKFVIVT 102 Query: 624 TN 625 +N Sbjct: 103 SN 104 >gnl|CDD|31673 COG1484, DnaC, DNA replication protein [DNA replication, recombination, and repair]. Length = 254 Score = 33.4 bits (76), Expect = 0.24 Identities = 19/82 (23%), Positives = 40/82 (48%), Gaps = 9/82 (10%) Query: 224 SKNNPLYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFEE 283 N + +G PGVGKT +A +++ + + + A D+ + + G EE Sbjct: 104 RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAP----DLLSKLKAAFDEGRLEE 159 Query: 284 RIKKIVKEIESYANAILYIDEI 305 ++ + +K+++ +L ID+I Sbjct: 160 KLLRELKKVD-----LLIIDDI 176 Score = 30.4 bits (68), Expect = 1.9 Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 13/95 (13%) Query: 511 VFSGPTGVGKTEISKQLAFALGVQLLRFDMSEYM--ERHAVSRLIGAPPGYVGFGQGGIL 568 V GP GVGKT LA A+G +LL+ +S +S+L A + L Sbjct: 109 VLLGPPGVGKTH----LAIAIGNELLKAGISVLFITAPDLLSKLKAA---FDEGRLEEKL 161 Query: 569 ADSVDQNPYSVVLLDEI--EKSHPDVLNILLQIMD 601 + + ++++D+I E + ++L Q++ Sbjct: 162 LRELKK--VDLLIIDDIGYEPFSQEEADLLFQLIS 194 >gnl|CDD|177080 CHL00176, ftsH, cell division protein; Validated. Length = 638 Score = 33.5 bits (77), Expect = 0.24 Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 20/81 (24%) Query: 229 LYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFE----ER 284 L VG PG GKT +A+ A + VP FS I+G+ + F R Sbjct: 220 LLVGPPGTGKTLLAKAIAGE---AEVP-------FFS------ISGSEFVEMFVGVGAAR 263 Query: 285 IKKIVKEIESYANAILYIDEI 305 ++ + K+ + + I++IDEI Sbjct: 264 VRDLFKKAKENSPCIVFIDEI 284 Score = 28.5 bits (64), Expect = 7.0 Identities = 27/108 (25%), Positives = 39/108 (36%), Gaps = 28/108 (25%) Query: 510 YVFSGPTGVGKTEISKQLAFALGVQLLRFDMSEYMERHAVSRLIGAPPGYVGFGQGGI-- 567 + GP G GKT ++K +A V SE++E +VG G + Sbjct: 219 VLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEM------------FVGVGAARVRD 266 Query: 568 LADSVDQNPYSVVLLDEIE--------------KSHPDVLNILLQIMD 601 L +N +V +DEI+ LN LL MD Sbjct: 267 LFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMD 314 >gnl|CDD|35951 KOG0732, KOG0732, KOG0732, AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]. Length = 1080 Score = 33.4 bits (76), Expect = 0.27 Identities = 41/158 (25%), Positives = 65/158 (41%), Gaps = 23/158 (14%) Query: 229 LYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAG-TRYRGDFEERIKK 287 L+ G PG GKT +A A G R S M +++ G+ E +++ Sbjct: 303 LFHGPPGTGKTLMARALA--------AACSRGNRKISFFMRKGADCLSKWVGEAERQLRL 354 Query: 288 IVKEIESYANAILYIDEIHTLVGAGSASGISVDAS---NLLK--PALSS-GAVRCIGSTT 341 + +E + +I++ DEI L S+ + AS LL L S G V IG+T Sbjct: 355 LFEEAQKTQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDSRGQVVVIGATN 414 Query: 342 YSEYRQFFEKDKALVR--RFQKID-VSEPSIEDAIEIV 376 + D AL R RF + P ++ +I+ Sbjct: 415 RPDA-----IDPALRRPGRFDREFYFPLPDVDARAKIL 447 >gnl|CDD|36207 KOG0989, KOG0989, KOG0989, Replication factor C, subunit RFC4 [Replication, recombination and repair]. Length = 346 Score = 33.0 bits (75), Expect = 0.34 Identities = 34/129 (26%), Positives = 55/129 (42%), Gaps = 18/129 (13%) Query: 479 VYGQEEAIKKLSSSIKIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQLAFAL-GVQLLR 537 + GQE ++ L +++ R L P+ Y+F GP G GKT + A AL QL Sbjct: 38 LAGQEHVVQVLKNALL--RRIL--PH-----YLFYGPPGTGKTSTALAFARALNCEQLFP 88 Query: 538 FDMSEYMERHAV-SRLIGAPPGYV-GFGQGGILADSVD---QNPYSVVLLDEIEKSHPDV 592 +E +A R I + F + +L D P+ +++LDE + D Sbjct: 89 ---CRVLELNASDERGISVVREKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDA 145 Query: 593 LNILLQIMD 601 L + M+ Sbjct: 146 QAALRRTME 154 Score = 31.8 bits (72), Expect = 0.82 Identities = 19/56 (33%), Positives = 27/56 (48%) Query: 194 LTEKVKKGKVDILVGRHEEINRTIQILCRRSKNNPLYVGDPGVGKTAIAEGFAKQI 249 TEK + D L G+ + L RR + L+ G PG GKT+ A FA+ + Sbjct: 26 WTEKYRPKTFDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARAL 81 >gnl|CDD|31047 COG0703, AroK, Shikimate kinase [Amino acid transport and metabolism]. Length = 172 Score = 32.9 bits (75), Expect = 0.36 Identities = 12/38 (31%), Positives = 18/38 (47%), Gaps = 2/38 (5%) Query: 511 VFSGPTGVGKTEISKQLAFALGVQLLRFDMSEYMERHA 548 V G G GK+ I + LA AL + D + +E+ Sbjct: 6 VLIGFMGAGKSTIGRALAKALNLPF--IDTDQEIEKRT 41 >gnl|CDD|147593 pfam05496, RuvB_N, Holliday junction DNA helicase ruvB N-terminus. The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein. Length = 234 Score = 32.8 bits (76), Expect = 0.43 Identities = 15/55 (27%), Positives = 28/55 (50%), Gaps = 4/55 (7%) Query: 481 GQEEAIKKLSSSIKIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQLAFALGVQL 535 GQE+ + L I+ A+ + + + GP G+GKT ++ +A +GV + Sbjct: 28 GQEKVKENLKIFIEAAKK----RGEALDHVLLYGPPGLGKTTLANIIANEMGVNI 78 >gnl|CDD|35960 KOG0741, KOG0741, KOG0741, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 744 Score = 32.2 bits (73), Expect = 0.56 Identities = 83/404 (20%), Positives = 164/404 (40%), Gaps = 78/404 (19%) Query: 218 QILCRRSKNNPLYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRY 277 Q+ + K LY G PG GKT IA K +++ P I+ G I + +Y Sbjct: 250 QLGIKHVKGILLY-GPPGTGKTLIARQIGK-MLNAREPKIVNGPEILN----------KY 297 Query: 278 RGDFEERIKKIVKEIESY-----ANAILYI---DEIHTLVGA-GSASGISVDASNLLKPA 328 G+ EE ++K+ + E AN+ L+I DEI + GS +G + ++ Sbjct: 298 VGESEENVRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGSTGVHDTVVNQL 357 Query: 329 LSS-------GAVRCIGSTTYSEYRQFFEKDKALVR--RFQ-KIDVSEPSIEDAIEIVKG 378 LS + IG T + D+AL+R R + ++++S P + ++I+K Sbjct: 358 LSKMDGVEQLNNILVIGMTNRKDL-----IDEALLRPGRLEVQMEISLPDEKGRLQILKI 412 Query: 379 IKPYFEEHHQL----------RYSKEAIRAAVQLSVRHFTSRKLPDKAIDVIDEAGASQI 428 E+++L +K A ++ V+ S A++ +AG Sbjct: 413 HTKRMRENNKLSADVDLKELAALTKNFSGAELEGLVKSAQS-----FAMNRHVKAGGKVE 467 Query: 429 LQPLSKRRKFITEKDIKKTIASMNRSIHTTSFSRDDDSVLSNLEKNLGTVVYGQEEAIKK 488 + P++ +T D + + +F ++ L N G + +G + + Sbjct: 468 VDPVAIENLKVTRGDFLNALEDV-----KPAFGISEED-LERFVMN-GMINWGPP--VTR 518 Query: 489 LSSSIKIARAGLSDPNK-PIGCYVFSGPTGVGKTEISKQLAFALGVQLLRF----DMSEY 543 + K+ + + + P+ + GP G GKT ++ ++A + ++ DM Sbjct: 519 ILDDGKLLVQQVKNSERSPLVSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIGL 578 Query: 544 MERHAVSRLIGAPPGYVGFGQGGILADSVDQNPYSVVLLDEIEK 587 E + + I D+ ++P S++++D+IE+ Sbjct: 579 SESAKCAHIK------------KIFEDAY-KSPLSIIVVDDIER 609 >gnl|CDD|35953 KOG0734, KOG0734, KOG0734, AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]. Length = 752 Score = 31.9 bits (72), Expect = 0.61 Identities = 43/159 (27%), Positives = 62/159 (38%), Gaps = 28/159 (17%) Query: 229 LYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFEERIKKI 288 L VG PG GKT +A A + VP F +M + G R++ + Sbjct: 341 LLVGPPGTGKTLLARAVAGE---AGVPFFYASGSEFD-EM--------FVGVGARRVRDL 388 Query: 289 VKEIESYANAILYIDEIHTLVGAGSASGISVDASNLLKPALS-------SGAVRCIGSTT 341 ++ A I++IDEI VG A L L + + IG+T Sbjct: 389 FAAAKARAPCIIFIDEIDA-VGGKRNPSDQHYAKQTLNQLLVEMDGFKQNEGIIVIGATN 447 Query: 342 YSEYRQFFEKDKALVR--RFQK-IDVSEPSIEDAIEIVK 377 + E DKAL R RF + + V P + EI+K Sbjct: 448 FPE-----ALDKALTRPGRFDRHVTVPLPDVRGRTEILK 481 >gnl|CDD|30188 cd00464, SK, Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.. Length = 154 Score = 32.1 bits (73), Expect = 0.69 Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 2/35 (5%) Query: 514 GPTGVGKTEISKQLAFALGVQLLRFDMSEYMERHA 548 G G GKT + + LA ALG+ D+ E +E+ A Sbjct: 6 GMMGAGKTTVGRLLAKALGLPF--VDLDELIEQRA 38 >gnl|CDD|173846 cd01157, MCAD, Medium chain acyl-CoA dehydrogenase. MCADs are mitochondrial beta-oxidation enzymes, which catalyze the alpha,beta dehydrogenation of the corresponding medium chain acyl-CoA by FAD, which becomes reduced. The reduced form of MCAD is reoxidized in the oxidative half-reaction by electron-transferring flavoprotein (ETF), from which the electrons are transferred to the mitochondrial respiratory chain coupled with ATP synthesis. MCAD is a homotetramer. Length = 378 Score = 31.8 bits (72), Expect = 0.75 Identities = 53/202 (26%), Positives = 82/202 (40%), Gaps = 51/202 (25%) Query: 173 NDYQAKTDLNLF---PALSAYCV-------DL----TEKVKKGKVDILVGRHEEINR--- 215 ND Q K L P + AYCV D+ T+ KKG I+ G+ I Sbjct: 98 NDEQKKKYLGRMTEEPLMCAYCVTEPGAGSDVAGIKTKAEKKGDEYIINGQKMWITNGGK 157 Query: 216 -TIQILCRRSKNNPLYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAG 274 L RS +P K ++ F IV+ P I G + L+MG + Sbjct: 158 ANWYFLLARSDPDP---------KCPASKAFTGFIVEADTPGIQPGRK--ELNMGQRCSD 206 Query: 275 TRYRGDFEERIKKIVKEIESYANAILYIDEIHTLVGAGSASGISVDASNLLKPALSSGAV 334 TR FE+ ++ KE + L+G G+ I++ A + +P +++GAV Sbjct: 207 TRGI-TFED--VRVPKE--------------NVLIGEGAGFKIAMGAFDKTRPPVAAGAV 249 Query: 335 ----RCIG-STTYSEYRQFFEK 351 R + +T Y+ R+ F K Sbjct: 250 GLAQRALDEATKYALERKTFGK 271 >gnl|CDD|35955 KOG0736, KOG0736, KOG0736, Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]. Length = 953 Score = 31.1 bits (70), Expect = 1.1 Identities = 61/322 (18%), Positives = 109/322 (33%), Gaps = 52/322 (16%) Query: 229 LYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFEERIKKI 288 L G PG GKT + A LG + +D L+A + E +++ I Sbjct: 435 LLHGPPGSGKTTVVRAVAS----------ELGLHLLEVDCYELVAESA--SHTETKLQAI 482 Query: 289 VKEIESYANAILYIDEIHTLVGAGS-------ASGISVDASNLLKPALSSGAVRCIGSTT 341 + A+L++ + L I SN S V + +T+ Sbjct: 483 FSRARRCSPAVLFLRNLDVLGIDQDGGEDARLLKVIRHLLSNEDFKF-SCPPVIVVATTS 541 Query: 342 YSEYRQFFEKDKALVRR--FQKIDVSEPSIEDAIEIVKGIKPYFEEHHQLRYSKEAIRAA 399 E A ++ +I+V S E +EI++ +Q K+ R Sbjct: 542 SIE------DLPADIQSLFLHEIEVPALSEEQRLEILQWYLN-HLPLNQDVNLKQLARKT 594 Query: 400 VQLSVRHFTS--RKLPDKAIDVIDEAGASQILQPLSK-----RRKFITEKDIKKTIASMN 452 S + A I G + LQ + +TE+D K ++ + Sbjct: 595 SGFSFGDLEALVAHSSLAAKTRIKNKGLAGGLQEEDEGELCAAGFLLTEEDFDKALSRLQ 654 Query: 453 RSIHTTSFSRDDDSVLSNLEKNLGTVVYGQEEAIKKLSSSIKIARAGLSDPN------KP 506 + + +V + + V G EE ++ +I++ L P + Sbjct: 655 KEFSDAIGAPKIPNV--SWDD-----VGGLEEVKTEILDTIQLP---LKHPELFSSGLRK 704 Query: 507 IGCYVFSGPTGVGKTEISKQLA 528 + GP G GKT ++K +A Sbjct: 705 RSGILLYGPPGTGKTLLAKAVA 726 Score = 30.0 bits (67), Expect = 3.1 Identities = 24/96 (25%), Positives = 41/96 (42%), Gaps = 12/96 (12%) Query: 223 RSKNNPLYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFE 282 R ++ L G PG GKT +A+ A + S+ L+ Y G E Sbjct: 703 RKRSGILLYGPPGTGKTLLAKAVATE----------CSLNFLSVKGPELL--NMYVGQSE 750 Query: 283 ERIKKIVKEIESYANAILYIDEIHTLVGAGSASGIS 318 E ++++ + S A +++ DE+ +L SG S Sbjct: 751 ENVREVFERARSAAPCVIFFDELDSLAPNRGRSGDS 786 >gnl|CDD|31663 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]. Length = 366 Score = 31.1 bits (70), Expect = 1.2 Identities = 45/289 (15%), Positives = 94/289 (32%), Gaps = 43/289 (14%) Query: 204 DILVGRHEEINRTIQILCRRSKN----NPLYVGDPGVGKTAIAEGFAKQIVD--GMVPDI 257 + L R EEIN+ L + N + G G GKTA + +++ + V + Sbjct: 17 EELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVV 76 Query: 258 LLGARIFS------LDMGNLIAGTRYRGD-FEERIKKIVKEI-ESYANAILYIDEIHTLV 309 + + N + GD E +K++ + + I+ +DE+ LV Sbjct: 77 YINCLELRTPYQVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALV 136 Query: 310 GAGSASGISVDASNLLK-PALSSGAVRCIGSTTYSEYRQFFEKDKALVRRFQKIDVSEPS 368 +LL+ P + V I + ++ + + +I + Sbjct: 137 -----DKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLDPRVKSSLGPSEIVFPPYT 191 Query: 369 IEDAIEIVK-----GIKPYF--------------EEHHQLRYSKEAIRAAVQLSVRHFTS 409 E+ +I++ G E R + + +R A +++ R + Sbjct: 192 AEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSR 251 Query: 410 RKLPDKAIDVIDEAGASQILQPLSKRRKFITEKDIK-KTIASMNRSIHT 457 + D + +E + + + I I + I T Sbjct: 252 KVSEDHVREAQEEIERDVL---EEVLKTLPLHQKIVLLAIVELTVEIST 297 >gnl|CDD|30672 COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]. Length = 308 Score = 31.0 bits (70), Expect = 1.2 Identities = 12/30 (40%), Positives = 18/30 (60%) Query: 510 YVFSGPTGVGKTEISKQLAFALGVQLLRFD 539 V +GPT GKT ++ LA LG +++ D Sbjct: 6 IVIAGPTASGKTALAIALAKRLGGEIISLD 35 >gnl|CDD|36209 KOG0991, KOG0991, KOG0991, Replication factor C, subunit RFC2 [Replication, recombination and repair]. Length = 333 Score = 31.1 bits (70), Expect = 1.3 Identities = 15/66 (22%), Positives = 28/66 (42%) Query: 194 LTEKVKKGKVDILVGRHEEINRTIQILCRRSKNNPLYVGDPGVGKTAIAEGFAKQIVDGM 253 EK + + +VG + + R I + N + G PG GKT A++++ Sbjct: 17 WVEKYRPSVLQDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDS 76 Query: 254 VPDILL 259 + +L Sbjct: 77 YKEAVL 82 >gnl|CDD|35945 KOG0726, KOG0726, KOG0726, 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]. Length = 440 Score = 30.7 bits (69), Expect = 1.5 Identities = 22/74 (29%), Positives = 37/74 (50%), Gaps = 12/74 (16%) Query: 232 GDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFEERIKKIVKE 291 G+PG GKT +A+ A Q A + LI +Y GD + ++++ + Sbjct: 226 GEPGTGKTLLAKAVANQT----------SATFLRVVGSELI--QKYLGDGPKLVRELFRV 273 Query: 292 IESYANAILYIDEI 305 E +A +I++IDEI Sbjct: 274 AEEHAPSIVFIDEI 287 >gnl|CDD|110677 pfam01695, IstB, IstB-like ATP binding protein. This protein contains an ATP/GTP binding P-loop motif. It is found associated with IS21 family insertion sequences. The function of this protein is unknown, but it may perform a transposase function. Length = 178 Score = 30.7 bits (70), Expect = 1.6 Identities = 19/86 (22%), Positives = 31/86 (36%), Gaps = 16/86 (18%) Query: 223 RSKNNPLYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSL---DMGNLIAGTRYRG 279 N L +G PGVGKT +A Q G + D+ + R G Sbjct: 45 EQAENLLLLGPPGVGKTHLACALGHQACR-------AGYSVLFTRTPDLVEQLKRARGDG 97 Query: 280 DFEERIKKIVKEIESYANAILYIDEI 305 ++++ K +L +D+I Sbjct: 98 RLARTLQRLAKA------DLLILDDI 117 Score = 30.7 bits (70), Expect = 1.7 Identities = 14/29 (48%), Positives = 15/29 (51%), Gaps = 4/29 (13%) Query: 509 CYVFSGPTGVGKTEISKQLAFALGVQLLR 537 + GP GVGKT LA ALG Q R Sbjct: 49 NLLLLGPPGVGKT----HLACALGHQACR 73 >gnl|CDD|30194 cd02021, GntK, Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.. Length = 150 Score = 30.2 bits (68), Expect = 2.4 Identities = 11/31 (35%), Positives = 15/31 (48%) Query: 509 CYVFSGPTGVGKTEISKQLAFALGVQLLRFD 539 V G +G GK+ + K LA LG + D Sbjct: 1 IIVVMGVSGSGKSTVGKALAERLGAPFIDGD 31 >gnl|CDD|73180 cd00071, GMPK, Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.. Length = 137 Score = 30.1 bits (68), Expect = 2.5 Identities = 10/18 (55%), Positives = 14/18 (77%) Query: 510 YVFSGPTGVGKTEISKQL 527 V SGP+GVGK+ + K+L Sbjct: 2 IVLSGPSGVGKSTLLKRL 19 >gnl|CDD|35946 KOG0727, KOG0727, KOG0727, 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]. Length = 408 Score = 30.0 bits (67), Expect = 2.6 Identities = 34/139 (24%), Positives = 61/139 (43%), Gaps = 38/139 (27%) Query: 502 DPNKPIGCYVFSGPTGVGKTEISKQLAFALGVQLLRFDMSEYMERHAVSRLIGAPPGYVG 561 DP P G ++ GP G GKT ++K +A +R SE+++++ Sbjct: 187 DP--PRGVLLY-GPPGTGKTMLAKAVANHTTAAFIRVVGSEFVQKY-------------- 229 Query: 562 FGQGGILADSV----DQNPYSVVLLDEIEK-----------SHPDVLNILLQIMDYGILT 606 G+G + V +N S++ +DEI+ + +V IL+++++ Sbjct: 230 LGEGPRMVRDVFRLAKENAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGF 289 Query: 607 DQSGKKISFRNVILIMTTN 625 DQ+ NV +IM TN Sbjct: 290 DQTT------NVKVIMATN 302 >gnl|CDD|35961 KOG0742, KOG0742, KOG0742, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 630 Score = 30.0 bits (67), Expect = 2.6 Identities = 23/81 (28%), Positives = 35/81 (43%), Gaps = 5/81 (6%) Query: 448 IASMNRSIHTTSFSRDDDSVLSNLEKNLGTVVYGQEEAIKKLSSSIKIARAGLSDPNKPI 507 I S++ H SR S S + L V+ +++K + IA A P Sbjct: 330 IGSLSALKHPIQGSR---SASSRGKDPLEGVIL--HPSLEKRIEDLAIATANTKKHQAPF 384 Query: 508 GCYVFSGPTGVGKTEISKQLA 528 +F GP G GKT +++LA Sbjct: 385 RNILFYGPPGTGKTMFARELA 405 >gnl|CDD|73296 cd02020, CMPK, Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.. Length = 147 Score = 29.7 bits (67), Expect = 3.1 Identities = 11/24 (45%), Positives = 15/24 (62%) Query: 513 SGPTGVGKTEISKQLAFALGVQLL 536 GP G GK+ ++K LA LG+ L Sbjct: 5 DGPAGSGKSTVAKLLAKKLGLPYL 28 >gnl|CDD|143510 cd06843, PLPDE_III_PvsE_like, Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE. This subfamily is composed of PvsE from Vibrio parahaemolyticus and similar proteins. PvsE is a vibrioferrin biosynthesis protein which is homologous to eukaryotic ornithine decarboxylase (ODC) and diaminopimelate decarboxylase (DapDC). ODC and DapDC are fold type III PLP-dependent enzymes that contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain, similar to bacterial alanine racemases. It has been suggested that PvsE may be involved in the biosynthesis of the polycarboxylate siderophore vibrioferrin. It may catalyze the decarboxylation of serine to yield ethanolamine. PvsE may require homodimer formation and the presence of the PLP cofactor for activity. Length = 377 Score = 29.6 bits (67), Expect = 4.0 Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 6/47 (12%) Query: 490 SSSIKIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQLAFALGVQLL 536 +S +IA + P+ P+ +F GP GKT+ A A GV+ + Sbjct: 55 ASGGEIAHVRAAVPDAPL---IFGGP---GKTDSELAQALAQGVERI 95 >gnl|CDD|29988 cd01122, GP4d_helicase, GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.. Length = 271 Score = 29.1 bits (65), Expect = 4.5 Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 5/54 (9%) Query: 510 YVFSGPTGVGKT----EISKQLAFALGVQLLRFDMSEYMERHAVSRLIGAPPGY 559 + + TGVGKT E + L GV++ + E + R A RL+G G Sbjct: 33 IILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEEPVVRTA-RRLLGQYAGK 85 >gnl|CDD|111276 pfam02367, UPF0079, Uncharacterized P-loop hydrolase UPF0079. This uncharacterized family contains a P-loop. Length = 123 Score = 29.2 bits (66), Expect = 4.7 Identities = 10/24 (41%), Positives = 13/24 (54%) Query: 511 VFSGPTGVGKTEISKQLAFALGVQ 534 + SG G GKT + LA LG+ Sbjct: 19 LLSGDLGAGKTTFVRGLAKGLGIT 42 >gnl|CDD|48392 cd02146, NfsA_FRP, This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as an electron donor. Oxygen-insensitive nitroreductase, such as NfsA protein in Escherichia coli, catalyzes reduction of nitrocompounds using NADPH as electron donor.. Length = 229 Score = 29.0 bits (65), Expect = 4.8 Identities = 13/51 (25%), Positives = 24/51 (47%), Gaps = 6/51 (11%) Query: 403 SVRHFTSRKLPDKAIDVIDEAG----ASQILQPLSKRRKFITEKDIKKTIA 449 S+R F +PD+ ++ + A S LQ S +T+ ++K +A Sbjct: 10 SIRKFKDEPIPDETLETLIAAAQSAPTSSNLQAYSVIV--VTDPELKAKLA 58 >gnl|CDD|73300 cd02037, MRP-like, MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.. Length = 169 Score = 28.9 bits (65), Expect = 5.3 Identities = 11/21 (52%), Positives = 14/21 (66%) Query: 511 VFSGPTGVGKTEISKQLAFAL 531 V SG GVGK+ ++ LA AL Sbjct: 4 VMSGKGGVGKSTVAVNLALAL 24 >gnl|CDD|32635 COG2804, PulE, Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]. Length = 500 Score = 28.8 bits (64), Expect = 5.5 Identities = 10/18 (55%), Positives = 13/18 (72%) Query: 504 NKPIGCYVFSGPTGVGKT 521 N+P G + +GPTG GKT Sbjct: 255 NRPQGLILVTGPTGSGKT 272 >gnl|CDD|31390 COG1197, Mfd, Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]. Length = 1139 Score = 28.7 bits (64), Expect = 6.1 Identities = 7/23 (30%), Positives = 17/23 (73%) Query: 196 EKVKKGKVDILVGRHEEINRTIQ 218 + + +GKVDI++G H +++ ++ Sbjct: 691 KGLAEGKVDIVIGTHRLLSKDVK 713 >gnl|CDD|37153 KOG1942, KOG1942, KOG1942, DNA helicase, TBP-interacting protein [Replication, recombination and repair]. Length = 456 Score = 28.8 bits (64), Expect = 6.4 Identities = 11/37 (29%), Positives = 22/37 (59%) Query: 229 LYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFS 265 L G PG GKTA+A ++++ + ++G+ ++S Sbjct: 68 LLAGPPGTGKTALALAISQELGPKVPFCPMVGSEVYS 104 >gnl|CDD|35954 KOG0735, KOG0735, KOG0735, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 952 Score = 28.5 bits (63), Expect = 7.7 Identities = 21/86 (24%), Positives = 36/86 (41%), Gaps = 12/86 (13%) Query: 223 RSKNNPLYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFE 282 R + L G PG GKT +A A R S+ L++ +Y G E Sbjct: 699 RLRTGILLYGPPGCGKTLLASAIASN----------SNLRFISVKGPELLS--KYIGASE 746 Query: 283 ERIKKIVKEIESYANAILYIDEIHTL 308 + ++ + + +S IL+ DE ++ Sbjct: 747 QNVRDLFERAQSAKPCILFFDEFDSI 772 >gnl|CDD|32257 COG2074, COG2074, 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]. Length = 299 Score = 28.3 bits (63), Expect = 8.5 Identities = 10/20 (50%), Positives = 15/20 (75%) Query: 514 GPTGVGKTEISKQLAFALGV 533 G +GVGK+ I+ +LA LG+ Sbjct: 96 GASGVGKSTIAGELARRLGI 115 >gnl|CDD|37454 KOG2243, KOG2243, KOG2243, Ca2+ release channel (ryanodine receptor) [Signal transduction mechanisms]. Length = 5019 Score = 28.1 bits (62), Expect = 9.1 Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 6/46 (13%) Query: 742 GKLKKGGGVVKVSLNPDKSASSPIFFEIENSGSNISLETEEKEVED 787 G L +K++ +P SP N GS L+TE+ E ED Sbjct: 2354 GLLAAMEEAIKIAEDPALDGPSP------NQGSKKELDTEDDEEED 2393 >gnl|CDD|147155 pfam04851, ResIII, Type III restriction enzyme, res subunit. Length = 103 Score = 28.3 bits (64), Expect = 9.2 Identities = 14/59 (23%), Positives = 18/59 (30%), Gaps = 15/59 (25%) Query: 480 YGQEEAIKKLSSSIKIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQLAFALGVQLLRF 538 Q EAI+ L K G TG GKT + +L L + Sbjct: 6 PYQIEAIRNLL-------------EKKRGL--IVMATGSGKTLTAAKLIARLLKGKKKV 49 >gnl|CDD|30201 cd02028, UMPK_like, Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).. Length = 179 Score = 28.3 bits (63), Expect = 9.4 Identities = 10/25 (40%), Positives = 16/25 (64%) Query: 513 SGPTGVGKTEISKQLAFALGVQLLR 537 +GP+G GKT +K+L+ L V + Sbjct: 5 AGPSGSGKTTFAKKLSNQLRVNGIG 29 >gnl|CDD|35699 KOG0478, KOG0478, KOG0478, DNA replication licensing factor, MCM4 component [Replication, recombination and repair]. Length = 804 Score = 28.0 bits (62), Expect = 9.6 Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 4/47 (8%) Query: 196 EKVKKGKVDILV-GRHEEINRTIQILCRRSKNNPLYVGDPGVGKTAI 241 E VKKG + L G +E ++ + R N L VGDPG K+ + Sbjct: 435 EDVKKGLLLQLFGGTRKEDEKSGRF---RGDINILLVGDPGTSKSQL 478 Database: CddA Posted date: Feb 4, 2011 9:38 PM Number of letters in database: 6,263,737 Number of sequences in database: 21,609 Lambda K H 0.317 0.135 0.375 Gapped Lambda K H 0.267 0.0654 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 9,299,935 Number of extensions: 508708 Number of successful extensions: 2044 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1989 Number of HSP's successfully gapped: 159 Length of query: 798 Length of database: 6,263,737 Length adjustment: 102 Effective length of query: 696 Effective length of database: 4,059,619 Effective search space: 2825494824 Effective search space used: 2825494824 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 61 (27.4 bits)