RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= 537021.9.peg.472_1 (369 letters) >gnl|CDD|32641 COG2812, DnaX, DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]. Length = 515 Score = 353 bits (906), Expect = 5e-98 Identities = 153/356 (42%), Positives = 220/356 (61%), Gaps = 5/356 (1%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 ++GQ+ ++KTL+NA ++GRIA +Y+ SG RG+GKTT ARI+A++LN + PT E Sbjct: 18 VVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENG----PTAEPC 73 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 G C+ I G+ +DV+E+DAAS+T +DD+REII+++ Y P R++VYI+DEV MLS Sbjct: 74 GKCISCKEINEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSK 133 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 AFN LLKTLEEPP HVKFI ATTE +KIP T+LSRCQRFD R+ + ++ + IL + Sbjct: 134 QAFNALLKTLEEPPSHVKFILATTEPQKIPNTILSRCQRFDFKRLDLEEIAKHLAAILDK 193 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLF 240 E I + +A+++IARA++GS RD LSLLDQAIA +I SVR ML L D +++ L Sbjct: 194 EGINIEEDALSLIARAAEGSLRDALSLLDQAIAFGEGEITLESVRDMLGLTDIEKLLSLL 253 Query: 241 GYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTLLYSEAENA 300 ++KGD L+ + + G +P L DL F + K L +E E Sbjct: 254 EAILKGDAKEALRLINELIEEGKDPEAFLEDLLNFLRDLLLFKQTVPNELQLNTTEIEER 313 Query: 301 RALQYSKEVSITFLSRFWQMILKGISEIEGFSRPMEAVEMVLIRLAHAVQLPSPEE 356 + ++S+ L R +Q++L G+ E++ P +EM LIRL A Sbjct: 314 TKEL-ASQISVLNLQRLYQLLLPGLKELKRSLSPRLGLEMTLIRLLEAAPASDAAS 368 >gnl|CDD|36207 KOG0989, KOG0989, KOG0989, Replication factor C, subunit RFC4 [Replication, recombination and repair]. Length = 346 Score = 130 bits (327), Expect = 8e-31 Identities = 69/276 (25%), Positives = 125/276 (45%), Gaps = 16/276 (5%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 + GQ+ +++ L NA RI Y+ G G GKT+TA AR+LN + Sbjct: 38 LAGQEHVVQVLKNALL-RRILPHYLFYGPPGTGKTSTALAFARALN-------CEQLFPC 89 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLST 120 E + RG V ++ + ++ R F++ I+DE +++ Sbjct: 90 RVLELNASDERGISVVREKIKNFAKLTVLLKRSD------GYPCPPFKIIILDECDSMTS 143 Query: 121 AAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQE 180 A L +T+E+ +FI + +I ++SRCQ+F ++ D+++ KI + Sbjct: 144 DAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRCQKFRFKKLKDEDIVDRLEKIASK 203 Query: 181 ESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLA-LADRNRIMDL 239 E ++ D +A+ +IA+ SDG R ++ L + +I TS V LA + +++DL Sbjct: 204 EGVDIDDDALKLIAKISDGDLRRAITTLQSL-SLLGKRITTSLVNEELAGVVPDEKLLDL 262 Query: 240 FGYLIKGDIINVLQEFSSQYDSGVNPSVILHDLAEF 275 + D N ++ SG +P ++ LAE Sbjct: 263 LELALSADTPNTVKRVREIMRSGYSPLQLMSQLAEV 298 >gnl|CDD|73174 COG0470, HolB, ATPase involved in DNA replication [DNA replication, recombination, and repair]. Length = 325 Score = 102 bits (254), Expect = 2e-22 Identities = 72/295 (24%), Positives = 121/295 (41%), Gaps = 11/295 (3%) Query: 3 GQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGF 62 Q+ + + L A +SGR+ + + G G+GKTT A +A+ L + +P G Sbjct: 6 WQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLP----CGH 61 Query: 63 GEHCQAIIRGNHVDVVELDAA----SHTSIDDVREIIDQIYYKPISARFRVYIMDEVQML 118 C+ I GNH D +EL+ + ++ VRE+ + + P+ ++V I+DE L Sbjct: 62 CRSCKLIPAGNHPDFLELNPSDLRKIDIIVEQVRELAEFLSESPLEGGYKVVIIDEADKL 121 Query: 119 STAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKIL 178 + A N LLKTLEEPP + +FI T + KI T+ SRCQR S + I Sbjct: 122 TEDAANALLKTLEEPPKNTRFILITNDPSKILPTIRSRCQRIRFKPPSRLEAIAWLEDQG 181 Query: 179 QEESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMD 238 EE + A L + +++I + S+ + AL + Sbjct: 182 LEEIAAV--AEGDARKAINPLQALAALEIGEESIYEALLLALPESLAQLAALELLKLAEN 239 Query: 239 LFGY-LIKGDIINVLQEFSSQYDSGVNPSVILHDLAEFTHLVTRIKYIPEMADTL 292 F L K ++ +L+ + +L + + +A Sbjct: 240 KFLEALEKLWLLLLLEGLLGEDLLDQLQRELLKLDKALIQEEKAAELLDALAQAR 294 >gnl|CDD|32437 COG2256, MGS1, ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]. Length = 436 Score = 83.0 bits (205), Expect = 1e-16 Identities = 66/250 (26%), Positives = 105/250 (42%), Gaps = 44/250 (17%) Query: 1 MIGQKPMI---KTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTV 57 ++GQ+ ++ K L A ++G + S +L G G GKTT AR+IA + N Sbjct: 26 VVGQEHLLGEGKPLRRAVEAGHLH-SMILWGPPGTGKTTLARLIAGTTNA---------- 74 Query: 58 EFEGFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQM 117 L A + + D+REII++ + R + +DE+ Sbjct: 75 ------------------AFEALSAVTS-GVKDLREIIEEARKNRLLGRRTILFLDEIHR 115 Query: 118 LSTAAFNGLLKTLEEPPPHVKFIFATTEIRKIPIT--VLSRCQRFDLHRISIGDLIELFT 175 + A + LL +E + I ATTE + +LSR + F+L +S D+ +L Sbjct: 116 FNKAQQDALLPHVENG--TIILIGATTENPSFELNPALLSRARVFELKPLSSEDIKKLLK 173 Query: 176 KILQEES-------IEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLML 228 + L +E I D EA+ + R S+G AR L+LL+ A V L Sbjct: 174 RALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLLELAALSAEPDEVLILELLEE 233 Query: 229 ALADRNRIMD 238 L R+ D Sbjct: 234 ILQRRSARFD 243 >gnl|CDD|36209 KOG0991, KOG0991, KOG0991, Replication factor C, subunit RFC2 [Replication, recombination and repair]. Length = 333 Score = 69.6 bits (170), Expect = 1e-12 Identities = 58/278 (20%), Positives = 112/278 (40%), Gaps = 34/278 (12%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSL---NYKTAHIDVPTV 57 ++G + ++ L+ K G + ++SG G GKTT+ +AR L +YK A Sbjct: 29 IVGNEDTVERLSVIAKEGNMPN-LIISGPPGTGKTTSILCLARELLGDSYKEA------- 80 Query: 58 EFEGFGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPIS---ARFRVYIMDE 114 V+EL+A+ ID VR I K ++ R ++ I+DE Sbjct: 81 -------------------VLELNASDERGIDVVRNKIKMFAQKKVTLPPGRHKIIILDE 121 Query: 115 VQMLSTAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELF 174 ++ A L +T+E +F A + KI + SRC ++S +++ Sbjct: 122 ADSMTAGAQQALRRTMEIYSNTTRFALACNQSEKIIEPIQSRCAILRYSKLSDQQILKRL 181 Query: 175 TKILQEESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRN 234 ++ + E + + + + I + G R L+ L Q+ + +V + Sbjct: 182 LEVAKAEKVNYTDDGLEAIIFTAQGDMRQALNNL-QSTVNGFGLVNQENVFKVCDEPHPL 240 Query: 235 RIMDLFGYLIKGDIINVLQEFSSQYDSGVNPSVILHDL 272 + + +K +I L+ + + G +P I+ L Sbjct: 241 LVKKMLQACLKRNIDEALKILAELWKLGYSPEDIITTL 278 >gnl|CDD|36208 KOG0990, KOG0990, KOG0990, Replication factor C, subunit RFC5 [Replication, recombination and repair]. Length = 360 Score = 65.4 bits (159), Expect = 2e-11 Identities = 63/307 (20%), Positives = 115/307 (37%), Gaps = 41/307 (13%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFE 60 +I Q+P+ T + G G GKT+T AR Sbjct: 43 VIKQEPIWSTENRYSGMPGLPHLL-FYGPPGTGKTSTILANARDF--------------- 86 Query: 61 GFGEHCQAIIRGNHVDVVELDAASHTSIDDVREII------DQIYYKPISARFRVYIMDE 114 + H + ++EL+A+ ID VR+ I Q A F++ I+DE Sbjct: 87 -YSPHPTTSM------LLELNASDDRGIDPVRQQIHLFASTQQPTTYSTHAAFKLVILDE 139 Query: 115 VQMLSTAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELF 174 ++ A N L + +E+ + +F + +KI SRC RF +++ E Sbjct: 140 ADAMTRDAQNALRRVIEKYTANTRFATISNPPQKIHPAQQSRCTRFRFAPLTMAQQTERQ 199 Query: 175 TKILQEESIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSS-----VRLMLA 229 + I + E E +PE + + R S G R L+ L Q+I + + + V Sbjct: 200 SHIRESEQKETNPEGYSALGRLSVGDMRVALNYL-QSILKKVMERKELNNPNDLVYQCKG 258 Query: 230 LADRNRIMDLFGYLIKGDIINVLQEFSS-QYDSGVNPSVILHDLAEFTHLV-----TRIK 283 + I + + G+ I ++ + S + G+ +L + +V Sbjct: 259 APQPSDIRQIIEKRMNGEDIELMLDDSELKKPKGLARQDRRAELEQRFAIVISKTPVEGH 318 Query: 284 YIPEMAD 290 + ++AD Sbjct: 319 ILYQLAD 325 >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 = 54.1 bits (130), Expect = 7e-08 Identities = 37/171 (21%), Positives = 58/171 (33%), Gaps = 39/171 (22%) Query: 2 IGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEG 61 +GQ+ I+ L A + ++ +L G G GKTT AR IA L Sbjct: 1 VGQEEAIEALREALEL-PPPKNLLLYGPPGTGKTTLARAIANELFRP------------- 46 Query: 62 FGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFR-----VYIMDEVQ 116 + L+A+ V E+ + + V +DE+ Sbjct: 47 ------------GAPFLYLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEID 94 Query: 117 MLSTAAFNGLLKTLEE------PPPHVKFIFATT--EIRKIPITVLSRCQR 159 LS A N LL+ LE +V+ I AT + + + R Sbjct: 95 SLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDI 145 >gnl|CDD|37239 KOG2028, KOG2028, KOG2028, ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]. Length = 554 Score = 50.5 bits (120), Expect = 7e-07 Identities = 53/220 (24%), Positives = 91/220 (41%), Gaps = 45/220 (20%) Query: 10 TLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQAI 69 L + + RI S +L G G GKTT AR+IA K + F Sbjct: 152 LLRSLIEQNRI-PSMILWGPPGTGKTTLARLIAS--TSKK-----HSYRF---------- 193 Query: 70 IRGNHVDVVELDAASHTSIDDVREIIDQIY-YKPISARFRVYIMDEVQMLSTAAFNGLLK 128 VEL A + +DVR+I +Q K ++ R + +DE+ + + + L Sbjct: 194 --------VELSATN-AKTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFNKSQQDTFLP 244 Query: 129 TLEEPPPHVKFIFATTEIRKIPIT--VLSRCQRFDLHRISIGDLIELFTKI--------- 177 +E + I ATTE + +LSRC+ F L ++ + ++ + + Sbjct: 245 HVENGD--ITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMRAIASLGDSER 302 Query: 178 ----LQEESIEFDPEAVAMIARASDGSARDGLSLLDQAIA 213 L S+ + + +A SDG AR L+ L+ +++ Sbjct: 303 PTDPLPNSSMFVEDSIIDYLAYLSDGDARAALNALEMSLS 342 >gnl|CDD|37246 KOG2035, KOG2035, KOG2035, Replication factor C, subunit RFC3 [Energy production and conversion, Replication, recombination and repair]. Length = 351 Score = 46.5 bits (110), Expect = 1e-05 Identities = 42/212 (19%), Positives = 99/212 (46%), Gaps = 12/212 (5%) Query: 73 NHVDVVELDAASHTSIDDVREIIDQI-YYKPI----SARFRVYIMDEVQMLSTAAFNGLL 127 H+++ DA ++ + ++E++ ++ + I F+V +++E L+ A + L Sbjct: 90 YHLEITPSDAGNYDRVV-IQELLKEVAQTQQIETQGQRPFKVVVINEADELTRDAQHALR 148 Query: 128 KTLEEPPPHVKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQEESIEFDP 187 +T+E+ + + I +I + SRC + S ++ + +K+L++E ++ Sbjct: 149 RTMEKYSSNCRLILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLPK 208 Query: 188 EAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLFGYLIKGD 247 E + IA S+ + R L +L+ R N++ T++ +++ I ++ ++K Sbjct: 209 ELLKRIAEKSNRNLRRALLMLE--AVRVNNEPFTANSQVIPKPDWEIYIQEIARVILKEQ 266 Query: 248 IINVLQEFSSQ-YD---SGVNPSVILHDLAEF 275 L E + Y+ + P+ IL +L E Sbjct: 267 SPAKLLEVRGRLYELLSHCIPPNTILKELLEE 298 >gnl|CDD|35960 KOG0741, KOG0741, KOG0741, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 744 Score = 41.9 bits (98), Expect = 3e-04 Identities = 47/222 (21%), Positives = 84/222 (37%), Gaps = 44/222 (19%) Query: 23 SYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQAIIRGNHVDVVELDA 82 S +L G G GKT A IA S ++ I P + G E + H+ + DA Sbjct: 540 SVLLEGPPGSGKTALAAKIALSSDFPFVKIISPE-DMIGLSESAKC----AHIKKIFEDA 594 Query: 83 ----ASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFNGLLKTLEEPPP--H 136 S +DD+ ++D Y PI RF S LL L++ PP Sbjct: 595 YKSPLSIIVVDDIERLLD---YVPIGPRF-----------SNLVLQALLVLLKKQPPKGR 640 Query: 137 VKFIFATTEIRKIPITVLSRCQRFDLHRISIGDLIELFTKILQEESIEFDPEAVAMIARA 196 IF TT R VL +++ F+ + ++ + + ++ Sbjct: 641 KLLIFGTTSRR----EVLQEM-----------GILDCFSSTIHVPNLTTGEQLLEVLEEL 685 Query: 197 SDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMD 238 + S + ++ +Q +++ V ++ +L L + R + Sbjct: 686 NIFSDDEVRAIAEQLLSKK----VNVGIKKLLMLIEMARQDE 723 >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 = 41.1 bits (97), Expect = 5e-04 Identities = 29/143 (20%), Positives = 49/143 (34%), Gaps = 23/143 (16%) Query: 24 YMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQAIIRGNHVDVVELDAA 83 +L G G GKTT A+ +A+ L I + + GE + + +AA Sbjct: 1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLREL-------FEAA 53 Query: 84 SHTS-----IDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFNGLLKTLEEPPPHVK 138 + ID+ ID + +R + ++++ L V Sbjct: 54 KKLAPCVIFIDE----IDAL----AGSRGSGGDSESRRVVN--QLLTELDGFTSSLSKVI 103 Query: 139 FIFATTEIRKIPITVL-SRCQRF 160 I AT K+ +L R R Sbjct: 104 VIAATNRPDKLDPALLRGRFDRI 126 >gnl|CDD|32436 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]. Length = 332 Score = 37.4 bits (87), Expect = 0.006 Identities = 59/241 (24%), Positives = 95/241 (39%), Gaps = 31/241 (12%) Query: 2 IGQKPMIKTLTNAFKSGRIAQS----YMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTV 57 IGQ+ + + L K+ + +L G G+GKTT A IIA L P + Sbjct: 29 IGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPAL 88 Query: 58 EFEGFGEHCQAIIRG-NHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQ 116 E G AI+ DV+ +D I + ++++ Y P FR+ I+ + Sbjct: 89 EKPG---DLAAILTNLEEGDVLFID-----EIHRLSPAVEEVLY-PAMEDFRLDII--IG 137 Query: 117 MLSTAAFNGLLKTLEEPPPHVKFIFATTEIRKIPITVLSR---CQRFDLHRISIGDLIEL 173 A +++ P I ATT + + R QR + + ++ +L E+ Sbjct: 138 KGPAA------RSIRLDLPPFTLIGATTRAGMLTNPLRDRFGIIQRLEFY--TVEELEEI 189 Query: 174 FTKILQEESIEFDPEAVAMIARASDGSARDGLSLL----DQAIARCNDKIVTSSVRLMLA 229 + + IE D EA IAR S G+ R LL D A + + I L Sbjct: 190 VKRSAKILGIEIDEEAALEIARRSRGTPRIANRLLRRVRDFAQVKGDGDIDRDIADKALK 249 Query: 230 L 230 + Sbjct: 250 M 250 >gnl|CDD|35285 KOG0062, KOG0062, KOG0062, ATPase component of ABC transporters with duplicated ATPase domains/Translation elongation factor EF-3b [Amino acid transport and metabolism, Translation, ribosomal structure and biogenesis]. Length = 582 Score = 37.2 bits (86), Expect = 0.008 Identities = 25/102 (24%), Positives = 39/102 (38%), Gaps = 9/102 (8%) Query: 24 YMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQAIIRGNHVDVVELDAA 83 Y L G GIGK+T R IA + VE E G+ +A+ D LD Sbjct: 109 YGLVGRNGIGKSTLLRAIAN------GQVSGFHVEQEVRGDDTEALQSVLESDTERLDFL 162 Query: 84 SHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFNG 125 + +++IY + E+Q+ T + +G Sbjct: 163 AEEKELLAGLTLEEIY---DKILAGLGFTPEMQLQPTKSLSG 201 >gnl|CDD|37180 KOG1969, KOG1969, KOG1969, DNA replication checkpoint protein CHL12/CTF18 [Energy production and conversion, Replication, recombination and repair]. Length = 877 Score = 35.8 bits (82), Expect = 0.018 Identities = 12/29 (41%), Positives = 17/29 (58%) Query: 25 MLSGTRGIGKTTTARIIARSLNYKTAHID 53 +L G G+GKTT A +IA+ Y I+ Sbjct: 330 LLCGPPGLGKTTLAHVIAKQAGYSVVEIN 358 >gnl|CDD|37153 KOG1942, KOG1942, KOG1942, DNA helicase, TBP-interacting protein [Replication, recombination and repair]. Length = 456 Score = 34.2 bits (78), Expect = 0.066 Identities = 35/146 (23%), Positives = 59/146 (40%), Gaps = 20/146 (13%) Query: 109 VYIMDEVQMLSTAAFNGLLKTLEEPPPHVKFIFAT----TEIR---------KIPITVLS 155 V +DEV ML F L K LE P + IFA+ IR IP +L Sbjct: 299 VLFIDEVHMLDIECFTYLHKALESPIAPI-VIFASNRGMCTIRGTEDILSPHGIPPDLLD 357 Query: 156 RCQRFDLHRISIGDLIELFTKILQEESIEFDPEAVAMIAR-ASDGSARDGLSLLDQAIAR 214 R ++ ++ Q E ++ + EA+ ++A + S R + LL A Sbjct: 358 RLLIIRTLPYDEEEIRQIIKIRAQVEGLQVEEEALDLLAEIGTSTSLRYAVQLLTPA--- 414 Query: 215 CNDKIVTSSVRLMLALADRNRIMDLF 240 + ++ R +++ D + +LF Sbjct: 415 --SILAKTNGRKEISVEDVEEVTELF 438 >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 = 33.2 bits (76), Expect = 0.11 Identities = 16/73 (21%), Positives = 32/73 (43%), Gaps = 18/73 (24%) Query: 26 LSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQAIIRGNHVDVVELDAASH 85 + G G GK+T A+++A+ L ++D + E G+ A+ Sbjct: 4 IDGPAGSGKSTVAKLLAKKLGLP--YLDTGGIRTEEVGKL----------------ASEV 45 Query: 86 TSIDDVREIIDQI 98 +I +VR+ +D+ Sbjct: 46 AAIPEVRKALDER 58 >gnl|CDD|31663 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]. Length = 366 Score = 32.6 bits (74), Expect = 0.17 Identities = 50/260 (19%), Positives = 86/260 (33%), Gaps = 30/260 (11%) Query: 8 IKTLTNAFKS---GRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGE 64 I L + G + ++ G G GKT T + + L +A+++V + Sbjct: 26 INQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRT 85 Query: 65 HCQAIIR-GNHVDVVELDAASHTSIDDVREIIDQIYYKPISARFRVYI--MDEVQMLSTA 121 Q + + N + V L S I + Y +S + + I +DEV L Sbjct: 86 PYQVLSKILNKLGKVPLTGDSSLE-------ILKRLYDNLSKKGKTVIVILDEVDALVDK 138 Query: 122 AFNGLLKTLEEP-PPHVKF-IFATTEIRKIPITVLSR-CQRFDLHRISIGDLI--ELFTK 176 L L P VK I A + K + R I EL+ Sbjct: 139 DGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLDPRVKSSLGPSEIVFPPYTAEELYDI 198 Query: 177 ILQEESIEFDP--------EAVAMIARASDGSARDGLSLLD----QAIARCNDKIVTSSV 224 + + F + +A + A G AR + +L A + K+ V Sbjct: 199 LRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSEDHV 258 Query: 225 RLMLALADRNRIMDLFGYLI 244 R +R+ + ++ L Sbjct: 259 REAQEEIERDVLEEVLKTLP 278 >gnl|CDD|35955 KOG0736, KOG0736, KOG0736, Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]. Length = 953 Score = 32.7 bits (74), Expect = 0.19 Identities = 49/275 (17%), Positives = 90/275 (32%), Gaps = 46/275 (16%) Query: 17 SGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQAIIRGNHVD 76 + S +L G G GKTT R +A + + +E + + ++ Sbjct: 427 LLTLNPSVLLHGPPGSGKTTVVRAVAS-------ELGLHLLEVDCYELVAES-------- 471 Query: 77 VVELDAASHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFNG----LLKTLEE 132 ASHT + I+ + V + + +L G LLK + Sbjct: 472 ------ASHTETK-----LQAIFSRARRCSPAVLFLRNLDVLGIDQDGGEDARLLKVIRH 520 Query: 133 ---------PPPHVKFIFATTEIRKIPITVLSRCQRFDLH--RISIGDLIELFTKILQEE 181 P V + T+ I +P + S ++ +S +E+ L Sbjct: 521 LLSNEDFKFSCPPVIVVATTSSIEDLPADIQS-LFLHEIEVPALSEEQRLEILQWYLNHL 579 Query: 182 SIEFDPEAVAMIARASDGSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLFG 241 + D + + S S D +L+ + +I + L D + Sbjct: 580 PLNQDVNLKQLARKTSGFSFGDLEALVAHSSLAAKTRIKNKGLAGGLQEEDEGELCAAGF 639 Query: 242 YLIKGDI---INVLQ-EFSSQYDSGVNPSVILHDL 272 L + D ++ LQ EFS + P+V D+ Sbjct: 640 LLTEEDFDKALSRLQKEFSDAIGAPKIPNVSWDDV 674 >gnl|CDD|37891 KOG2680, KOG2680, KOG2680, DNA helicase TIP49, TBP-interacting protein [Transcription]. Length = 454 Score = 32.2 bits (73), Expect = 0.24 Identities = 44/167 (26%), Positives = 67/167 (40%), Gaps = 27/167 (16%) Query: 109 VYIMDEVQMLSTAAFNGLLKTLEEPPPHVKFIFAT----TEIR--------KIPITVLSR 156 V +DEV ML F+ L + LE + I AT T IR IPI +L R Sbjct: 291 VLFIDEVHMLDIECFSFLNRALENDMAPI-IIMATNRGITRIRGTNYRSPHGIPIDLLDR 349 Query: 157 CQRFDLHRISIGDLIELFTKILQEESIEFDPEAVAMIAR-ASDGSARDGLSLLDQAIARC 215 + D+ ++ QEE +E +P+A+ ++ + S R + L+ A C Sbjct: 350 MLIISTQPYTEEDIKKILRIRCQEEDVEMNPDALDLLTKIGEATSLRYAIHLITAASLVC 409 Query: 216 ---NDKIVTSSVRLMLALADRNRIMDLFGYLIKGDIINVLQEFSSQY 259 K+V D R+ LF L + + L E+ S Y Sbjct: 410 LKRKGKVVEVD--------DIERVYRLF--LDEKRSMKYLTEYQSGY 446 >gnl|CDD|30793 COG0444, DppD, ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]. Length = 316 Score = 31.3 bits (71), Expect = 0.41 Identities = 23/82 (28%), Positives = 34/82 (41%), Gaps = 7/82 (8%) Query: 22 QSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEG-----FGEHCQAIIRGNHVD 76 + + G G GK+ A+ I L A I + F+G E IRG + Sbjct: 32 EILGIVGESGSGKSVLAKAIMGLLPKPNARIVGGEILFDGKDLLSLSEKELRKIRGKEIA 91 Query: 77 VVELDAASHTSIDDVREIIDQI 98 ++ D TS++ V I DQI Sbjct: 92 MIFQDPM--TSLNPVMTIGDQI 111 >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 = 30.9 bits (71), Expect = 0.67 Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 4/49 (8%) Query: 2 IGQKPMIKTLTNAFKSGRIAQSYM----LSGTRGIGKTTTARIIARSLN 46 IGQ+ + + L ++ + + L G G+GKTT A IIA + Sbjct: 27 IGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMG 75 >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 = 30.6 bits (69), Expect = 0.72 Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 2/46 (4%) Query: 26 LSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQAIIR 71 L G G GKTT R++A++L +D+ + + G I Sbjct: 4 LIGMMGAGKTTVGRLLAKALGLP--FVDLDELIEQRAGMSIPEIFA 47 >gnl|CDD|32994 COG3181, COG3181, Uncharacterized protein conserved in bacteria [Function unknown]. Length = 319 Score = 30.3 bits (68), Expect = 0.80 Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 4/57 (7%) Query: 28 GTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQAIIRGNHVDVVELDAAS 84 G G+G +A +A +L K A I + V ++G GE A++ G HVD + + Sbjct: 154 GGSGLG---SADHLAGALFAKAAGIKITYVPYKGGGEALTALL-GGHVDAGSTNLSE 206 >gnl|CDD|37215 KOG2004, KOG2004, KOG2004, Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]. Length = 906 Score = 30.3 bits (68), Expect = 0.84 Identities = 12/23 (52%), Positives = 16/23 (69%) Query: 26 LSGTRGIGKTTTARIIARSLNYK 48 G G+GKT+ A+ IAR+LN K Sbjct: 443 FVGPPGVGKTSIAKSIARALNRK 465 >gnl|CDD|37179 KOG1968, KOG1968, KOG1968, Replication factor C, subunit RFC1 (large subunit) [Replication, recombination and repair]. Length = 871 Score = 29.6 bits (66), Expect = 1.3 Identities = 13/29 (44%), Positives = 17/29 (58%) Query: 25 MLSGTRGIGKTTTARIIARSLNYKTAHID 53 +LSG GIGKTT A A+ L +K + Sbjct: 361 LLSGPPGIGKTTAAHKAAKELGFKVVEKN 389 >gnl|CDD|144702 pfam01202, SKI, Shikimate kinase. Length = 158 Score = 29.9 bits (68), Expect = 1.3 Identities = 8/19 (42%), Positives = 12/19 (63%) Query: 30 RGIGKTTTARIIARSLNYK 48 G GKTT R++A++L Sbjct: 1 MGAGKTTIGRLLAKALGLP 19 >gnl|CDD|73336 cd02987, Phd_like_Phd, Phosducin (Phd)-like family, Phd subfamily; Phd is a cytosolic regulator of G protein functions. It specifically binds G protein betagamma (Gbg)-subunits with high affinity, resulting in the solubilization of Gbg from the plasma membrane. This impedes the formation of a functional G protein trimer (G protein alphabetagamma), thereby inhibiting G protein-mediated signal transduction. Phd also inhibits the GTPase activity of G protein alpha. Phd can be phosphorylated by protein kinase A and G protein-coupled receptor kinase 2, leading to its inactivation. Phd was originally isolated from the retina, where it is highly expressed and has been implicated to play an important role in light adaptation. It is also found in the pineal gland, liver, spleen, striated muscle and the brain. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain.. Length = 175 Score = 29.4 bits (66), Expect = 1.4 Identities = 25/110 (22%), Positives = 41/110 (37%), Gaps = 14/110 (12%) Query: 87 SIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFNGLLKTLEEPPPHVKFIFATTEI 146 +D + +D I + V+I + + AA N L L P VKF Sbjct: 66 ELDSGEQFLDAIDKEGKDTTVVVHIYEP-GIPGCAALNSSLLCLAAEYPAVKFC------ 118 Query: 147 RKIPITVLSRCQRFDLHRI------SIGDLIELFTKILQEESIEFDPEAV 190 KI + FD + G+LI F ++ ++ +FD E + Sbjct: 119 -KIRASATGASDEFDTDALPALLVYKGGELIGNFVRVTEDLGEDFDAEDL 167 >gnl|CDD|31047 COG0703, AroK, Shikimate kinase [Amino acid transport and metabolism]. Length = 172 Score = 29.4 bits (66), Expect = 1.8 Identities = 11/33 (33%), Positives = 17/33 (51%) Query: 21 AQSYMLSGTRGIGKTTTARIIARSLNYKTAHID 53 + +L G G GK+T R +A++LN D Sbjct: 2 NMNIVLIGFMGAGKSTIGRALAKALNLPFIDTD 34 >gnl|CDD|31417 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein [Transcription]. Length = 450 Score = 29.1 bits (65), Expect = 2.0 Identities = 32/116 (27%), Positives = 48/116 (41%), Gaps = 14/116 (12%) Query: 109 VYIMDEVQMLSTAAFNGLLKTLEEPPPHVKFIFAT----TEIR--------KIPITVLSR 156 V +DEV ML F+ L + LE + I AT T+IR IP+ +L R Sbjct: 294 VLFIDEVHMLDIECFSFLNRALESELAPI-IILATNRGMTKIRGTDIESPHGIPLDLLDR 352 Query: 157 CQRFDLHRISIGDLIELFTKILQEESIEFDPEAVAMIAR-ASDGSARDGLSLLDQA 211 S ++ E+ +EE IE +A+ + + S R + LL A Sbjct: 353 LLIISTRPYSREEIREIIRIRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLTPA 408 >gnl|CDD|37135 KOG1924, KOG1924, KOG1924, RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms, Cytoskeleton]. Length = 1102 Score = 29.2 bits (65), Expect = 2.1 Identities = 17/90 (18%), Positives = 34/90 (37%), Gaps = 21/90 (23%) Query: 199 GSARDGLSLLDQAIARCNDKIVTSSVRLMLALADRNRIMDLFGYLIKGDIINVLQEFSSQ 258 GS R + I N+ +++ S+ I +L +L + + +N L E ++ Sbjct: 709 GSFRMPYEEIKNVILEVNEDVLSESM-----------IQNLIKHLPEQEQLNKLSELKAE 757 Query: 259 YDSGVNPSVILHDLAEFTHLVTRIKYIPEM 288 Y+ DL E V + + + Sbjct: 758 YE----------DLPEPEQFVVVMSQVKRL 777 >gnl|CDD|31270 COG1072, CoaA, Panthothenate kinase [Coenzyme metabolism]. Length = 283 Score = 29.1 bits (65), Expect = 2.2 Identities = 13/37 (35%), Positives = 21/37 (56%) Query: 26 LSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGF 62 ++G+ +GK+TTARI+ L+ V V +GF Sbjct: 87 IAGSVAVGKSTTARILQALLSRWPESPKVDLVTMDGF 123 >gnl|CDD|30198 cd02025, PanK, Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.. Length = 220 Score = 28.7 bits (64), Expect = 2.4 Identities = 12/37 (32%), Positives = 23/37 (62%) Query: 26 LSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGF 62 ++G+ +GK+TTAR++ L+ H +V + +GF Sbjct: 4 IAGSVAVGKSTTARVLQALLSRWPDHPNVELITTDGF 40 >gnl|CDD|33889 COG4133, CcmA, ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]. Length = 209 Score = 28.7 bits (64), Expect = 2.9 Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 3/40 (7%) Query: 3 GQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIA 42 G++ + L+ +G Q ++G G GKTT RI+A Sbjct: 13 GERTLFSDLSFTLNAGEALQ---ITGPNGAGKTTLLRILA 49 >gnl|CDD|31058 COG0714, COG0714, MoxR-like ATPases [General function prediction only]. Length = 329 Score = 28.5 bits (63), Expect = 3.1 Identities = 16/52 (30%), Positives = 26/52 (50%), Gaps = 3/52 (5%) Query: 1 MIGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHI 52 ++G + +I+ A +G +L G G+GKT AR +AR+L I Sbjct: 26 VVGDEEVIELALLALLAGGHV---LLEGPPGVGKTLLARALARALGLPFVRI 74 >gnl|CDD|30106 cd01384, MYSc_type_XI, Myosin motor domain, plant-specific type XI myosin, involved in organelle transport. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis causes the head to pivot and associate with a new actin subunit. The release of Pi causes the head to pivot and move the filament (power stroke). Release of ADP completes the cycle.. Length = 674 Score = 28.3 bits (63), Expect = 3.3 Identities = 13/35 (37%), Positives = 19/35 (54%) Query: 20 IAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDV 54 +QS ++SG G GKT T +++ R L Y V Sbjct: 87 KSQSILVSGESGAGKTETTKMLMRYLAYMGGRAGV 121 >gnl|CDD|35911 KOG0692, KOG0692, KOG0692, Pentafunctional AROM protein [Amino acid transport and metabolism]. Length = 595 Score = 28.4 bits (63), Expect = 3.3 Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 1/45 (2%) Query: 10 TLTNAFKSGRIAQSYM-LSGTRGIGKTTTARIIARSLNYKTAHID 53 T +SG I S M + G R GKTT + A+ L +K +D Sbjct: 551 TGAEPLESGAIKNSSMFVIGMREAGKTTIGKPAAKELYWKIMDLD 595 >gnl|CDD|145705 pfam02689, Herpes_Helicase, Helicase. This family consists of Helicases from the Herpes viruses. Helicases are responsible for the unwinding of DNA and are essential for replication and completion of the viral life cycle. Length = 801 Score = 28.4 bits (64), Expect = 3.4 Identities = 30/135 (22%), Positives = 56/135 (41%), Gaps = 39/135 (28%) Query: 23 SYMLSGTRGIGKTTTARIIARSLN--------------------YKTAHIDVPTVEFEGF 62 +Y+++GT G GK+T+ + + +L+ +A+ PT+ F+ F Sbjct: 62 AYLITGTAGAGKSTSIQTLNENLDCLITGATRVAAQNLSAKLSRAYSAYC--PTI-FQAF 118 Query: 63 GEHCQAIIRGNHVDVVE----LDAASHTSIDDVREIIDQIYYKP----ISARF-RVYIMD 113 G + NHV+ + + SI+++ + D +YY P I RF + + Sbjct: 119 G------FKSNHVNAQLRYSYVPPTTPPSIEEL-QKRDLVYYWPVIADIIRRFLKKKRLG 171 Query: 114 EVQMLSTAAFNGLLK 128 + S A L K Sbjct: 172 QYASGSLEALAPLCK 186 >gnl|CDD|37181 KOG1970, KOG1970, KOG1970, Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Energy production and conversion, Replication, recombination and repair]. Length = 634 Score = 28.1 bits (62), Expect = 3.5 Identities = 9/24 (37%), Positives = 18/24 (75%) Query: 25 MLSGTRGIGKTTTARIIARSLNYK 48 +L+G G GK+TT +++++ L Y+ Sbjct: 114 LLTGPSGCGKSTTVKVLSKELGYQ 137 >gnl|CDD|177020 CHL00081, chlI, Mg-protoporyphyrin IX chelatase. Length = 350 Score = 28.4 bits (64), Expect = 3.6 Identities = 9/18 (50%), Positives = 12/18 (66%) Query: 25 MLSGTRGIGKTTTARIIA 42 M+ G RG GK+TT R + Sbjct: 42 MIMGDRGTGKSTTIRALV 59 >gnl|CDD|38557 KOG3347, KOG3347, KOG3347, Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]. Length = 176 Score = 28.3 bits (63), Expect = 4.0 Identities = 9/30 (30%), Positives = 18/30 (60%), Gaps = 2/30 (6%) Query: 25 MLSGTRGIGKTTTARIIARSLNYKTAHIDV 54 +++GT G GK+T A +A + +I++ Sbjct: 11 LVTGTPGTGKSTLAERLAEKTGLE--YIEI 38 >gnl|CDD|31317 COG1120, FepC, ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]. Length = 258 Score = 28.2 bits (63), Expect = 4.1 Identities = 14/50 (28%), Positives = 24/50 (48%), Gaps = 3/50 (6%) Query: 3 GQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHI 52 G KP++ L+ + G I + G G GK+T + +A L K+ + Sbjct: 13 GGKPILDDLSFSIPKGEIT---GILGPNGSGKSTLLKCLAGLLKPKSGEV 59 >gnl|CDD|30853 COG0507, RecD, ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]. Length = 696 Score = 28.2 bits (62), Expect = 4.1 Identities = 43/193 (22%), Positives = 65/193 (33%), Gaps = 36/193 (18%) Query: 25 MLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQAIIRGNHV-DVVELDAA 83 ML+G G GKTT + IAR + EG G+ A G + E Sbjct: 338 MLTGGPGTGKTTAIKAIARLI-------------KEGDGDQLLAAPTGKAAKRLNESTGL 384 Query: 84 SHTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFNGLLKTL------------E 131 +I + + ++ + I+DE ML T+ GLL + + Sbjct: 385 EARTIHRLLGLWEKTGNNEEPLDGDLLIIDEASMLDTSLAFGLLSAIGKLAKVILVGDVD 444 Query: 132 EPPPHV--KFIFATTEIRKIPITVLSRCQR--------FDLHRISIGDLIELFTKILQEE 181 + P E IP L + R +I G L L T +Q+ Sbjct: 445 QLPSVGAGAVFRDLIESIGIPELKLEKRFRQARDSSIILAAGQIYEGLLPLLATGRIQDR 504 Query: 182 SIEFDPEAVAMIA 194 S E + VA + Sbjct: 505 SAEAADQLVAAVE 517 >gnl|CDD|146043 pfam03215, Rad17, Rad17 cell cycle checkpoint protein. Length = 490 Score = 28.1 bits (62), Expect = 4.5 Identities = 10/38 (26%), Positives = 19/38 (50%) Query: 11 LTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYK 48 L F +L+G G GK+TT +++++ L + Sbjct: 35 LKAVFLESNKQLILLLTGPSGCGKSTTVKVLSKELGIE 72 >gnl|CDD|33903 COG4152, COG4152, ABC-type uncharacterized transport system, ATPase component [General function prediction only]. Length = 300 Score = 27.9 bits (62), Expect = 4.5 Identities = 16/52 (30%), Positives = 21/52 (40%), Gaps = 3/52 (5%) Query: 3 GQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDV 54 G K + ++ G I + L G G GKTTT R+I L I Sbjct: 13 GDKKAVDNISFEVPPGEI---FGLLGPNGAGKTTTFRMILGLLEPTEGEITW 61 >gnl|CDD|73295 cd02019, NK, Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.. Length = 69 Score = 28.0 bits (62), Expect = 4.6 Identities = 11/37 (29%), Positives = 19/37 (51%) Query: 26 LSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGF 62 ++G G GK+T A+ +A L ++ + V EG Sbjct: 4 ITGGSGSGKSTVAKKLAEQLGGRSVVVLDEIVILEGL 40 >gnl|CDD|39857 KOG4658, KOG4658, KOG4658, Apoptotic ATPase [Signal transduction mechanisms]. Length = 889 Score = 28.0 bits (62), Expect = 4.6 Identities = 11/29 (37%), Positives = 14/29 (48%) Query: 26 LSGTRGIGKTTTARIIARSLNYKTAHIDV 54 + G G+GKTT AR I + H D Sbjct: 184 IYGMGGVGKTTLARQIFNKFDEVGNHFDG 212 >gnl|CDD|32119 COG1936, COG1936, Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]. Length = 180 Score = 27.9 bits (62), Expect = 4.6 Identities = 19/77 (24%), Positives = 36/77 (46%), Gaps = 8/77 (10%) Query: 26 LSGTRGIGKTTTARIIARSLNYKTAHIDVPTVE---FEGFGEHCQAIIRGNHVDVVELDA 82 ++GT G+GKTT +++ L YK ++ E + + E +++I VDV +L Sbjct: 5 ITGTPGVGKTTVCKLLRE-LGYKVIELNELAKENGLYTEYDELRKSVI----VDVDKLRK 59 Query: 83 ASHTSIDDVREIIDQIY 99 + + I+D Sbjct: 60 RLEELLREGSGIVDSHL 76 >gnl|CDD|31432 COG1239, ChlI, Mg-chelatase subunit ChlI [Coenzyme metabolism]. Length = 423 Score = 28.0 bits (62), Expect = 4.8 Identities = 10/31 (32%), Positives = 16/31 (51%) Query: 25 MLSGTRGIGKTTTARIIARSLNYKTAHIDVP 55 +++G +G K+T AR +A L I P Sbjct: 42 LIAGEKGTAKSTLARALADLLPEIEVVIGCP 72 >gnl|CDD|35382 KOG0160, KOG0160, KOG0160, Myosin class V heavy chain [Cytoskeleton]. Length = 862 Score = 28.0 bits (62), Expect = 4.8 Identities = 22/99 (22%), Positives = 41/99 (41%), Gaps = 17/99 (17%) Query: 22 QSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQAIIRGNHVDVVELD 81 QS ++SG G GKT TA+ + L ++ ++E ++ N + E Sbjct: 95 QSIIVSGESGAGKTETAKYLMEYLASVGGSVEGRSIE--------NKVLASNPIL--EAF 144 Query: 82 AASHTSIDD-------VREIIDQIYYKPISARFRVYIMD 113 + T+ +D V EI + A+ R Y+++ Sbjct: 145 GNAKTTRNDNSSRFGKVIEITFDQQGRISGAKIRTYLLE 183 >gnl|CDD|31145 COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]. Length = 149 Score = 27.5 bits (61), Expect = 5.8 Identities = 21/71 (29%), Positives = 29/71 (40%), Gaps = 3/71 (4%) Query: 26 LSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQAIIRGNHVDVVELDAASH 85 LSG G GKTT R IA+ L ++ PT F E+ + + H D+ L Sbjct: 30 LSGDLGAGKTTLVRGIAKGLGVDG-NVKSPT--FTLVEEYEEGRLPLYHFDLYRLSDPEE 86 Query: 86 TSIDDVREIID 96 + E D Sbjct: 87 LDELGLDEYFD 97 >gnl|CDD|72989 cd03230, ABC_DR_subfamily_A, This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.. Length = 173 Score = 27.7 bits (62), Expect = 5.8 Identities = 14/40 (35%), Positives = 20/40 (50%), Gaps = 3/40 (7%) Query: 3 GQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIA 42 G+K + ++ + G I Y L G G GKTT +II Sbjct: 11 GKKTALDDISLTVEKGEI---YGLLGPNGAGKTTLIKIIL 47 >gnl|CDD|38232 KOG3022, KOG3022, KOG3022, Predicted ATPase, nucleotide-binding [Cell cycle control, cell division, chromosome partitioning]. Length = 300 Score = 27.6 bits (61), Expect = 6.1 Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 3/32 (9%) Query: 26 LSGTRGIGKTTTARIIARSL---NYKTAHIDV 54 LSG G+GK+T +A +L K +D Sbjct: 53 LSGKGGVGKSTVTVNLALALASEGKKVGLLDA 84 >gnl|CDD|146298 pfam03585, Herpes_ICP4_C, Herpesvirus ICP4-like protein C-terminal region. The immediate-early protein ICP4 (infected-cell polypeptide 4) is required for efficient transcription of early and late viral genes and is thus essential for productive infection. ICP4 is a large phosphoprotein that binds DNA in a sequence specific manner as a homodimer. ICP4 represses transcription from LAT, ICP4 and ORF-P that have high-affinity a ICP4 binding site that spans the transcription initiation site. ICP4 proteins have two highly conserved regions, this family contains the C-terminal region that probably acts as an enhancer for the N-terminal region. Length = 425 Score = 27.4 bits (61), Expect = 6.2 Identities = 10/25 (40%), Positives = 14/25 (56%), Gaps = 1/25 (4%) Query: 181 ESIEFDPEAVAMIA-RASDGSARDG 204 ++ FDPEA+A IA R + R Sbjct: 45 PALAFDPEALAEIAARCNGPPPRSD 69 >gnl|CDD|30814 COG0466, Lon, ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]. Length = 782 Score = 27.4 bits (61), Expect = 6.2 Identities = 10/23 (43%), Positives = 15/23 (65%) Query: 26 LSGTRGIGKTTTARIIARSLNYK 48 L G G+GKT+ + IA++L K Sbjct: 355 LVGPPGVGKTSLGKSIAKALGRK 377 >gnl|CDD|35286 KOG0063, KOG0063, KOG0063, RNAse L inhibitor, ABC superfamily [RNA processing and modification]. Length = 592 Score = 27.2 bits (60), Expect = 6.8 Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 5/36 (13%) Query: 12 TNAFKSGRI-----AQSYMLSGTRGIGKTTTARIIA 42 N+FK R+ Q L GT GIGK+T +I+A Sbjct: 86 ANSFKLHRLPIPRPGQVLGLVGTNGIGKSTALKILA 121 >gnl|CDD|73054 cd03295, ABC_OpuCA_Osmoprotection, OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.. Length = 242 Score = 27.5 bits (61), Expect = 6.8 Identities = 14/41 (34%), Positives = 18/41 (43%), Gaps = 3/41 (7%) Query: 3 GQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIAR 43 G K + L G +L G G GKTTT ++I R Sbjct: 12 GGKKAVNNLNLEIAKGEFL---VLIGPSGSGKTTTMKMINR 49 >gnl|CDD|30084 cd00124, MYSc, Myosin motor domain. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis causes the head to pivot and associate with a new actin subunit. The release of Pi causes the head to pivot and move the filament (power stroke). Release of ADP completes the cycle.. Length = 679 Score = 27.2 bits (60), Expect = 6.9 Identities = 12/37 (32%), Positives = 17/37 (45%) Query: 22 QSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVE 58 QS ++SG G GKT ++I + L D E Sbjct: 87 QSIIISGESGAGKTENTKLIMKYLASLAGSNDTGIEE 123 >gnl|CDD|31326 COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]. Length = 293 Score = 27.2 bits (60), Expect = 7.0 Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 3/40 (7%) Query: 3 GQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIA 42 G K + ++ + G I + L G G GKTT +I+A Sbjct: 16 GDKTALDGVSFEVEPGEI---FGLLGPNGAGKTTLLKILA 52 >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 = 27.2 bits (61), Expect = 7.3 Identities = 11/33 (33%), Positives = 16/33 (48%) Query: 25 MLSGTRGIGKTTTARIIARSLNYKTAHIDVPTV 57 L G G GK+T A+ +AR+L +V Sbjct: 2 WLYGPPGCGKSTLAKYLARALLDHLGLPKKDSV 34 Score = 26.8 bits (60), Expect = 8.7 Identities = 19/68 (27%), Positives = 24/68 (35%), Gaps = 12/68 (17%) Query: 234 NRIMDLFGYLIKGDI--INVLQEFSSQY---------DSGVNPSVILHDLAEFTHLVTRI 282 ++D G K + N +F Y D G NP D AE LV+ Sbjct: 20 RALLDHLGLPKKDSVYSRNPDDDFWDGYTGQPVVIIDDFGQNPDG-PSDEAELIRLVSST 78 Query: 283 KYIPEMAD 290 Y P MA Sbjct: 79 PYPPPMAA 86 >gnl|CDD|164554 CHL00175, minD, septum-site determining protein; Validated. Length = 281 Score = 27.0 bits (60), Expect = 7.6 Identities = 17/31 (54%), Positives = 20/31 (64%), Gaps = 5/31 (16%) Query: 27 SGTRGIGKTT-TARI---IARSLNYKTAHID 53 SG G+GKTT TA + IAR L Y+ A ID Sbjct: 22 SGKGGVGKTTTTANLGMSIAR-LGYRVALID 51 >gnl|CDD|30812 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]. Length = 494 Score = 27.1 bits (59), Expect = 7.6 Identities = 34/180 (18%), Positives = 61/180 (33%), Gaps = 19/180 (10%) Query: 25 MLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQAIIRGNHVDVVELDAAS 84 +L G G GKT A+ +A + + + + GE + I + A S Sbjct: 280 LLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSKWVGESEKNIRELF--EKARKLAPS 337 Query: 85 HTSIDDVREIIDQIYYKPISARFRVYIMDEVQMLSTAAFNGLLKTLEEPPPHVKFIFATT 144 ID++ + + RV V L T +G+ K + A T Sbjct: 338 IIFIDEIDSLASGRGPSEDGSGRRV-----VGQLLT-ELDGIEKA------EGVLVIAAT 385 Query: 145 EIRKIPITVLSRCQRFDLHRI----SIGDLIELFTKILQEESIEFDPEAV-AMIARASDG 199 L R RFD + + +E+F L+++ + +A ++G Sbjct: 386 NRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEG 445 >gnl|CDD|31320 COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]. Length = 539 Score = 27.1 bits (60), Expect = 9.1 Identities = 10/18 (55%), Positives = 12/18 (66%) Query: 26 LSGTRGIGKTTTARIIAR 43 L G G GK+T ARI+A Sbjct: 322 LVGESGSGKSTLARILAG 339 >gnl|CDD|31299 COG1102, Cmk, Cytidylate kinase [Nucleotide transport and metabolism]. Length = 179 Score = 26.7 bits (59), Expect = 9.3 Identities = 12/23 (52%), Positives = 14/23 (60%) Query: 26 LSGTRGIGKTTTARIIARSLNYK 48 +SG G GKTT AR +A L K Sbjct: 5 ISGLPGSGKTTVARELAEHLGLK 27 >gnl|CDD|109737 pfam00693, Herpes_TK, Thymidine kinase from herpesvirus. Length = 279 Score = 26.9 bits (60), Expect = 9.8 Identities = 11/16 (68%), Positives = 12/16 (75%) Query: 28 GTRGIGKTTTARIIAR 43 G GIGKTTTAR +A Sbjct: 1 GAHGIGKTTTARALAA 16 >gnl|CDD|30834 COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]. Length = 530 Score = 26.8 bits (59), Expect = 9.9 Identities = 17/98 (17%), Positives = 37/98 (37%), Gaps = 5/98 (5%) Query: 2 IGQKPMIKTLTNAFKSGRIAQSYMLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEG 61 G +P+++ ++ G L G G GK+T +I+A L + + P G Sbjct: 13 YGDRPLLENVSLTLNPGER---IGLVGRNGAGKSTLLKILAGELEPDSGEVTRPKGLRVG 69 Query: 62 FGEHCQAIIRGNHVDVVELDAASHTSIDDVREIIDQIY 99 + Q V++ + ++ +++ Y Sbjct: 70 YLS--QEPPLDPEKTVLDYVIEGFGELRELLAELEEAY 105 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 0.322 0.137 0.381 Gapped Lambda K H 0.267 0.0868 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 4,357,737 Number of extensions: 234322 Number of successful extensions: 922 Number of sequences better than 10.0: 1 Number of HSP's gapped: 907 Number of HSP's successfully gapped: 111 Length of query: 369 Length of database: 6,263,737 Length adjustment: 95 Effective length of query: 274 Effective length of database: 4,210,882 Effective search space: 1153781668 Effective search space used: 1153781668 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 58 (25.9 bits)