RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254781060|ref|YP_003065473.1| ABC transporter, nucleotide binding/ATPase protein [Candidatus Liberibacter asiaticus str. psy62] (249 letters) >gnl|CDD|30745 COG0396, SufC, ABC-type transport system involved in Fe-S cluster assembly, ATPase component [Posttranslational modification, protein turnover, chaperones]. Length = 251 Score = 327 bits (840), Expect = 2e-90 Identities = 142/249 (57%), Positives = 186/249 (74%), Gaps = 5/249 (2%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 MLEIK+L + V+ EI++G+NL V+ EV AIMGPNGSGKSTL+Y + GH YE+T G Sbjct: 3 MLEIKDLHVE-VEGKKEILKGVNLTVKEGEVHAIMGPNGSGKSTLAYTIMGHPKYEVTEG 61 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 +IL+ GE IL+ S ERA GIFLAFQYPVEIPG+ FL+ A+N +R AR ++P Sbjct: 62 EILFDGEDILELSPDERARAGIFLAFQYPVEIPGVTNSDFLRAAMNARRGARG----ILP 117 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDI 180 +F +++++ LG++ + L+R +N GFSGGEKK EILQ+ LLEP L ILDE DSGLDI Sbjct: 118 EFIKELKEKAELLGLDEEFLERYVNEGFSGGEKKRNEILQLLLLEPKLAILDEPDSGLDI 177 Query: 181 DALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEE 240 DALKI A+G+NALR + R LIITHYQRLL+YIKPD +HVL++G+I+K+GD +A +LEE Sbjct: 178 DALKIVAEGINALREEGRGVLIITHYQRLLDYIKPDKVHVLYDGRIVKSGDPELAEELEE 237 Query: 241 NGYAELIKE 249 GY L + Sbjct: 238 KGYDWLKEV 246 >gnl|CDD|177053 CHL00131, ycf16, sulfate ABC transporter protein; Validated. Length = 252 Score = 306 bits (787), Expect = 2e-84 Identities = 139/246 (56%), Positives = 177/246 (71%), Gaps = 2/246 (0%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 +LEIKNL A + + EI++GLNL + E+ AIMGPNGSGKSTLS +++GH Y+I G Sbjct: 7 ILEIKNLHASV--NENEILKGLNLSINKGEIHAIMGPNGSGKSTLSKVIAGHPAYKILEG 64 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 DIL+KGESILD ERA GIFLAFQYP+EIPG+ FL++A N +RK + EL Sbjct: 65 DILFKGESILDLEPEERAHLGIFLAFQYPIEIPGVSNADFLRLAYNSKRKFQGLPELDPL 124 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDI 180 +F + + +G++ L R +N GFSGGEKK EILQM LL+ L ILDETDSGLDI Sbjct: 125 EFLEIINEKLKLVGMDPSFLSRNVNEGFSGGEKKRNEILQMALLDSELAILDETDSGLDI 184 Query: 181 DALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEE 240 DALKI A+G+N L + + S ++ITHYQRLL+YIKPD +HV+ NGKIIKTGD +A +LE+ Sbjct: 185 DALKIIAEGINKLMTSENSIILITHYQRLLDYIKPDYVHVMQNGKIIKTGDAELAKELEK 244 Query: 241 NGYAEL 246 GY L Sbjct: 245 KGYDWL 250 >gnl|CDD|72976 cd03217, ABC_FeS_Assembly, ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.. Length = 200 Score = 259 bits (664), Expect = 5e-70 Identities = 120/242 (49%), Positives = 153/242 (63%), Gaps = 42/242 (17%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 LEIK+L + EI++G+NL ++ EV A+MGPNGSGKSTL+ + GH YE+T G+ Sbjct: 1 LEIKDLHVSV--GGKEILKGVNLTIKKGEVHALMGPNGSGKSTLAKTIMGHPKYEVTEGE 58 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPD 121 IL+KGE I D ERA GIFLAFQYP EIPG+ FL Sbjct: 59 ILFKGEDITDLPPEERARLGIFLAFQYPPEIPGVKNADFL-------------------- 98 Query: 122 FTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDID 181 R +N GFSGGEKK EILQ+ LLEP L ILDE DSGLDID Sbjct: 99 --------------------RYVNEGFSGGEKKRNEILQLLLLEPDLAILDEPDSGLDID 138 Query: 182 ALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEEN 241 AL++ A+ +N LR + +S LIITHYQRLL+YIKPD +HVL++G+I+K+GD +AL++E+ Sbjct: 139 ALRLVAEVINKLREEGKSVLIITHYQRLLDYIKPDRVHVLYDGRIVKSGDKELALEIEKK 198 Query: 242 GY 243 GY Sbjct: 199 GY 200 >gnl|CDD|72984 cd03225, ABC_cobalt_CbiO_domain1, Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.. Length = 211 Score = 107 bits (268), Expect = 4e-24 Identities = 64/229 (27%), Positives = 110/229 (48%), Gaps = 24/229 (10%) Query: 3 EIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDI 62 E+KNL D + ++L ++ E V I+GPNGSGKSTL LL+G T+G++ Sbjct: 1 ELKNLSFSYPDGARPALDDISLTIKKGEFVLIVGPNGSGKSTLLRLLNGLL--GPTSGEV 58 Query: 63 LYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLK------IALNEQRKARNEKE 116 L G+ + S+ E + + L FQ P QF +A + E+E Sbjct: 59 LVDGKDLTKLSLKEL-RRKVGLVFQNP-------DDQFFGPTVEEEVAFGLENLGLPEEE 110 Query: 117 LLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDS 176 + +V + +G+ + P L SGG+K+ I + ++P + +LDE + Sbjct: 111 IE-----ERVEEALELVGLEGLRDRSPFTL--SGGQKQRVAIAGVLAMDPDILLLDEPTA 163 Query: 177 GLDIDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGK 225 GLD + + + L+++ ++ +I+TH LL + D + VL +GK Sbjct: 164 GLDPAGRRELLELLKKLKAEGKTIIIVTHDLDLLLEL-ADRVIVLEDGK 211 >gnl|CDD|72978 cd03219, ABC_Mj1267_LivG_branched, The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).. Length = 236 Score = 106 bits (267), Expect = 5e-24 Identities = 56/218 (25%), Positives = 105/218 (48%), Gaps = 12/218 (5%) Query: 19 IRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVERA 78 + ++ V P E+ ++GPNG+GK+TL L+SG T+G +L+ GE I E A Sbjct: 16 LDDVSFSVRPGEIHGLIGPNGAGKTTLFNLISGF--LRPTSGSVLFDGEDITGLPPHEIA 73 Query: 79 SKGIFLAFQYPVEIPGIIMMQFLKIALNEQRK-----ARNEKELLIPDFTRKVRKITAEL 133 GI FQ P P + +++ + +A + AR +E + + ++ + Sbjct: 74 RLGIGRTFQIPRLFPELTVLENVMVAAQARTGSGLLLARARREE--REARERAEELLERV 131 Query: 134 GINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNAL 193 G+ + L S G+++ EI + +P L +LDE +GL+ + + A+ + L Sbjct: 132 GLADLADRPAGEL--SYGQQRRLEIARALATDPKLLLLDEPAAGLNPEETEELAELIREL 189 Query: 194 RSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGD 231 R + + L++ H ++ + D + VL G++I G Sbjct: 190 RERGITVLLVEHDMDVVMSLA-DRVTVLDQGRVIAEGT 226 >gnl|CDD|31326 COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]. Length = 293 Score = 99.3 bits (247), Expect = 9e-22 Identities = 61/232 (26%), Positives = 110/232 (47%), Gaps = 16/232 (6%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 ++E++NL K D + G++ +VEP E+ ++GPNG+GK+TL +L+G + T+G Sbjct: 4 VIEVRNLT-KKYGGDKTALDGVSFEVEPGEIFGLLGPNGAGKTTLLKILAG--LLKPTSG 60 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 +IL G ++ + + I Q P P + + + L+ ++ E E Sbjct: 61 EILVLGYDVVKEP--AKVRRRIGYVPQEPSLYPELTVRENLEFFARLYGLSKEEAE---- 114 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDI 180 ++ ++ G+ K+ SGG K+ I L +P L ILDE SGLD Sbjct: 115 ---ERIEELLELFGLEDKANKKV--RTLSGGMKQRLSIALALLHDPELLILDEPTSGLDP 169 Query: 181 DALKIAAQGVNALRSQD-RSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGD 231 ++ + + + L + + L+ TH + D + +L++GKII G Sbjct: 170 ESRREIWELLRELAKEGGVTILLSTHILEEAEEL-CDRVIILNDGKIIAEGT 220 >gnl|CDD|35278 KOG0055, KOG0055, KOG0055, Multidrug/pheromone exporter, ABC superfamily [Secondary metabolites biosynthesis, transport and catabolism]. Length = 1228 Score = 96.0 bits (239), Expect = 8e-21 Identities = 67/236 (28%), Positives = 121/236 (51%), Gaps = 16/236 (6%) Query: 15 DTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSI 74 D +I++G++LK+ + VA++GP+GSGKSTL LL+ Y+ T+G++L GE I + ++ Sbjct: 365 DVKILKGVSLKIPSGQTVALVGPSGSGKSTLIQLLARF--YDPTSGEVLIDGEDIRNLNL 422 Query: 75 VERASKGIFLAFQYPVEIPGIIM--MQFLKIALNEQRKARNEKELLIPDFTRKVRKITAE 132 S+ I L Q PV I +++ K + K DF K+ Sbjct: 423 KWLRSQ-IGLVSQEPVLFATTIRENIRYGKPDATREEIEEAAKAANAHDFILKL-----P 476 Query: 133 LGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNA 192 G + + +R + L SGG+K+ I + + P + +LDE S LD ++ ++ + ++ Sbjct: 477 DGYDTLVGERGVQL--SGGQKQRIAIARALVRNPKILLLDEATSALDAESERVVQEALDK 534 Query: 193 LRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEENGYAELIK 248 S+ R+ +++ H RL D I V+ GKI++ G + + L Y+ L++ Sbjct: 535 A-SKGRTTIVVAH--RLSTIRNADKIAVMEEGKIVEQGTHDELIAL-GGIYSSLVR 586 Score = 75.6 bits (186), Expect = 1e-14 Identities = 66/239 (27%), Positives = 114/239 (47%), Gaps = 22/239 (9%) Query: 15 DTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSI 74 D ++ L+L + + VA++GP+GSGKST+ LL + Y+ AG + G I D + Sbjct: 1002 DVPVLNNLSLSIRAGQTVALVGPSGSGKSTVISLLE--RFYDPDAGKVKIDGVDIKDLN- 1058 Query: 75 VERASKGIFLAFQYPV----EIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKIT 130 ++ K I L Q PV I I +++ E +A K +F + Sbjct: 1059 LKWLRKQIGLVSQEPVLFNGTIRENIAYGSEEVSEEEIIEA--AKLANAHNFI-----SS 1111 Query: 131 AELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGV 190 G + + +R + L SGG+K+ I + L P + +LDE S LD ++ ++ + + Sbjct: 1112 LPQGYDTRVGERGVQL--SGGQKQRIAIARAILRNPKILLLDEATSALDSESERVVQEAL 1169 Query: 191 NALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEENG-YAELIK 248 + + R+ ++I H RL D I VL NGK+++ G + L + G Y L++ Sbjct: 1170 DRAM-EGRTTIVIAH--RLSTIQNADVIAVLKNGKVVEQGTHDEL--LAKRGIYFRLVQ 1223 >gnl|CDD|31320 COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]. Length = 539 Score = 94.9 bits (236), Expect = 2e-20 Identities = 63/250 (25%), Positives = 113/250 (45%), Gaps = 35/250 (14%) Query: 1 MLEIKNLR--AKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYE-- 56 +LE++NL +R ++ +VEP E++ I+G +GSGKSTL+ L G Sbjct: 5 LLEVENLTVEFATDGGRVPAVRDVSFEVEPGEILGIVGESGSGKSTLALALMGLLPEGGR 64 Query: 57 ITAGDILYKGESILDWSIVERAS---KGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARN 113 IT+G+++ G +L S E K I + FQ P+ +LN + Sbjct: 65 ITSGEVILDGRDLLGLSEREMRKLRGKRIAMIFQDPMT------------SLNPVMTIGD 112 Query: 114 E-KELLI-------PDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLE 165 + +E L + ++ ++ ++G+ + SGG ++ I L+ Sbjct: 113 QIREALRLHGKGSRAEARKRAVELLEQVGLPDPERRDRYPHQLSGGMRQRVMIAMALALK 172 Query: 166 PSLCILDETDSGLDIDALKIAAQGVNALRSQDR----SFLIITHYQRLLNYIKPDTIHVL 221 P L I DE + LD+ AQ ++ L+ R + L ITH ++ + D + V+ Sbjct: 173 PKLLIADEPTTALDVT---TQAQILDLLKDLQRELGMAVLFITHDLGVVAELA-DRVVVM 228 Query: 222 HNGKIIKTGD 231 + G+I++TG Sbjct: 229 YKGEIVETGP 238 Score = 79.8 bits (197), Expect = 6e-16 Identities = 60/242 (24%), Positives = 114/242 (47%), Gaps = 28/242 (11%) Query: 19 IRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESI-LDWSIVER 77 + ++ + E + ++G +GSGKSTL+ +L+G ++G I++ G+ + L + R Sbjct: 307 VDDVSFDLREGETLGLVGESGSGKSTLARILAGL--LPPSSGSIIFDGQDLDLTGGELRR 364 Query: 78 ASKGIFLAFQ------YPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITA 131 + I + FQ P G I+ + L+I R +V ++ Sbjct: 365 LRRRIQMVFQDPYSSLNPRMTVGDILAEPLRIHGGGSGAERRA----------RVAELLE 414 Query: 132 ELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVN 191 +G+ + L R + SGG+++ I + LEP L ILDE S LD+ + AQ +N Sbjct: 415 LVGLPPEFLDRYPHE-LSGGQRQRVAIARALALEPKLLILDEPVSALDV---SVQAQVLN 470 Query: 192 AL-RSQDR---SFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEENGYAELI 247 L Q+ ++L I+H ++ YI D + V+++G+I++ G + ++ Y + Sbjct: 471 LLKDLQEELGLTYLFISHDLAVVRYI-ADRVAVMYDGRIVEEGPTEKVFENPQHPYTRKL 529 Query: 248 KE 249 Sbjct: 530 LA 531 >gnl|CDD|34593 COG4988, CydD, ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]. Length = 559 Score = 90.7 bits (225), Expect = 4e-19 Identities = 63/239 (26%), Positives = 110/239 (46%), Gaps = 17/239 (7%) Query: 13 DTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDW 72 + LNL ++ ++ A++G +G+GKSTL LL G T G+I G + D Sbjct: 331 PDGKPALSDLNLTIKAGQLTALVGASGAGKSTLLNLLLGF--LAPTQGEIRVNGIDLRDL 388 Query: 73 SIVERASKGIFLAFQYPVEIPGIIM--MQFLKIALNEQRKARNEKELLIPDFTRKVRKIT 130 S E K I Q P G I + + +++ + + +F K Sbjct: 389 SP-EAWRKQISWVSQNPYLFAGTIRENILLARPDASDEEIIAALDQAGLLEFVPK----- 442 Query: 131 AELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGV 190 G++ + + L SGG+ + + + L SL +LDE + LD + +I Q + Sbjct: 443 -PDGLDTVIGEGGAGL--SGGQAQRLALARALLSPASLLLLDEPTAHLDAETEQIILQAL 499 Query: 191 NALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEENGYAELIKE 249 L ++ ++ L+ITH RL + D I VL NG++++ G + L ++ YA L+K+ Sbjct: 500 QEL-AKQKTVLVITH--RLEDAADADRIVVLDNGRLVEQGTHE-ELSEKQGLYANLLKQ 554 >gnl|CDD|31325 COG1129, MglA, ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]. Length = 500 Score = 90.6 bits (225), Expect = 4e-19 Identities = 58/224 (25%), Positives = 108/224 (48%), Gaps = 12/224 (5%) Query: 19 IRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVERA 78 + G++L V P EV A++G NG+GKSTL +LSG Y +G+IL G+ + S + Sbjct: 24 LDGVSLTVRPGEVHALLGENGAGKSTLMKILSG--VYPPDSGEILIDGKPVAFSSPRDAL 81 Query: 79 SKGIFLAFQYPVEIPGIIMMQ--FLKIALNEQRKARNEKELLIPDFTRKVRKITAELGIN 136 + GI Q +P + + + FL + + K + R+ R++ A LG++ Sbjct: 82 AAGIATVHQELSLVPNLSVAENIFLGREPTRRFGLIDRKAM-----RRRARELLARLGLD 136 Query: 137 MDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQ 196 +D +L S ++++ EI + + + ILDE + L + + + L++Q Sbjct: 137 IDPDTLVGDL--SIAQRQMVEIARALSFDARVLILDEPTAALTVKETERLFDLIRRLKAQ 194 Query: 197 DRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEE 240 + + I+H + I D I VL +G+++ T + +E Sbjct: 195 GVAIIYISHRLDEVFEIA-DRITVLRDGRVVGTRPTAAETSEDE 237 Score = 49.4 bits (118), Expect = 9e-07 Identities = 50/235 (21%), Positives = 98/235 (41%), Gaps = 27/235 (11%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 +LE++NL +R ++ V E++ I G G+G++ L+ L G + ++G Sbjct: 263 VLEVRNLSGGGK------VRDVSFTVRAGEILGIAGLVGAGRTELARALFGAR--PASSG 314 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIP------GIIMMQFLK--IALNEQRKAR 112 +IL G+ + S + GI +P G+++ + I L R+ Sbjct: 315 EILLDGKPVRIRSPRDAIKAGIAY-------VPEDRKSEGLVLDMSIAENITLASLRRFS 367 Query: 113 NEKELLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILD 172 + + L I ++P+ SGG ++ + + +P + ILD Sbjct: 368 RRGLIDRRKERALAERYIRRLRIKTPSPEQPIG-TLSGGNQQKVVLARWLATDPKVLILD 426 Query: 173 ETDSGLDIDALKIAAQGVNALRSQDRSFLIIT-HYQRLLNYIKPDTIHVLHNGKI 226 E G+D+ A + + L ++ ++ L+I+ LL D I V+ G+I Sbjct: 427 EPTRGIDVGAKAEIYRLIRELAAEGKAILMISSELPELLGL--SDRILVMREGRI 479 >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 = 90.2 bits (224), Expect = 4e-19 Identities = 61/252 (24%), Positives = 113/252 (44%), Gaps = 36/252 (14%) Query: 1 MLEIKNLRAKIVDTDTEI--IRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSG---HKDY 55 +LE+KNL + + G++ +++ E++ I+G +GSGKS L+ + G + Sbjct: 1 LLEVKNLSVSFPTDAGVVKAVDGVSFELKKGEILGIVGESGSGKSVLAKAIMGLLPKPNA 60 Query: 56 EITAGDILYKGESILDWSIVERAS---KGIFLAFQY------PVEIPGIIMMQFLKIALN 106 I G+IL+ G+ +L S E K I + FQ PV G + + L++ Sbjct: 61 RIVGGEILFDGKDLLSLSEKELRKIRGKEIAMIFQDPMTSLNPVMTIGDQIAEVLRLHGK 120 Query: 107 EQRKARNEKELLIPDFTRKVRKITAELGINMDMLKRPLNL---GFSGGEKKIAEILQMRL 163 K ++ + ++ +GI +R L SGG ++ I Sbjct: 121 GLSKKEAKE---------RAIELLELVGI--PDPERRLKSYPHELSGGMRQRVMIAMALA 169 Query: 164 LEPSLCILDETDSGLDIDALKIAAQGVNALRS----QDRSFLIITHYQRLLNYIKPDTIH 219 L P L I DE + LD+ + AQ ++ L+ + + ++ITH ++ I D + Sbjct: 170 LNPKLLIADEPTTALDV---TVQAQILDLLKELQREKGTALILITHDLGVVAEIA-DRVA 225 Query: 220 VLHNGKIIKTGD 231 V++ G+I++ G Sbjct: 226 VMYAGRIVEEGP 237 >gnl|CDD|30760 COG0411, LivG, ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]. Length = 250 Score = 90.2 bits (224), Expect = 5e-19 Identities = 60/242 (24%), Positives = 118/242 (48%), Gaps = 21/242 (8%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 +LE++ L + + ++L+V P E+V ++GPNG+GK+TL L++G Y+ ++G Sbjct: 4 LLEVRGLSKRF--GGLTAVNDVSLEVRPGEIVGLIGPNGAGKTTLFNLITGF--YKPSSG 59 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 ++++G I A GI FQ PG+ +++ + + + + L P Sbjct: 60 TVIFRGRDITGLPPHRIARLGIARTFQITRLFPGLTVLENVAVGAHARLGLSG--LLGRP 117 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLG---------FSGGEKKIAEILQMRLLEPSLCIL 171 ++ R+ ++L+ + LG S G+++ EI + +P L +L Sbjct: 118 RARKEEREARERA---RELLEF-VGLGELADRPAGNLSYGQQRRLEIARALATQPKLLLL 173 Query: 172 DETDSGLDIDALKIAAQGVNALRSQ-DRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 DE +GL+ + + A+ + LR + + L+I H +L+ + D I VL+ G++I G Sbjct: 174 DEPAAGLNPEETEELAELIRELRDRGGVTILLIEHDMKLVMGLA-DRIVVLNYGEVIAEG 232 Query: 231 DY 232 Sbjct: 233 TP 234 >gnl|CDD|73016 cd03257, ABC_NikE_OppD_transporters, The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.. Length = 228 Score = 89.0 bits (221), Expect = 1e-18 Identities = 60/240 (25%), Positives = 111/240 (46%), Gaps = 22/240 (9%) Query: 1 MLEIKNLRAKIV--DTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEIT 58 +LE+KNL + + ++ ++ E + ++G +GSGKSTL+ + G + T Sbjct: 1 LLEVKNLSVSFPTGGGSVKALDDVSFSIKKGETLGLVGESGSGKSTLARAILGL--LKPT 58 Query: 59 AGDILYKGESILDWSIVERASKG--IFLAFQYPVEI--PGIIMMQFLKIALNEQRKARNE 114 +G I++ G+ +L S R + I + FQ P+ P + + + + L K + Sbjct: 59 SGSIIFDGKDLLKLSRRLRKIRRKEIQMVFQDPMSSLNPRMTIGEQIAEPLRIHGKLSKK 118 Query: 115 KELLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDET 174 + V + +G+ ++L R SGG+++ I + L P L I DE Sbjct: 119 EARK-----EAVLLLLVGVGLPEEVLNR-YPHELSGGQRQRVAIARALALNPKLLIADEP 172 Query: 175 DSGLDIDALKIAAQGVNALR----SQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 S LD+ + AQ ++ L+ + L ITH ++ I D + V++ GKI++ G Sbjct: 173 TSALDVS---VQAQILDLLKKLQEELGLTLLFITHDLGVVAKIA-DRVAVMYAGKIVEEG 228 >gnl|CDD|31319 COG1122, CbiO, ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]. Length = 235 Score = 88.8 bits (220), Expect = 1e-18 Identities = 62/238 (26%), Positives = 112/238 (47%), Gaps = 25/238 (10%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 M+E +NL + ++ ++L++E E V ++GPNGSGKSTL LL+G + T+G Sbjct: 3 MIEAENLSFR-YPGRKAALKDVSLEIEKGERVLLIGPNGSGKSTLLKLLNGL--LKPTSG 59 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLK------IALNEQRKARNE 114 ++L G + + + L FQ P + Q +A + Sbjct: 60 EVLVDGLDTSSEKSLLELRQKVGLVFQNPDD-------QLFGPTVEDEVAFGLENLGLPR 112 Query: 115 KELLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDET 174 +E+ +V + +G+ + + P NL SGG+K+ I + + P + +LDE Sbjct: 113 EEI-----EERVAEALELVGLEELLDRPPFNL--SGGQKQRVAIAGVLAMGPEILLLDEP 165 Query: 175 DSGLDIDALKIAAQGVNALRSQ-DRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGD 231 +GLD + + + L+ + ++ +I+TH L+ D + VL +GKI+ GD Sbjct: 166 TAGLDPKGRRELLELLKKLKEEGGKTIIIVTHDLELVLEYA-DRVVVLDDGKILADGD 222 >gnl|CDD|33631 COG3839, MalK, ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]. Length = 338 Score = 88.8 bits (220), Expect = 1e-18 Identities = 61/233 (26%), Positives = 117/233 (50%), Gaps = 20/233 (8%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 LE+KN+R E+++ +NL +E E V ++GP+G GKSTL +++G E T+G Sbjct: 3 ELELKNVRKSF--GSFEVLKDVNLDIEDGEFVVLLGPSGCGKSTLLRMIAGL--EEPTSG 58 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 +IL G + D +R GI + FQ P + + + + L + + E + Sbjct: 59 EILIDGRDVTDLPPEKR---GIAMVFQNYALYPHMTVYENIAFGLKLRGVPKAEID---- 111 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDI 180 ++V+++ LG+ + ++PL L SGG+++ + + + +P + +LDE S LD Sbjct: 112 ---KRVKEVAKLLGLEHLLNRKPLQL--SGGQRQRVALARALVRKPKVFLLDEPLSNLD- 165 Query: 181 DALK--IAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGD 231 L+ + ++ + + +TH Q + D I V+++G+I + G Sbjct: 166 AKLRVLMRSEIKKLHERLGTTTIYVTHDQVEAMTLA-DRIVVMNDGRIQQVGT 217 >gnl|CDD|73018 cd03259, ABC_Carb_Solutes_like, ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. 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 = 213 Score = 87.9 bits (218), Expect = 2e-18 Identities = 60/230 (26%), Positives = 107/230 (46%), Gaps = 18/230 (7%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 LE+K L +K + L+L VEP E +A++GP+G GK+TL L++G + +G+ Sbjct: 1 LELKGL-SKTYG-SVRALDDLSLTVEPGEFLALLGPSGCGKTTLLRLIAGLE--RPDSGE 56 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPD 121 IL G + R I + FQ P + + + + L + + E Sbjct: 57 ILIDGRDVTGVPPERR---NIGMVFQDYALFPHLTVAENIAFGLKLRGVPKAEIR----- 108 Query: 122 FTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDID 181 +VR++ +G+ + + P L SGG+++ + + EPSL +LDE S LD Sbjct: 109 --ARVRELLELVGLEGLLNRYPHEL--SGGQQQRVALARALAREPSLLLLDEPLSALDAK 164 Query: 182 -ALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 ++ + R + + +TH Q + D I V++ G+I++ G Sbjct: 165 LREELREELKELQRELGITTIYVTHDQEEALALA-DRIAVMNEGRIVQVG 213 >gnl|CDD|35281 KOG0058, KOG0058, KOG0058, Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]. Length = 716 Score = 86.5 bits (214), Expect = 6e-18 Identities = 69/241 (28%), Positives = 110/241 (45%), Gaps = 23/241 (9%) Query: 15 DTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSI 74 D +++ L+ + P EVVA++GP+GSGKST++ LL + Y+ T+G IL G I D + Sbjct: 480 DVPVLKNLSFTIRPGEVVALVGPSGSGKSTIASLL--LRFYDPTSGRILLDGVPISDINH 537 Query: 75 VERASKGIFLAFQYPVEIPGIIMMQFLKIALN-EQRKARNEKEL-----LIPDFTRKVRK 128 K I L Q PV G I N + ++ I +F Sbjct: 538 KYLRRK-IGLVGQEPVLFSGSIRENIAYGLDNATDEEIEAAAKMANAHEFITNFPDGYNT 596 Query: 129 ITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQ 188 + E G + SGG+K+ I + L P + ILDE S LD ++ + + Sbjct: 597 VVGEKGSQL-----------SGGQKQRIAIARALLRNPRVLILDEATSALDAESEYLVQE 645 Query: 189 GVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEENGYAELIK 248 ++ L Q R+ L+I H RL D I V+ G++++ G + L YA+L++ Sbjct: 646 ALDRLM-QGRTVLVIAH--RLSTVRHADQIVVIDKGRVVEMGTHDELLSKPNGLYAKLVQ 702 Query: 249 E 249 Sbjct: 703 R 703 >gnl|CDD|32455 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]. Length = 709 Score = 86.4 bits (214), Expect = 6e-18 Identities = 68/243 (27%), Positives = 106/243 (43%), Gaps = 13/243 (5%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 +E +N+ + D ++ L+L++ P E VAI+G +GSGKSTL LL G Y+ G Sbjct: 472 IEFENVSFRYGPDDPPVLEDLSLEIPPGEKVAIVGRSGSGKSTLLKLLLGL--YKPQQGR 529 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPD 121 IL G + D + + + Q P G I IAL ++E++ Sbjct: 530 ILLDGVDLNDID-LASLRRQVGYVLQDPFLFSGSI---RENIALGNP--EATDEEIIEAA 583 Query: 122 FTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDID 181 + L + D SGG+++ + + L +P + +LDE S LD + Sbjct: 584 QLAGAHEFIENLPMGYDTPVGEGGANLSGGQRQRLALARALLSKPKILLLDEATSALDPE 643 Query: 182 ALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEEN 241 I Q + + Q R+ +II H RL D I VL GKI++ G S L + Sbjct: 644 TEAIILQNLLQIL-QGRTVIIIAH--RLSTIRSADRIIVLDQGKIVEQG--SHEELLAQG 698 Query: 242 GYA 244 G Sbjct: 699 GLY 701 >gnl|CDD|73013 cd03254, ABCC_Glucan_exporter_like, Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). 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 = 229 Score = 85.6 bits (212), Expect = 1e-17 Identities = 66/220 (30%), Positives = 103/220 (46%), Gaps = 15/220 (6%) Query: 13 DTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDW 72 D +++ +N ++P E VAI+GP G+GK+TL LL Y+ G IL G I D Sbjct: 13 DEKKPVLKDINFSIKPGETVAIVGPTGAGKTTLINLLMRF--YDPQKGQILIDGIDIRDI 70 Query: 73 SIVERASKGIFLAFQYPVEIPGIIM--MQFLKIALNEQRKARNEKELLIPDFTRKVRKIT 130 S + I + Q G IM ++ + ++ KE DF K+ Sbjct: 71 SR-KSLRSMIGVVLQDTFLFSGTIMENIRLGRPNATDEEVIEAAKEAGAHDFIMKLPN-- 127 Query: 131 AELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGV 190 G + + + NL S GE+++ I + L +P + ILDE S +D + K+ + + Sbjct: 128 ---GYDTVLGENGGNL--SQGERQLLAIARAMLRDPKILILDEATSNIDTETEKLIQEAL 182 Query: 191 NALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 L + R+ +II H RL D I VL +GKII+ G Sbjct: 183 EKLM-KGRTSIIIAH--RLSTIKNADKILVLDDGKIIEEG 219 >gnl|CDD|31331 COG1136, SalX, ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]. Length = 226 Score = 84.4 bits (209), Expect = 2e-17 Identities = 65/233 (27%), Positives = 115/233 (49%), Gaps = 20/233 (8%) Query: 1 MLEIKNLRAKIV--DTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEIT 58 M+E+KN+ E ++ +NL++E E VAI+GP+GSGKSTL LL G + T Sbjct: 1 MIELKNVSKIYGLGGEKVEALKDVNLEIEAGEFVAIVGPSGSGKSTLLNLLGG--LDKPT 58 Query: 59 AGDILYKGESILDWSIVERAS---KGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEK 115 +G++L G+ + S E A K I FQ +P + +++ +++ L K+ + Sbjct: 59 SGEVLINGKDLTKLSEKELAKLRRKKIGFVFQNFNLLPDLTVLENVELPLLIAGKSAGRR 118 Query: 116 ELLIPDFTRKVRKITAELGINMDML-KRPLNLGFSGGEKKIAEILQMRLLEPSLCILDET 174 + R ++ LG+ +L K+P L SGG+++ I + + P + + DE Sbjct: 119 K-------RAAEELLEVLGLEDRLLKKKPSEL--SGGQQQRVAIARALINNPKIILADEP 169 Query: 175 DSGLDIDALKIAAQGVNAL-RSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKI 226 LD K + + L + + ++ +++TH L Y D + L +GKI Sbjct: 170 TGNLDSKTAKEVLELLRELNKERGKTIIMVTHDPELAKYA--DRVIELKDGKI 220 >gnl|CDD|31317 COG1120, FepC, ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]. Length = 258 Score = 84.1 bits (208), Expect = 3e-17 Identities = 62/236 (26%), Positives = 106/236 (44%), Gaps = 20/236 (8%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 MLE++NL I+ L+ + E+ I+GPNGSGKSTL L+G + +G Sbjct: 2 MLEVENLSFGY--GGKPILDDLSFSIPKGEITGILGPNGSGKSTLLKCLAGLL--KPKSG 57 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 ++L G+ I S E A K ++ Q P G+ + + + + R L Sbjct: 58 EVLLDGKDIASLSPKELAKKLAYVP-QSPSAPFGLTVYELVLL-------GRYPHLGLFG 109 Query: 121 DFTRKVRKITAELGINMDMLK---RPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSG 177 +++ +I E + + RP++ SGGE++ I + E + +LDE S Sbjct: 110 RPSKEDEEIVEEALELLGLEHLADRPVDEL-SGGERQRVLIARALAQETPILLLDEPTSH 168 Query: 178 LDIDALKIAAQGVNAL-RSQDRSFLIITHYQRL-LNYIKPDTIHVLHNGKIIKTGD 231 LDI + + L R + + +++ H L Y D + +L +GKI+ G Sbjct: 169 LDIAHQIEVLELLRDLNREKGLTVVMVLHDLNLAARY--ADHLILLKDGKIVAQGT 222 >gnl|CDD|73008 cd03249, ABC_MTABC3_MDL1_MDL2, MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.. Length = 238 Score = 84.0 bits (208), Expect = 3e-17 Identities = 70/239 (29%), Positives = 117/239 (48%), Gaps = 20/239 (8%) Query: 15 DTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSI 74 D I++GL+L + P + VA++G +G GKST+ LL + Y+ T+G+IL G I D ++ Sbjct: 15 DVPILKGLSLTIPPGKTVALVGSSGCGKSTVVSLL--ERFYDPTSGEILLDGVDIRDLNL 72 Query: 75 VERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNE---KELLIPDFTRKV-RKIT 130 S+ I L Q PV G I + ++ + E K+ I DF + Sbjct: 73 RWLRSQ-IGLVSQEPVLFDGTIA-ENIRYGKPDATDEEVEEAAKKANIHDFIMSLPDGYD 130 Query: 131 AELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGV 190 +G L SGG+K+ I + L P + +LDE S LD ++ K+ + + Sbjct: 131 TLVGERGSQL--------SGGQKQRIAIARALLRNPKILLLDEATSALDAESEKLVQEAL 182 Query: 191 NALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEENGYAELIKE 249 + + R+ ++I H RL D I VL NG++++ G + L ++ YA+L+K Sbjct: 183 DRAM-KGRTTIVIAH--RLSTIRNADLIAVLQNGQVVEQGTHD-ELMAQKGVYAKLVKA 237 >gnl|CDD|73014 cd03255, ABC_MJ0796_Lo1CDE_FtsE, This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.. Length = 218 Score = 83.6 bits (207), Expect = 4e-17 Identities = 59/231 (25%), Positives = 106/231 (45%), Gaps = 19/231 (8%) Query: 2 LEIKNLRA--KIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITA 59 +E+KNL + ++G++L +E E VAI+GP+GSGKSTL +L G T+ Sbjct: 1 IELKNLSKTYGGGGEKVQALKGVSLSIEKGEFVAIVGPSGSGKSTLLNILGGLDRP--TS 58 Query: 60 GDILYKGESILDWSIVERAS---KGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKE 116 G++ G I S E A+ + I FQ +P + ++ +++ L + E+ Sbjct: 59 GEVRVDGTDISKLSEKELAAFRRRHIGFVFQSFNLLPDLTALENVELPLLLAGVPKKERR 118 Query: 117 LLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDS 176 + ++ +G+ + P L SGG+++ I + +P + + DE Sbjct: 119 -------ERAEELLERVGLGDRLNHYPSEL--SGGQQQRVAIARALANDPKIILADEPTG 169 Query: 177 GLDIDALKIAAQGVNAL-RSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKI 226 LD + K + + L + + +++TH L Y D I L +GKI Sbjct: 170 NLDSETGKEVMELLRELNKEAGTTIVVVTHDPELAEYA--DRIIELRDGKI 218 >gnl|CDD|72987 cd03228, ABCC_MRP_Like, The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). 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 = 171 Score = 82.8 bits (205), Expect = 8e-17 Identities = 59/224 (26%), Positives = 96/224 (42%), Gaps = 53/224 (23%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 +E KN+ +++ ++L ++P E VAI+GP+GSGKSTL LL Y+ T+G+ Sbjct: 1 IEFKNVSFSYPGRPKPVLKDVSLTIKPGEKVAIVGPSGSGKSTLLKLLLRL--YDPTSGE 58 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPD 121 IL G + D + I Q P FL Sbjct: 59 ILIDGVDLRDLDLESLRKN-IAYVPQDP----------FL-------------------- 87 Query: 122 FTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDID 181 F+ +R+ N+ SGG+++ I + L +P + ILDE S LD + Sbjct: 88 FSGTIRE----------------NI-LSGGQRQRIAIARALLRDPPILILDEATSALDPE 130 Query: 182 ALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGK 225 + + + AL + ++ ++I H RL D I VL +G+ Sbjct: 131 TEALILEALRALA-KGKTVIVIAH--RLSTIRDADRIIVLDDGR 171 >gnl|CDD|72977 cd03218, ABC_YhbG, The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.. Length = 232 Score = 82.1 bits (203), Expect = 1e-16 Identities = 57/230 (24%), Positives = 108/230 (46%), Gaps = 14/230 (6%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 L +NL + +++ G++L V+ E+V ++GPNG+GK+T Y++ G + +G Sbjct: 1 LRAENLSKRY--GKRKVVNGVSLSVKQGEIVGLLGPNGAGKTTTFYMIVGL--VKPDSGK 56 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPD 121 IL G+ I + +RA GI Q + + + + L + ++ E+E Sbjct: 57 ILLDGQDITKLPMHKRARLGIGYLPQEASIFRKLTVEENILAVLEIRGLSKKERE----- 111 Query: 122 FTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDID 181 K+ ++ E I L++ SGGE++ EI + P +LDE +G+D Sbjct: 112 --EKLEELLEEFHI--THLRKSKASSLSGGERRRVEIARALATNPKFLLLDEPFAGVDPI 167 Query: 182 ALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGD 231 A++ + + L+ + LI H R I D ++++ GK++ G Sbjct: 168 AVQDIQKIIKILKDRGIGVLITDHNVRETLSIT-DRAYIIYEGKVLAEGT 216 >gnl|CDD|31323 COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]. Length = 240 Score = 82.1 bits (203), Expect = 1e-16 Identities = 65/234 (27%), Positives = 113/234 (48%), Gaps = 19/234 (8%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 M+EIKNL D E+++G++L VE EVV I+GP+GSGKSTL L+G + E +G Sbjct: 2 MIEIKNLSKSF--GDKEVLKGISLSVEKGEVVVIIGPSGSGKSTLLRCLNGLE--EPDSG 57 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 I GE + D + + + + + FQ P + +++ + +A + +K + Sbjct: 58 SITVDGEDVGDKKDILKLRRKVGMVFQQFNLFPHLTVLENVTLAPVKVKKLSKAEA---- 113 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKK---IAEILQMRLLEPSLCILDETDSG 177 K ++ ++G+ P L SGG+++ IA L M +P + + DE S Sbjct: 114 --REKALELLEKVGLADKADAYPAQL--SGGQQQRVAIARALAM---DPKVMLFDEPTSA 166 Query: 178 LDIDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGD 231 LD + + + L + + +I+TH + D + + GKII+ G Sbjct: 167 LDPELVGEVLDVMKDLAEEGMTMIIVTHEMGFAREVA-DRVIFMDQGKIIEEGP 219 >gnl|CDD|31321 COG1124, DppF, ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]. Length = 252 Score = 81.4 bits (201), Expect = 2e-16 Identities = 62/242 (25%), Positives = 116/242 (47%), Gaps = 32/242 (13%) Query: 1 MLEIKNLRAKIVD--TDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEIT 58 +L ++NL + ++L++E E + I+G +GSGKSTL+ LL+G + + Sbjct: 3 LLSVRNLSIVYGGGKFAFHALNNVSLEIERGETLGIVGESGSGKSTLARLLAGLEKP--S 60 Query: 59 AGDILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNE---- 114 +G IL G+ + + + + + FQ P +LN +R Sbjct: 61 SGSILLDGKPLAPKKRAKAFYRPVQMVFQDPYS------------SLNPRRTVGRILSEP 108 Query: 115 -KELLIPDFTRKVRKITAELGINMDMLKR-PLNLGFSGGEKKIAEILQMRLLEPSLCILD 172 + + +++ ++ ++G+ L R P L SGG+++ I + + EP L ILD Sbjct: 109 LRPHGLSKSQQRIAELLDQVGLPPSFLDRRPHEL--SGGQRQRIAIARALIPEPKLLILD 166 Query: 173 ETDSGLDIDALKIAAQGVNAL----RSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIK 228 E S LD+ + AQ +N L + + ++L I+H L+ ++ D I V+ NG+I++ Sbjct: 167 EPTSALDV---SVQAQILNLLLELKKERGLTYLFISHDLALVEHMC-DRIAVMDNGQIVE 222 Query: 229 TG 230 G Sbjct: 223 IG 224 >gnl|CDD|33633 COG3842, PotA, ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]. Length = 352 Score = 80.7 bits (199), Expect = 3e-16 Identities = 57/231 (24%), Positives = 111/231 (48%), Gaps = 17/231 (7%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 LEI+N+ D + ++L ++ E V ++GP+G GK+TL +++G + ++G Sbjct: 5 ALEIRNVSKSF--GDFTAVDDISLDIKKGEFVTLLGPSGCGKTTLLRMIAGF--EQPSSG 60 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 +IL GE I D +R I + FQ P + + + + L ++K + Sbjct: 61 EILLDGEDITDVPPEKR---PIGMVFQSYALFPHMTVEENVAFGLKVRKKLKKA------ 111 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDI 180 + +V + +G+ ++P L SGG+++ + + + EP + +LDE S LD Sbjct: 112 EIKARVEEALELVGLEGFADRKPHQL--SGGQQQRVALARALVPEPKVLLLDEPLSALDA 169 Query: 181 DALKIAAQGVNAL-RSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 + + + L R +F+ +TH Q + D I V+++G+I + G Sbjct: 170 KLREQMRKELKELQRELGITFVYVTHDQEEALAMS-DRIAVMNDGRIEQVG 219 >gnl|CDD|72983 cd03224, ABC_TM1139_LivF_branched, LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). 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.. Length = 222 Score = 80.5 bits (199), Expect = 4e-16 Identities = 57/230 (24%), Positives = 103/230 (44%), Gaps = 15/230 (6%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 LE++NL A ++I+ G++L V E+VA++G NG+GK+TL + G +G Sbjct: 1 LEVENLNAGY--GKSQILFGVSLTVPEGEIVALLGRNGAGKTTLLKTIMGL--LPPRSGS 56 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPD 121 I + G I ERA GI + P + + + L + +R+A+ + L Sbjct: 57 IRFDGRDITGLPPHERARAGIGYVPEGRRIFPELTVEENLLLGAYARRRAKRKARL---- 112 Query: 122 FTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDID 181 ++ + K+ SGGE+++ I + + P L +LDE GL Sbjct: 113 -----ERVYELFPRLKERRKQLAGT-LSGGEQQMLAIARALMSRPKLLLLDEPSEGLAPK 166 Query: 182 ALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGD 231 ++ + + LR + + L++ R I D +VL G+++ G Sbjct: 167 IVEEIFEAIRELRDEGVTILLVEQNARFALEIA-DRAYVLERGRVVLEGT 215 >gnl|CDD|72985 cd03226, ABC_cobalt_CbiO_domain2, Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.. Length = 205 Score = 80.3 bits (198), Expect = 4e-16 Identities = 55/212 (25%), Positives = 96/212 (45%), Gaps = 19/212 (8%) Query: 16 TEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIV 75 TEI+ L+L + E++A+ G NG+GK+TL+ +L+G + ++G IL G+ I Sbjct: 13 TEILDDLSLDLYAGEIIALTGKNGAGKTTLAKILAGL--IKESSGSILLNGKPIKAK--- 67 Query: 76 ERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGI 135 K I Q Q ++ E+ + + + + +L + Sbjct: 68 -ERRKSIGYVMQDVDY-------QLFTDSVREELLLGLK---ELDAGNEQAETVLKDLDL 116 Query: 136 NMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRS 195 + PL+L SGG+K+ I L L I DE SGLD ++ + + L + Sbjct: 117 YALKERHPLSL--SGGQKQRLAIAAALLSGKDLLIFDEPTSGLDYKNMERVGELIRELAA 174 Query: 196 QDRSFLIITHYQRLLNYIKPDTIHVLHNGKII 227 Q ++ ++ITH L + D + +L NG I+ Sbjct: 175 QGKAVIVITHDYEFLAKVC-DRVLLLANGAIV 205 >gnl|CDD|33636 COG3845, COG3845, ABC-type uncharacterized transport systems, ATPase components [General function prediction only]. Length = 501 Score = 79.8 bits (197), Expect = 6e-16 Identities = 52/214 (24%), Positives = 101/214 (47%), Gaps = 13/214 (6%) Query: 20 RGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVERAS 79 ++L V+ E+ A++G NG+GKSTL +L G Y+ +G+I G+ + S + Sbjct: 21 DDVSLSVKKGEIHALLGENGAGKSTLMKILFGL--YQPDSGEIRVDGKEVRIKSPRDAIR 78 Query: 80 KGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGINMDM 139 GI + Q+ + +P + + + + + E K + ++++++ G+ +D Sbjct: 79 LGIGMVHQHFMLVPTLTVAENIILG-LEPSKGGL---IDRRQARARIKELSERYGLPVDP 134 Query: 140 LKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQDRS 199 + +L S GE++ EIL+ L ILDE + L + + L ++ ++ Sbjct: 135 DAKVADL--SVGEQQRVEILKALYRGARLLILDEPTAVLTPQEADELFEILRRLAAEGKT 192 Query: 200 FLIITHYQRLLNYIK--PDTIHVLHNGKIIKTGD 231 + ITH L + D + VL GK++ T D Sbjct: 193 IIFITHK---LKEVMAIADRVTVLRRGKVVGTVD 223 Score = 55.9 bits (135), Expect = 1e-08 Identities = 55/243 (22%), Positives = 101/243 (41%), Gaps = 27/243 (11%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 LE+++L K ++ ++ +V E+V I G G+G+S L +SG + + +G Sbjct: 258 LEVEDLSVKD-RRGVTAVKDVSFEVRAGEIVGIAGVAGNGQSELVEAISGLR--KPASGR 314 Query: 62 ILYKGESIL-DWSIVERASKGIFLAFQYPVEIP------GIIMMQFL--KIALNEQRKAR 112 IL G+ +L S ER G+ +P G+++ L + L K Sbjct: 315 ILLNGKDVLGRLSPRERRRLGLAY-------VPEDRHGHGLVLDLSLAENLVLGRHDKKP 367 Query: 113 NEKELLIPDFTRKVRKITAELGINMDMLKRPLNL---GFSGGEKKIAEILQMRLLEPSLC 169 + + R +RK EL D+ + SGG ++ + + P L Sbjct: 368 FSRGGFLD--RRAIRKFARELIEEFDVRAPSPDAPARSLSGGNQQKLILARELARRPDLL 425 Query: 170 ILDETDSGLDIDALKIAAQGVNALRSQDRSFLII-THYQRLLNYIKPDTIHVLHNGKIIK 228 I + GLD+ A++ + + LR ++ L+I +L D I V++ G+I+ Sbjct: 426 IAAQPTRGLDVGAIEFIHERLLELRDAGKAVLLISEDLDEILE--LSDRIAVIYEGRIVG 483 Query: 229 TGD 231 Sbjct: 484 IVP 486 >gnl|CDD|73004 cd03245, ABCC_bacteriocin_exporters, ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.. Length = 220 Score = 78.7 bits (194), Expect = 1e-15 Identities = 59/231 (25%), Positives = 111/231 (48%), Gaps = 15/231 (6%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 +E +N+ + + + ++L + E VAI+G GSGKSTL LL+G Y+ T+G Sbjct: 3 IEFRNVSFSYPNQEIPALDNVSLTIRAGEKVAIIGRVGSGKSTLLKLLAGL--YKPTSGS 60 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIM--MQFLKIALNEQRKARNEKELLI 119 +L G I + + I Q G + + +++R R + + Sbjct: 61 VLLDGTDIRQLDPADL-RRNIGYVPQDVTLFYGTLRDNITLGAPLADDERILRAAELAGV 119 Query: 120 PDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLD 179 DF K G+++ + +R L SGG+++ + + L +P + +LDE S +D Sbjct: 120 TDFVNKHPN-----GLDLQIGERGRGL--SGGQRQAVALARALLNDPPILLLDEPTSAMD 172 Query: 180 IDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 +++ + + + L D++ +IITH LL+ + D I V+ +G+I+ G Sbjct: 173 MNSEERLKERLRQLLG-DKTLIIITHRPSLLDLV--DRIIVMDSGRIVADG 220 >gnl|CDD|72972 cd03213, ABCG_EPDR, ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR). DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.. Length = 194 Score = 78.7 bits (194), Expect = 1e-15 Identities = 53/229 (23%), Positives = 89/229 (38%), Gaps = 48/229 (20%) Query: 5 KNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILY 64 +++ + ++++ ++ K +P E+ AIMGP+G+GKSTL L+G + +G++L Sbjct: 11 VTVKSSPSKSGKQLLKNVSGKAKPGELTAIMGPSGAGKSTLLNALAGRRTGLGVSGEVLI 70 Query: 65 KGESILDWSIVERASKGIFLAFQYPVEIPGII--MMQFLKIALNEQRKARNEKELLIPDF 122 G + II + Q ++L P Sbjct: 71 NGRPL------------------DKRSFRKIIGYVPQ---------------DDILHPTL 97 Query: 123 T-RKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDID 181 T R+ A+L G SGGE+K I + PSL LDE SGLD Sbjct: 98 TVRETLMFAAKLR------------GLSGGERKRVSIALELVSNPSLLFLDEPTSGLDSS 145 Query: 182 ALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 + + L R+ + H + D + +L G++I G Sbjct: 146 SALQVMSLLRRLADTGRTIICSIHQPSSEIFELFDKLLLLSQGRVIYFG 194 >gnl|CDD|34592 COG4987, CydC, ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]. Length = 573 Score = 78.8 bits (194), Expect = 1e-15 Identities = 67/255 (26%), Positives = 107/255 (41%), Gaps = 39/255 (15%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 LE++N+ T+ ++ NL + E VAI+G +GSGKSTL LL+G ++ G Sbjct: 337 LELRNVSFTYPGQQTKALKNFNLTLAQGEKVAILGRSGSGKSTLLQLLAG--AWDPQQGS 394 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPD 121 I G I + + + + R+ L PD Sbjct: 395 ITLNGVEIASLD-----EQALRETISVLTQRVHLF-----------SGTLRDNLRLANPD 438 Query: 122 FT-RKVRKITAELGINMDMLKRPLNL---------GFSGGEKKIAEILQMRLLEPSLCIL 171 + ++ ++G+ + P L SGGE++ + + L + L +L Sbjct: 439 ASDEELWAALQQVGLEKLLESAPDGLNTWLGEGGRRLSGGERRRLALARALLHDAPLWLL 498 Query: 172 DETDSGLDIDALKIAAQGVNAL---RSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIK 228 DE GLD I + V AL ++ ++ L++TH RL + D I VL NGKII+ Sbjct: 499 DEPTEGLD----PITERQVLALLFEHAEGKTLLMVTH--RLRGLERMDRIIVLDNGKIIE 552 Query: 229 TGDYSIALDLEENGY 243 G + A L NG Sbjct: 553 EGTH--AELLANNGR 565 >gnl|CDD|73019 cd03260, ABC_PstB_phosphate_transporter, Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).. Length = 227 Score = 77.9 bits (192), Expect = 2e-15 Identities = 60/244 (24%), Positives = 108/244 (44%), Gaps = 35/244 (14%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKD---YEIT 58 +E+++L + D ++ ++L + E+ A++GP+G GKSTL LL+ D Sbjct: 1 IELRDLN--VYYGDKHALKDISLDIPKGEITALIGPSGCGKSTLLRLLNRLNDLIPGAPD 58 Query: 59 AGDILYKGESILDWSI-VERASKGIFLAFQYPVEIPGIIM------MQFLKIALNEQRKA 111 G++L G+ I D + V + + + FQ P PG I ++ I L E+ Sbjct: 59 EGEVLLDGKDIYDLDVDVLELRRRVGMVFQKPNPFPGSIYDNVAYGLRLHGIKLKEELDE 118 Query: 112 RNEKELLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCIL 171 R E+ L +V R LG SGG+++ + + EP + +L Sbjct: 119 RVEEALRKAALWDEV-------------KDRLHALGLSGGQQQRLCLARALANEPEVLLL 165 Query: 172 DETDSGLDIDALKIAAQGVNALRSQDRSFLIITH----YQRLLNYIKPDTIHVLHNGKII 227 DE S LD + + + L+ ++ + +I+TH R+ D L NG+++ Sbjct: 166 DEPTSALDPISTAKIEELIAELK-KEYTIVIVTHNMQQAARV-----ADRTAFLLNGRLV 219 Query: 228 KTGD 231 + G Sbjct: 220 EFGP 223 >gnl|CDD|73010 cd03251, ABCC_MsbA, MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. 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 = 234 Score = 77.5 bits (191), Expect = 3e-15 Identities = 62/241 (25%), Positives = 112/241 (46%), Gaps = 17/241 (7%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 +E KN+ + ++R ++L + E VA++GP+GSGKSTL L+ + Y++ +G Sbjct: 1 VEFKNVTFRYPGDGPPVLRDISLDIPAGETVALVGPSGSGKSTLVNLIP--RFYDVDSGR 58 Query: 62 ILYKGESILDWSIVE-RASKGIFL--AFQYPVEIPGIIMMQFLKIALNEQRKARNEKELL 118 IL G + D+++ R G+ F + + I E +A Sbjct: 59 ILIDGHDVRDYTLASLRRQIGLVSQDVFLFNDTVAENIAYGRPGATREEVEEAARAANAH 118 Query: 119 IPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGL 178 +F ++ G + + +R + L SGG+++ I + L +P + ILDE S L Sbjct: 119 --EFIMEL-----PEGYDTVIGERGVKL--SGGQRQRIAIARALLKDPPILILDEATSAL 169 Query: 179 DIDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDL 238 D ++ ++ + L ++R+ +I H RL D I VL +GKI++ G + L Sbjct: 170 DTESERLVQAALERL-MKNRTTFVIAH--RLSTIENADRIVVLEDGKIVERGTHEELLAQ 226 Query: 239 E 239 Sbjct: 227 G 227 >gnl|CDD|31318 COG1121, ZnuC, ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]. Length = 254 Score = 77.2 bits (190), Expect = 4e-15 Identities = 57/245 (23%), Positives = 108/245 (44%), Gaps = 23/245 (9%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSG-HKDYEITA 59 M+E++NL + ++ ++L VE E+ A++GPNG+GKSTL + G K Sbjct: 4 MIEVENLTVSY--GNRPVLEDISLSVEKGEITALIGPNGAGKSTLLKAILGLLKPSS--- 58 Query: 60 GDILYKGESILDWSIVERAS---KGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKE 116 G+I G+ + R + + +P+ + ++++ +R + +KE Sbjct: 59 GEIKIFGKPVRKRRKRLRIGYVPQKSSVDRSFPITVKDVVLLGRYGKKGWFRRLNKKDKE 118 Query: 117 LLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDS 176 KV + +G+ D+ R + SGG+K+ + + P L +LDE + Sbjct: 119 --------KVDEALERVGM-EDLRDRQIG-ELSGGQKQRVLLARALAQNPDLLLLDEPFT 168 Query: 177 GLDIDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLH-NGKIIKTGDYSIA 235 G+D+ K + LR + ++ L++TH L + V+ N +I +G Sbjct: 169 GVDVAGQKEIYDLLKELRQEGKTVLMVTHD---LGLVMAYFDRVICLNRHLIASGPPEEV 225 Query: 236 LDLEE 240 L E Sbjct: 226 LTEEN 230 >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 = 77.0 bits (190), Expect = 5e-15 Identities = 49/225 (21%), Positives = 91/225 (40%), Gaps = 52/225 (23%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 +E++NL + + ++L VE E+ ++GPNG+GK+TL ++ G + +G+ Sbjct: 1 IEVRNLSKRY--GKKTALDDISLTVEKGEIYGLLGPNGAGKTTLIKIILG--LLKPDSGE 56 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPD 121 I G+ I E + I + P + + + LK Sbjct: 57 IKVLGKDI--KKEPEEVKRRIGYLPEEPSLYENLTVRENLK------------------- 95 Query: 122 FTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDID 181 SGG K+ + Q L +P L ILDE SGLD + Sbjct: 96 --------------------------LSGGMKQRLALAQALLHDPELLILDEPTSGLDPE 129 Query: 182 ALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKI 226 + + + + L+ + ++ L+ +H + D + +L+NG+I Sbjct: 130 SRREFWELLRELKKEGKTILLSSHILEEAERLC-DRVAILNNGRI 173 >gnl|CDD|73012 cd03253, ABCC_ATM1_transporter, ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. 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 = 236 Score = 76.4 bits (188), Expect = 7e-15 Identities = 63/239 (26%), Positives = 114/239 (47%), Gaps = 16/239 (6%) Query: 13 DTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDW 72 D +++ ++ + + VAI+GP+GSGKST+ LL + Y++++G IL G+ I + Sbjct: 11 DPGRPVLKDVSFTIPAGKKVAIVGPSGSGKSTILRLL--FRFYDVSSGSILIDGQDIREV 68 Query: 73 SIVERASKGIFLAFQYPVEIPGIIM--MQFLKIALNEQRKARNEKELLIPDFTRKVRKIT 130 ++ + + I + Q V I +++ + ++ K I D + Sbjct: 69 TL-DSLRRAIGVVPQDTVLFNDTIGYNIRYGRPDATDEEVIEAAKAAQIHDKIMRFPD-- 125 Query: 131 AELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGV 190 G + + +R L L SGGEK+ I + L P + +LDE S LD + + Sbjct: 126 ---GYDTIVGERGLKL--SGGEKQRVAIARAILKNPPILLLDEATSALDTHTEREIQAAL 180 Query: 191 NALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEENGYAELIKE 249 + S+ R+ ++I H RL + D I VL +G+I++ G + L + YAE+ K Sbjct: 181 RDV-SKGRTTIVIAH--RLSTIVNADKIIVLKDGRIVERGTHE-ELLAKGGLYAEMWKA 235 >gnl|CDD|31332 COG1137, YhbG, ABC-type (unclassified) transport system, ATPase component [General function prediction only]. Length = 243 Score = 76.4 bits (188), Expect = 7e-15 Identities = 55/232 (23%), Positives = 99/232 (42%), Gaps = 14/232 (6%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 L +NL +++ ++L+V E+V ++GPNG+GK+T Y++ G +G Sbjct: 4 TLVAENLAKSY--KKRKVVNDVSLEVNSGEIVGLLGPNGAGKTTTFYMIVGL--VRPDSG 59 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 IL E I + +RA GI Q + + + L + K + E Sbjct: 60 KILLDDEDITKLPMHKRARLGIGYLPQEASIFRKLTVEDNIMAVLEIREKDLKKAER--- 116 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDI 180 ++ + E I L+ SGGE++ EI + P +LDE +G+D Sbjct: 117 --KEELDALLEEFHIT--HLRDSKAYSLSGGERRRVEIARALAANPKFILLDEPFAGVDP 172 Query: 181 DALKIAAQGVNALRSQDRSFLIITHYQR-LLNYIKPDTIHVLHNGKIIKTGD 231 A+ + + L+ + LI H R L+ D +++ +GK++ G Sbjct: 173 IAVIDIQRIIKHLKDRGIGVLITDHNVRETLDIC--DRAYIISDGKVLAEGS 222 >gnl|CDD|73022 cd03263, ABC_subfamily_A, The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.. Length = 220 Score = 75.9 bits (187), Expect = 1e-14 Identities = 54/229 (23%), Positives = 99/229 (43%), Gaps = 15/229 (6%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 L+I+NL + L+L V E+ ++G NG+GK+T +L+G + T+G Sbjct: 1 LQIRNLTKTYKKGTKPAVDDLSLNVYKGEIFGLLGHNGAGKTTTLKMLTG--ELRPTSGT 58 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPD 121 G SI + + A + + Q+ + + + L+ + ++E + + Sbjct: 59 AYINGYSIR--TDRKAARQSLGYCPQFDALFDELTVREHLRFYARLKGLPKSEIKEEVEL 116 Query: 122 FTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDID 181 R LG+ KR L SGG K+ + + PS+ +LDE SGLD Sbjct: 117 LLRV-------LGLTDKANKRARTL--SGGMKRKLSLAIALIGGPSVLLLDEPTSGLDPA 167 Query: 182 ALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 + + + +R + RS ++ TH + D I ++ +GK+ G Sbjct: 168 SRRAIWDLILEVR-KGRSIILTTHSMDEAEALC-DRIAIMSDGKLRCIG 214 >gnl|CDD|73060 cd03301, ABC_MalK_N, The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.. Length = 213 Score = 74.8 bits (184), Expect = 2e-14 Identities = 54/221 (24%), Positives = 102/221 (46%), Gaps = 24/221 (10%) Query: 15 DTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSI 74 + + LNL + E V ++GP+G GK+T +++G E T+G I G + D Sbjct: 12 NVTALDDLNLDIADGEFVVLLGPSGCGKTTTLRMIAGL--EEPTSGRIYIGGRDVTDLPP 69 Query: 75 VERASKGIFLAFQ----YPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKIT 130 +R I + FQ YP M + IA + + + E+ +VR++ Sbjct: 70 KDR---DIAMVFQNYALYPH------MTVYDNIAFGLKLRKVPKDEI-----DERVREVA 115 Query: 131 AELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDA-LKIAAQG 189 L I + ++P L SGG+++ + + + EP + ++DE S LD +++ A+ Sbjct: 116 ELLQIEHLLDRKPKQL--SGGQRQRVALGRAIVREPKVFLMDEPLSNLDAKLRVQMRAEL 173 Query: 190 VNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 + + + +TH Q + D I V+++G+I + G Sbjct: 174 KRLQQRLGTTTIYVTHDQVEAMTMA-DRIAVMNDGQIQQIG 213 >gnl|CDD|31313 COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]. Length = 248 Score = 74.8 bits (184), Expect = 2e-14 Identities = 62/254 (24%), Positives = 110/254 (43%), Gaps = 25/254 (9%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 +LEI+ + E++ +NL VE E VAI+GP+G GKSTL L++G + T+G Sbjct: 3 LLEIEGVS--KSFGGVEVLEDINLSVEKGEFVAILGPSGCGKSTLLRLIAGLEKP--TSG 58 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 ++L G V I FQ +P + ++ + + L + K++ E Sbjct: 59 EVLLDGR------PVTGPGPDIGYVFQEDALLPWLTVLDNVALGLELRGKSKAEAR---- 108 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLD- 179 + +++ +G+ K P L SGG ++ I + P L +LDE LD Sbjct: 109 ---ERAKELLELVGLAGFEDKYPHQL--SGGMRQRVAIARALATRPKLLLLDEPFGALDA 163 Query: 180 IDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIAL--- 236 + ++ + + ++ L++TH Y+ D + VL N + I L Sbjct: 164 LTREELQDELLRLWEETRKTVLLVTHDVDEAVYLA-DRVVVLSNRPGRIGEELEIDLPRP 222 Query: 237 -DLEENGYAELIKE 249 + + EL +E Sbjct: 223 RIRGDPEFLELREE 236 >gnl|CDD|30834 COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]. Length = 530 Score = 74.5 bits (183), Expect = 3e-14 Identities = 51/252 (20%), Positives = 110/252 (43%), Gaps = 23/252 (9%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 M+ ++NL D ++ ++L + P E + ++G NG+GKSTL +L+G + E +G Sbjct: 3 MITLENLSLAY--GDRPLLENVSLTLNPGERIGLVGRNGAGKSTLLKILAG--ELEPDSG 58 Query: 61 DI-LYKGESI----------LDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQR 109 ++ KG + + ++++ +G + E+ + Sbjct: 59 EVTRPKGLRVGYLSQEPPLDPEKTVLDYVIEGFGELRELLAELEEAYALLADPDDELLAE 118 Query: 110 KARNEKELLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLC 169 +EL + + LG RP++ SGG ++ + + L EP L Sbjct: 119 LEALLEELDGWTLEARAEEALLGLGF--PDEDRPVS-SLSGGWRRRVALARALLEEPDLL 175 Query: 170 ILDETDSGLDIDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIK- 228 +LDE + LD+++++ + L+ + ++++H + L+ + + L GK+ Sbjct: 176 LLDEPTNHLDLESIEWLE---DYLKRYPGTVIVVSHDRYFLDNVATHILE-LDRGKLTPY 231 Query: 229 TGDYSIALDLEE 240 G+YS L+ + Sbjct: 232 KGNYSSYLEQKA 243 Score = 67.6 bits (165), Expect = 3e-12 Identities = 49/241 (20%), Positives = 103/241 (42%), Gaps = 32/241 (13%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 +LE +N+ D +++ L+ +++ + +AI+GPNG+GKSTL LL+G + +G Sbjct: 321 VLEFENVSKGY-DGGRLLLKDLSFRIDRGDRIAIVGPNGAGKSTLLKLLAG--ELGPLSG 377 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 + + + + + + Q ++ E Sbjct: 378 TV--------------KVGETVKIGY----------FDQHRDELDPDKTVLEELSEGFPD 413 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDI 180 ++VR G + ++P+ SGGEK + ++ L P+L +LDE + LDI Sbjct: 414 GDEQEVRAYLGRFGFTGEDQEKPVG-VLSGGEKARLLLAKLLLQPPNLLLLDEPTNHLDI 472 Query: 181 DALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEE 240 ++L+ AL + + L+++H + L+ + ++ + G Y L+ ++ Sbjct: 473 ESLEALE---EALLDFEGTVLLVSHDRYFLDRVATRIW-LVEDKVEEFEGGYEDYLEQKK 528 Query: 241 N 241 Sbjct: 529 E 529 >gnl|CDD|35279 KOG0056, KOG0056, KOG0056, Heavy metal exporter HMT1, ABC superfamily [Inorganic ion transport and metabolism]. Length = 790 Score = 73.9 bits (181), Expect = 4e-14 Identities = 66/239 (27%), Positives = 116/239 (48%), Gaps = 21/239 (8%) Query: 13 DTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDW 72 D ++ ++ V+P + VA++GP+G+GKST+ LL + +++ +G I G+ I Sbjct: 548 DPGKPVLSDISFTVQPGKTVALVGPSGAGKSTIMRLL--FRFFDVNSGSITIDGQDI--- 602 Query: 73 SIVERAS--KGIFLAFQYPVEIPGIIM--MQFLKIALNEQRKARNEKELLIPDFTRKVRK 128 V ++S I + Q V I+ +++ K + + + K I D + Sbjct: 603 RNVTQSSLRSSIGVVPQDTVLFNDTILYNIRYAKPSASNEEVYAAAKAAQIHD------R 656 Query: 129 ITA-ELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAA 187 I G N + +R L L SGGEK+ I + L PS+ +LDE S LD + + A Sbjct: 657 ILQFPEGYNTRVGERGLKL--SGGEKQRVAIARTILKAPSIILLDEATSALDTNTER-AI 713 Query: 188 QGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEENGYAEL 246 Q A +R+ +++ H RL + D I V+ NG+I++ G + L + YA++ Sbjct: 714 QAALARLCANRTTIVVAH--RLSTIVNADLILVISNGRIVERGRHEELLKRDGGAYADM 770 >gnl|CDD|73020 cd03261, ABC_Org_Solvent_Resistant, ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; 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 = 235 Score = 73.6 bits (181), Expect = 5e-14 Identities = 61/219 (27%), Positives = 103/219 (47%), Gaps = 14/219 (6%) Query: 15 DTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSI 74 +++G++L V E++AI+GP+GSGKSTL L+ G +G++L GE I S Sbjct: 12 GRTVLKGVDLDVRRGEILAIIGPSGSGKSTLLRLIVGL--LRPDSGEVLIDGEDISGLSE 69 Query: 75 VE--RASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAE 132 E R + + + FQ + + + + L E + +E+E+ V + Sbjct: 70 AELYRLRRRMGMLFQSGALFDSLTVFENVAFPLREHTR-LSEEEI-----REIVLEKLEA 123 Query: 133 LGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLD-IDALKIAAQGVN 191 +G+ P L SGG KK + + L+P L + DE +GLD I + I + Sbjct: 124 VGLRGAEDLYPAEL--SGGMKKRVALARALALDPELLLYDEPTAGLDPIASGVIDDLIRS 181 Query: 192 ALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 + + +++TH I D I VL++GKI+ G Sbjct: 182 LKKELGLTSIMVTHDLDTAFAI-ADRIAVLYDGKIVAEG 219 >gnl|CDD|35284 KOG0061, KOG0061, KOG0061, Transporter, ABC superfamily (Breast cancer resistance protein) [Secondary metabolites biosynthesis, transport and catabolism]. Length = 613 Score = 72.3 bits (177), Expect = 1e-13 Identities = 64/238 (26%), Positives = 109/238 (45%), Gaps = 25/238 (10%) Query: 17 EIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVE 76 I++G++ +P E++AIMGP+GSGK+TL L+G G + GE +L+ + Sbjct: 44 TILKGVSGTAKPGELLAIMGPSGSGKTTLLNALAG-----RLNGGLKLSGEILLNGRPRD 98 Query: 77 RASKGIFLAF--QYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELG 134 S + Q V +P + + + L+ + R L + +V ++ +ELG Sbjct: 99 SRSFRKISGYVQQDDVLLPTLTVRETLRFSA----LLRLPSSLSKEEKRERVEEVISELG 154 Query: 135 INM---DMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVN 191 + ++ P G SGGE+K I L +PS+ LDE SGLD A Q V Sbjct: 155 LEKCADTLIGNPGIRGLSGGERKRVSIALELLTDPSILFLDEPTSGLDS---FSALQVVQ 211 Query: 192 ALR--SQDRSFLIITHYQ---RLLNYIKPDTIHVLHNGKIIKTGDYSIALD-LEENGY 243 L+ ++ +I T +Q L D + +L G+++ +G L+ G+ Sbjct: 212 LLKRLARSGRTVICTIHQPSSELFELF--DKLLLLSEGEVVYSGSPRELLEFFSSLGF 267 >gnl|CDD|34201 COG4559, COG4559, ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]. Length = 259 Score = 72.2 bits (177), Expect = 1e-13 Identities = 61/242 (25%), Positives = 103/242 (42%), Gaps = 31/242 (12%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 M+ +NL + ++ G++L + P EV+AI+GPNG+GKSTL LSG + +G Sbjct: 1 MIRAENLSYSL--AGRRLLDGVSLDLRPGEVLAILGPNGAGKSTLLKALSG--ELSPDSG 56 Query: 61 DILYKGESILDWSIVERASK-GIF-----LAFQYPVEIPGIIMMQFLKIALNEQRKARNE 114 ++ G + W E A + LAF + V+ ++Q +I R+ + Sbjct: 57 EVTLNGVPLNSWPPEELARHRAVLPQNSSLAFPFTVQ----EVVQMGRIPHRSGREPEED 112 Query: 115 KELLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKK---IAEIL-QMR--LLEPSL 168 + + + A + L SGGE++ +A +L Q+ + Sbjct: 113 ERI--------AAQALAATDL--SGLAGRDYRTLSGGEQQRVQLARVLAQLWPPVPSGRW 162 Query: 169 CILDETDSGLDIDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIK 228 LDE S LDI + L + + L + H L D I +LH G++I Sbjct: 163 LFLDEPTSALDIAHQHHTLRLARQLAREGGAVLAVLHDLNLAAQYA-DRIVLLHQGRVIA 221 Query: 229 TG 230 +G Sbjct: 222 SG 223 >gnl|CDD|73052 cd03293, ABC_NrtD_SsuB_transporters, NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. 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 = 220 Score = 72.4 bits (178), Expect = 1e-13 Identities = 43/194 (22%), Positives = 87/194 (44%), Gaps = 18/194 (9%) Query: 13 DTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDW 72 + ++L VE E VA++GP+G GKSTL +++G T+G++L GE + Sbjct: 14 GGAVTALEDISLSVEEGEFVALVGPSGCGKSTLLRIIAGL--ERPTSGEVLVDGEPV--- 68 Query: 73 SIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAE 132 FQ +P + ++ + + L Q + E + ++ Sbjct: 69 ---TGPGPDRGYVFQQDALLPWLTVLDNVALGLELQGVPKAEAR-------ERAEELLEL 118 Query: 133 LGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLD-IDALKIAAQGVN 191 +G++ P L SGG ++ + + ++P + +LDE S LD + ++ + ++ Sbjct: 119 VGLSGFENAYPHQL--SGGMRQRVALARALAVDPDVLLLDEPFSALDALTREQLQEELLD 176 Query: 192 ALRSQDRSFLIITH 205 R ++ L++TH Sbjct: 177 IWRETGKTVLLVTH 190 >gnl|CDD|31327 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]. Length = 567 Score = 71.6 bits (175), Expect = 2e-13 Identities = 72/250 (28%), Positives = 116/250 (46%), Gaps = 17/250 (6%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 +E +N+ +++ ++ +EP E VAI+GP+GSGKSTL LL Y+ T+G+ Sbjct: 329 IEFENVSFSY-PGKKPVLKDISFSIEPGEKVAIVGPSGSGKSTLIKLLLRL--YDPTSGE 385 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIM--MQFLKIALNEQRKARNEKELLI 119 IL G I D S+ + I + Q P+ G I + + ++ K Sbjct: 386 ILIDGIDIRDISLDSLRKR-IGIVSQDPLLFSGTIRENIALGRPDATDEEIEEALKLANA 444 Query: 120 PDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLD 179 +F + G + + +R +NL SGG+++ I + L P + ILDE S LD Sbjct: 445 HEFIANL-----PDGYDTIVGERGVNL--SGGQRQRLAIARALLRNPPILILDEATSALD 497 Query: 180 IDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLE 239 + + + L + R+ LII H RL D I VL NG+I++ G + L + Sbjct: 498 TETEALIQDALKKLL-KGRTTLIIAH--RLSTIKNADRIIVLDNGRIVERGTHE-ELLAK 553 Query: 240 ENGYAELIKE 249 YA L + Sbjct: 554 GGLYARLYQA 563 >gnl|CDD|72994 cd03235, ABC_Metallic_Cations, ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.. Length = 213 Score = 71.7 bits (176), Expect = 2e-13 Identities = 44/204 (21%), Positives = 99/204 (48%), Gaps = 15/204 (7%) Query: 3 EIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDI 62 E+++L ++ ++ +V+P E +AI+GPNG+GKSTL + G + T+G I Sbjct: 1 EVEDLTVSY--GGHPVLEDVSFEVKPGEFLAIVGPNGAGKSTLLKAILG--LLKPTSGSI 56 Query: 63 LYKGESI-LDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPD 121 G+ + + + + + +P+ + +++M +R ++ +K Sbjct: 57 RVFGKPLEKERKRIGYVPQRRSIDRDFPISVRDVVLMGLYGHKGLFRRLSKADK------ 110 Query: 122 FTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDID 181 KV + +G++ ++ R + SGG+++ + + + +P L +LDE +G+D Sbjct: 111 --AKVDEALERVGLS-ELADRQIGE-LSGGQQQRVLLARALVQDPDLLLLDEPFAGVDPK 166 Query: 182 ALKIAAQGVNALRSQDRSFLIITH 205 + + + LR + + L++TH Sbjct: 167 TQEDIYELLRELRREGMTILVVTH 190 >gnl|CDD|72973 cd03214, ABC_Iron-Siderophores_B12_Hemin, ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.. Length = 180 Score = 70.8 bits (174), Expect = 3e-13 Identities = 59/234 (25%), Positives = 99/234 (42%), Gaps = 60/234 (25%) Query: 3 EIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDI 62 E++NL ++ L+L +E E+V I+GPNG+GKSTL L+G + ++G+I Sbjct: 1 EVENLSVGY--GGRTVLDDLSLSIEAGEIVGILGPNGAGKSTLLKTLAGL--LKPSSGEI 56 Query: 63 LYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDF 122 L G+ + S E A KIA Sbjct: 57 LLDGKDLASLSPKELAR----------------------KIAY----------------- 77 Query: 123 TRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDI-- 180 V + LG+ + RP N SGGE++ + + EP + +LDE S LDI Sbjct: 78 ---VPQALELLGLA-HLADRPFN-ELSGGERQRVLLARALAQEPPILLLDEPTSHLDIAH 132 Query: 181 --DALKIAAQGVNALRSQDRSFLIITHYQRLLN--YIKPDTIHVLHNGKIIKTG 230 + L++ + R + ++ +++ H LN D + +L +G+I+ G Sbjct: 133 QIELLELLRRLA---RERGKTVVMVLHD---LNLAARYADRVILLKDGRIVAQG 180 >gnl|CDD|31315 COG1118, CysA, ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]. Length = 345 Score = 70.8 bits (173), Expect = 3e-13 Identities = 50/214 (23%), Positives = 100/214 (46%), Gaps = 13/214 (6%) Query: 20 RGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVERAS 79 ++L ++ E+VA++GP+G+GKSTL +++G + AG I G + D S + Sbjct: 19 DDISLDIKSGELVALLGPSGAGKSTLLRIIAGLE--TPDAGRIRLNGRVLFDVSNLAVRD 76 Query: 80 KGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGINMDM 139 + + FQ+ P + + + L +++ +E E+ +V ++ + + + Sbjct: 77 RKVGFVFQHYALFPHMTVADNIAFGLKVRKERPSEAEI-----RARVEELLRLVQLE-GL 130 Query: 140 LKR-PLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQ-D 197 R P L SGG+++ + + +EP + +LDE LD K + + L + Sbjct: 131 ADRYPAQL--SGGQRQRVALARALAVEPKVLLLDEPFGALDAKVRKELRRWLRKLHDRLG 188 Query: 198 RSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGD 231 + + +TH Q D + VL+ G+I + G Sbjct: 189 VTTVFVTHDQEEA-LELADRVVVLNQGRIEQVGP 221 >gnl|CDD|34862 COG5265, ATM1, ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]. Length = 497 Score = 70.3 bits (172), Expect = 5e-13 Identities = 66/236 (27%), Positives = 109/236 (46%), Gaps = 16/236 (6%) Query: 13 DTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDW 72 D I+ G++ + + VAI+G +G+GKST+ LL + Y++ +G I G+ I D Sbjct: 273 DPRRPILNGISFTIPLGKTVAIVGESGAGKSTILRLL--FRFYDVNSGSITIDGQDIRDV 330 Query: 73 SIVERASKGIFLAFQYPVEIPGIIM--MQFLKIALNEQRKARNEKELLIPDFTRKVRKIT 130 + + + I + Q V I +++ + + + I DF + + + Sbjct: 331 TQ-QSLRRAIGIVPQDTVLFNDTIAYNIKYGRPDATAEEVGAAAEAAQIHDFIQSLPE-- 387 Query: 131 AELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGV 190 G + + +R L L SGGEK+ I + L P + ILDE S LD + + Sbjct: 388 ---GYDTGVGERGLKL--SGGEKQRVAIARTILKNPPILILDEATSALDTHTEQAIQAAL 442 Query: 191 NALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEENGYAEL 246 + S R+ L+I H RL I D I VL NG+I++ G + L YAE+ Sbjct: 443 REV-SAGRTTLVIAH--RLSTIIDADEIIVLDNGRIVERGTHEELLA-AGGLYAEM 494 >gnl|CDD|34242 COG4619, COG4619, ABC-type uncharacterized transport system, ATPase component [General function prediction only]. Length = 223 Score = 69.6 bits (170), Expect = 8e-13 Identities = 54/208 (25%), Positives = 88/208 (42%), Gaps = 21/208 (10%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 +LE+K + D +I+ ++L V E +AI GP+G GKSTL +++ T+G Sbjct: 3 LLELKQVGYL--AGDAKILNNISLSVRAGEFIAITGPSGCGKSTLLKIVASL--ISPTSG 58 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIM--MQFLKIALNEQRKARNEKELL 118 +L++GE + + + A Q P + + F N +R R L Sbjct: 59 TLLFEGEDVSTLKPEAYRQQVSYCA-QTPALFGDTVEDNLIFPWQIRN-RRPDRAAALDL 116 Query: 119 IPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGL 178 + F +T K L SGGEK+ +++ P + +LDE S L Sbjct: 117 LARFALPDSILT----------KNITEL--SGGEKQRIALIRNLQFMPKILLLDEITSAL 164 Query: 179 DI-DALKIAAQGVNALRSQDRSFLIITH 205 D + I +R Q+ + L ITH Sbjct: 165 DESNKRNIEEMIHRYVREQNVAVLWITH 192 >gnl|CDD|30759 COG0410, LivF, ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]. Length = 237 Score = 69.3 bits (170), Expect = 8e-13 Identities = 50/178 (28%), Positives = 85/178 (47%), Gaps = 13/178 (7%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 MLE++NL A + +RG++L+VE E+VA++G NG+GK+TL + G +G Sbjct: 3 MLEVENLSAGY--GKIQALRGVSLEVERGEIVALLGRNGAGKTTLLKTIMGL--VRPRSG 58 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 I++ GE I ERA GI + P + + + L + +R ++ L Sbjct: 59 RIIFDGEDITGLPPHERARLGIAYVPEGRRIFPRLTVEENLLLGAYARRDKEAQERDL-- 116 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGL 178 +V ++ L + + SGGE+++ I + + P L +LDE GL Sbjct: 117 ---EEVYELFPRL---KERRNQRAGT-LSGGEQQMLAIARALMSRPKLLLLDEPSEGL 167 >gnl|CDD|33913 COG4172, COG4172, ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]. Length = 534 Score = 68.7 bits (168), Expect = 1e-12 Identities = 59/236 (25%), Positives = 108/236 (45%), Gaps = 23/236 (9%) Query: 19 IRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVER- 77 + G++L + + + ++G +GSGKSTL L + G+I + G+ I S E Sbjct: 303 VDGISLTLRRGQTLGLVGESGSGKSTLGLALLRLIPSQ---GEIRFDGQDIDGLSRKEMR 359 Query: 78 -ASKGIFLAFQYPVEI--PGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELG 134 + + + FQ P P + + Q ++ L + E ++V + E+G Sbjct: 360 PLRRRMQVVFQDPYGSLSPRMTVGQIIEEGLRVHEPKLSAAERD-----QRVIEALEEVG 414 Query: 135 INMDMLKR-PLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNAL 193 ++ R P FSGG+++ I + +L+P L +LDE S LD + AQ ++ L Sbjct: 415 LDPATRNRYPHE--FSGGQRQRIAIARALILKPELILLDEPTSALD---RSVQAQVLDLL 469 Query: 194 RS-QDR---SFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEENGYAE 245 R Q + S+L I+H ++ + I V+ +GKI++ G ++ Y Sbjct: 470 RDLQQKHGLSYLFISHDLAVVRALCHRVI-VMRDGKIVEQGPTEAVFANPQHEYTR 524 Score = 66.8 bits (163), Expect = 5e-12 Identities = 68/255 (26%), Positives = 114/255 (44%), Gaps = 43/255 (16%) Query: 1 MLEIKNLRAKI--VDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKS--TLSYL-LSGHKDY 55 +L I+NL E ++G++ +E E +A++G +GSGKS LS L L Sbjct: 6 LLSIRNLSVAFHQEGGTVEAVKGISFDIEAGETLALVGESGSGKSVTALSILGLLPSPAA 65 Query: 56 EITAGDILYKGESILDWSIVE-RASKG--IFLAFQY------PVEIPGIIMMQFLKIALN 106 +G IL+ GE +L S + R +G I + FQ P+ G + + L++ Sbjct: 66 AHPSGSILFDGEDLLAASERQLRGVRGNKIGMIFQEPMTSLNPLHTIGKQLAEVLRLHRG 125 Query: 107 EQRKARNEK--ELL----IPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQ 160 R A + ELL IP+ +++ EL SGG+++ I Sbjct: 126 LSRAAARARALELLELVGIPEPEKRLDAYPHEL---------------SGGQRQRVMIAM 170 Query: 161 MRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQDR----SFLIITHYQRLLNYIKPD 216 EP L I DE + LD+ + AQ ++ L+ + L ITH ++ D Sbjct: 171 ALANEPDLLIADEPTTALDV---TVQAQILDLLKELQAELGMAILFITHDLGIVRKFA-D 226 Query: 217 TIHVLHNGKIIKTGD 231 ++V+ +G+I++TG Sbjct: 227 RVYVMQHGEIVETGT 241 >gnl|CDD|34291 COG4674, COG4674, Uncharacterized ABC-type transport system, ATPase component [General function prediction only]. Length = 249 Score = 68.0 bits (166), Expect = 2e-12 Identities = 56/215 (26%), Positives = 102/215 (47%), Gaps = 8/215 (3%) Query: 19 IRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKG-ESILDWSIVER 77 + L+ V+P E+ ++GPNG+GK+TL +++G G++L+ G + Sbjct: 21 LNDLSFSVDPGELRVLIGPNGAGKTTLMDVITGKT--RPQEGEVLFDGDTDLTKLPEHRI 78 Query: 78 ASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKAR-NEKELLIPDFTRKVRKITAELGIN 136 A GI FQ P + + + L++ALN + + L + R++ ++ A +G+ Sbjct: 79 ARAGIGRKFQKPTVFENLTVRENLELALNRDKSVFASLFARLRAEERRRIDELLATIGLG 138 Query: 137 MDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQ 196 D R L S G+K+ EI + +P L +LDE +G+ + A+ + +L Sbjct: 139 -DERDRLAAL-LSHGQKQWLEIGMLLAQDPKLLLLDEPVAGMTDAETEKTAELLKSLA-G 195 Query: 197 DRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGD 231 S L++ H + I D + VLH G ++ G Sbjct: 196 KHSILVVEHDMGFVREIA-DKVTVLHEGSVLAEGS 229 >gnl|CDD|73021 cd03262, ABC_HisP_GlnQ_permeases, HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQMP system of S. typhimurium, where HisJ is the extracellular solute binding proteins and HisP is the ABC protein.. Length = 213 Score = 67.8 bits (166), Expect = 2e-12 Identities = 51/208 (24%), Positives = 99/208 (47%), Gaps = 19/208 (9%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 +EIKNL D +++G++L V+ EVV I+GP+GSGKSTL ++ + E +G Sbjct: 1 IEIKNLHKSF--GDFHVLKGIDLTVKKGEVVVIIGPSGSGKSTLLRCINLLE--EPDSGT 56 Query: 62 ILYKGESILDWSI-VERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 I+ G + D + + + + FQ P + +++ + +A + + ++ E Sbjct: 57 IIIDGLKLTDDKKNINELRQKVGMVFQQFNLFPHLTVLENITLAPIKVKG-MSKAEA--- 112 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKK---IAEILQMRLLEPSLCILDETDSG 177 + ++ ++G+ P L SGG+++ IA L M P + + DE S Sbjct: 113 --EERALELLEKVGLADKADAYPAQL--SGGQQQRVAIARALAMN---PKVMLFDEPTSA 165 Query: 178 LDIDALKIAAQGVNALRSQDRSFLIITH 205 LD + + + L + + +++TH Sbjct: 166 LDPELVGEVLDVMKDLAEEGMTMVVVTH 193 >gnl|CDD|35288 KOG0065, KOG0065, KOG0065, Pleiotropic drug resistance proteins (PDR1-15), ABC superfamily [Secondary metabolites biosynthesis, transport and catabolism]. Length = 1391 Score = 68.0 bits (166), Expect = 3e-12 Identities = 58/242 (23%), Positives = 101/242 (41%), Gaps = 28/242 (11%) Query: 4 IKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSG-HKDYEITAGDI 62 I + K +I++ ++ ++P E+ ++GP GSGK+TL L+G ++ ++G+I Sbjct: 116 ILRMLGKRKKKKIQILKDISGIIKPGEMTLVLGPPGSGKTTLLKALAGKLDNFLKSSGEI 175 Query: 63 LYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQ-------RKARNEK 115 Y G D + + + V P + + + L A + +R EK Sbjct: 176 TYNG---HDLKEFVPKKTVAYNS-EQDVHFPELTVRETLDFAARCKGPGSRYDEVSRREK 231 Query: 116 ELLIPDFTRKV--RKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDE 173 + D+ K+ A+ + DM++ G SGGE+K I +M + S+ DE Sbjct: 232 LAAMTDYLLKILGLDHCADTLVGNDMVR-----GVSGGERKRVSIGEMLVGPASILFWDE 286 Query: 174 TDSGLD-IDALKIAAQGVNALRSQ----DRSFLIITHYQRLLNYIKPDTIHVLHNGKIIK 228 GLD A +I + ALR + L+ Y D + +L G I Sbjct: 287 ITRGLDSSTAFQI----IKALRQLAHITGATALVSILQPSPEIYDLFDDVILLSEGYQIY 342 Query: 229 TG 230 G Sbjct: 343 QG 344 Score = 49.1 bits (117), Expect = 1e-06 Identities = 49/191 (25%), Positives = 83/191 (43%), Gaps = 9/191 (4%) Query: 17 EIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVE 76 +++ ++ +P + A+MG +G+GK+TL +L+G K GDIL G D Sbjct: 805 QLLNNVSGAFKPGVLTALMGESGAGKTTLLDVLAGRKTGGYIEGDILISGFP-KDQETFA 863 Query: 77 RASKGIFLAFQYPVEIPGIIMMQFLKI-ALNEQRKARNEKELLIPDFTRKVRKITAELGI 135 R S Q + P + + + L+ A K +++E ++ +V ++ EL Sbjct: 864 RVSG---YVEQQDIHSPELTVRESLRFSAALRLPKEVSDEEKY--EYVEEVIELL-ELKE 917 Query: 136 NMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCI-LDETDSGLDIDALKIAAQGVNALR 194 D L G S ++K I + PS + LDE SGLD A I + + L Sbjct: 918 YADALVGLPGSGLSTEQRKRLTIGVELVANPSSILFLDEPTSGLDSQAAAIVMRFLRKLA 977 Query: 195 SQDRSFLIITH 205 ++ L H Sbjct: 978 DTGQTILCTIH 988 >gnl|CDD|73058 cd03299, ABC_ModC_like, Archeal protein closely related to ModC. ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. 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 = 235 Score = 67.6 bits (165), Expect = 3e-12 Identities = 59/231 (25%), Positives = 109/231 (47%), Gaps = 19/231 (8%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 L+++NL + ++ ++L+VE + I+GP GSGKS L ++G + +G Sbjct: 1 LKVENLSKDWKEFK---LKNVSLEVERGDYFVILGPTGSGKSVLLETIAGF--IKPDSGK 55 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPD 121 IL G+ I + +R I Q P + + + + L +++ + E E Sbjct: 56 ILLNGKDITNLPPEKR---DISYVPQNYALFPHMTVYKNIAYGLKKRKVDKKEIE----- 107 Query: 122 FTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDID 181 RKV +I LGI+ + ++P L SGGE++ I + ++ P + +LDE S LD+ Sbjct: 108 --RKVLEIAEMLGIDHLLNRKPETL--SGGEQQRVAIARALVVNPKILLLDEPFSALDVR 163 Query: 182 A-LKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGD 231 K+ + + + L +TH + D + ++ NGK+I+ G Sbjct: 164 TKEKLREELKKIRKEFGVTVLHVTHDFEEA-WALADKVAIMLNGKLIQVGK 213 >gnl|CDD|31314 COG1117, PstB, ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]. Length = 253 Score = 67.5 bits (165), Expect = 3e-12 Identities = 62/238 (26%), Positives = 112/238 (47%), Gaps = 22/238 (9%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITA-- 59 +E+++L D ++ +NL + ++V A++GP+G GKSTL L+ D A Sbjct: 8 IEVRDLNLYY--GDKHALKDINLDIPKNKVTALIGPSGCGKSTLLRCLNRMNDLIPGARV 65 Query: 60 -GDILYKGESILDWSI-VERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKEL 117 G++L G++I D + V + + + FQ P P I + +A + +KEL Sbjct: 66 EGEVLLDGKNIYDPKVDVVELRRRVGMVFQKPNPFPMSI---YDNVAYGLRLHGIKDKEL 122 Query: 118 LIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKK---IAEILQMRLLEPSLCILDET 174 + K A D L + LG SGG+++ IA L + +P + ++DE Sbjct: 123 --DEIVESSLKKAALWDEVKDRLHKS-ALGLSGGQQQRLCIARALAV---KPEVLLMDEP 176 Query: 175 DSGLD-IDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGD 231 S LD I LKI + + L+ + + +I+TH + + D + G++++ G Sbjct: 177 TSALDPISTLKI-EELITELK-KKYTIVIVTHNMQQAARVS-DYTAFFYLGELVEFGP 231 >gnl|CDD|35282 KOG0059, KOG0059, KOG0059, Lipid exporter ABCA1 and related proteins, ABC superfamily [Lipid transport and metabolism, General function prediction only]. Length = 885 Score = 67.4 bits (164), Expect = 3e-12 Identities = 47/205 (22%), Positives = 91/205 (44%), Gaps = 12/205 (5%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 L + NL +K+ +RGL+ V P E ++G NG+GK+T +L+G + + T+G+ Sbjct: 565 LVLNNL-SKVYGGKDGAVRGLSFAVPPGECFGLLGVNGAGKTTTFKMLTG--ETKPTSGE 621 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPD 121 L KG I + ++ K + Q+ + + L+ + R+ D Sbjct: 622 ALIKGHDITVSTDFQQVRKQLGYCPQFDALWEELTGREHLEFYARLRGLPRS-------D 674 Query: 122 FTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDID 181 + K+ +G + + +SGG K+ + +PS+ +LDE +GLD Sbjct: 675 IGSAIEKLLRLVG-LGPYANKQVRT-YSGGNKRRLSFAIALIGDPSVILLDEPSTGLDPK 732 Query: 182 ALKIAAQGVNALRSQDRSFLIITHY 206 A + + LR ++ ++ +H Sbjct: 733 ARRHLWDIIARLRKNGKAIILTSHS 757 >gnl|CDD|31324 COG1127, Ttg2A, ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]. Length = 263 Score = 67.1 bits (164), Expect = 5e-12 Identities = 67/244 (27%), Positives = 102/244 (41%), Gaps = 17/244 (6%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 ++E++ + D I+ G++L V E++AI+G +GSGKSTL L+ G G Sbjct: 8 LIEVRGVTKSF--GDRVILDGVDLDVPRGEILAILGGSGSGKSTLLRLILGLL--RPDKG 63 Query: 61 DILYKGESILDWSIVERAS--KGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELL 118 +IL GE I S E K + + FQ + L + N R +L Sbjct: 64 EILIDGEDIPQLSEEELYEIRKRMGVLFQ------QGALFSSLTVFENVAFPLREHTKLP 117 Query: 119 IPDFTRKVRKITAELGINMDMLKR-PLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSG 177 V +G+ P L SGG +K + + L+P L LDE SG Sbjct: 118 ESLIRELVLMKLELVGLRGAAADLYPSEL--SGGMRKRVALARAIALDPELLFLDEPTSG 175 Query: 178 LD-IDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIAL 236 LD I A I + + +++TH L I D + VL +GK+I G L Sbjct: 176 LDPISAGVIDELIRELNDALGLTVIMVTHDLDSLLTI-ADRVAVLADGKVIAEGTPEELL 234 Query: 237 DLEE 240 ++ Sbjct: 235 ASDD 238 >gnl|CDD|73027 cd03268, ABC_BcrA_bacitracin_resist, The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.. Length = 208 Score = 66.3 bits (162), Expect = 7e-12 Identities = 55/214 (25%), Positives = 102/214 (47%), Gaps = 19/214 (8%) Query: 17 EIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVE 76 ++ ++L V+ E+ +GPNG+GK+T ++ G + +G+I + G+S Sbjct: 14 RVLDDISLHVKKGEIYGFLGPNGAGKTTTMKIILGL--IKPDSGEITFDGKSYQK---NI 68 Query: 77 RASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGIN 136 A + I + P P + + L++ + L I +++ ++ +G+ Sbjct: 69 EALRRIGALIEAPGFYPNLTARENLRLLA---------RLLGIRK--KRIDEVLDVVGLK 117 Query: 137 MDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQ 196 D K+ + GFS G K+ I L P L ILDE +GLD D +K + + +LR Q Sbjct: 118 -DSAKKKVK-GFSLGMKQRLGIALALLGNPDLLILDEPTNGLDPDGIKELRELILSLRDQ 175 Query: 197 DRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 + LI +H + + D I +++ GK+I+ G Sbjct: 176 GITVLISSHLLSEIQKVA-DRIGIINKGKLIEEG 208 >gnl|CDD|31298 COG1101, PhnK, ABC-type uncharacterized transport system, ATPase component [General function prediction only]. Length = 263 Score = 66.1 bits (161), Expect = 8e-12 Identities = 62/235 (26%), Positives = 112/235 (47%), Gaps = 13/235 (5%) Query: 1 MLEIKNLRA---KIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEI 57 M+ + N K + + GL+L++ + V ++G NG+GKSTL ++G D + Sbjct: 1 MISLSNATKTFFKGTPLEKRALNGLSLEIAEGDFVTVIGSNGAGKSTLLNAIAG--DLKP 58 Query: 58 TAGDILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQR-KARNEKE 116 T+G IL G + S+ +RA+ + FQ P+ + +AL E R K R Sbjct: 59 TSGQILIDGVDVTKKSVAKRANL-LARVFQDPLAGTAPELTIEENLALAESRGKKRGLSS 117 Query: 117 LLIPDFTRKVRKITAELGINM-DMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETD 175 L R+ A LG+ + + L + L SGG+++ +L L P + +LDE Sbjct: 118 ALNERRRSSFRERLARLGLGLENRLSDRIGL-LSGGQRQALSLLMATLHPPKILLLDEHT 176 Query: 176 SGLDIDALKIAAQGVNALRSQDR-SFLIITHY-QRLLNYIKPDTIHVLHNGKIIK 228 + LD + + + + + + L++TH + L+Y + + +LH+GKI+ Sbjct: 177 AALDPKTAEFVMELTAKIVEEHKLTTLMVTHNMEDALDY--GNRLIMLHSGKIVL 229 >gnl|CDD|73178 COG4608, AppF, ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]. Length = 268 Score = 64.9 bits (158), Expect = 2e-11 Identities = 59/243 (24%), Positives = 103/243 (42%), Gaps = 65/243 (26%) Query: 1 MLEIKNL-------RAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHK 53 +LE+KNL + + + G++ ++ E + ++G +G GKSTL L+ G Sbjct: 4 LLEVKNLKKYFPVGKGFGKKRYVKAVDGVSFSIKEGETLGLVGESGCGKSTLGRLILGL- 62 Query: 54 DYEITAGDILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARN 113 E T+G+IL++G+ I S ER Sbjct: 63 -EEPTSGEILFEGKDITKLSKEER------------------------------------ 85 Query: 114 EKELLIPDFTRKVRKITAELGINMDMLKR-PLNLGFSGGEKKIAEILQMRLLEPSLCILD 172 +V ++ ++G+ + L R P SGG+++ I + L P L + D Sbjct: 86 ---------RERVLELLEKVGLPEEFLYRYPHE--LSGGQRQRIGIARALALNPKLIVAD 134 Query: 173 ETDSGLDIDALKIAAQGVNALRSQDR----SFLIITHYQRLLNYIKPDTIHVLHNGKIIK 228 E S LD+ + AQ +N L+ ++L I+H ++ YI D I V++ GKI++ Sbjct: 135 EPVSALDV---SVQAQILNLLKDLQEELGLTYLFISHDLSVVRYIS-DRIAVMYLGKIVE 190 Query: 229 TGD 231 G Sbjct: 191 IGP 193 >gnl|CDD|73025 cd03266, ABC_NatA_sodium_exporter, NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake. NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.. Length = 218 Score = 64.9 bits (158), Expect = 2e-11 Identities = 62/243 (25%), Positives = 106/243 (43%), Gaps = 38/243 (15%) Query: 1 MLEIKNL--RAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEIT 58 M+ L R + V + + G++ V+P EV ++GPNG+GK+T +L+G E Sbjct: 1 MITADALTKRFRDVKKTVQAVDGVSFTVKPGEVTGLLGPNGAGKTTTLRMLAGL--LEPD 58 Query: 59 AGDILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKEL- 117 AG G F + P E + L ++ AR E Sbjct: 59 AGFATVDG----------------FDVVKEPAEARRRLGFVSDSTGLYDRLTARENLEYF 102 Query: 118 -----LIPD-FTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCIL 171 L D T ++ ++ LG+ ++L R + GFS G ++ I + + +P + +L Sbjct: 103 AGLYGLKGDELTARLEELADRLGME-ELLDRRVG-GFSTGMRQKVAIARALVHDPPVLLL 160 Query: 172 DETDSGLDIDALKIAAQGVNALRSQDRSFLIITH----YQRLLNYIKPDTIHVLHNGKII 227 DE +GLD+ A + + + LR+ + L TH +RL D + VLH G+++ Sbjct: 161 DEPTTGLDVMATRALREFIRQLRALGKCILFSTHIMQEVERLC-----DRVVVLHRGRVV 215 Query: 228 KTG 230 G Sbjct: 216 YEG 218 >gnl|CDD|31329 COG1134, TagH, ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]. Length = 249 Score = 64.9 bits (158), Expect = 2e-11 Identities = 56/235 (23%), Positives = 103/235 (43%), Gaps = 29/235 (12%) Query: 17 EIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVE 76 ++ ++ ++ E V I+G NG+GKSTL L++G Y+ T+G + G+ + I Sbjct: 41 WALKDISFEIYKGERVGIIGHNGAGKSTLLKLIAGI--YKPTSGKVKVTGK--VAPLI-- 94 Query: 77 RASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGIN 136 + F E+ G + + L RK +EK I +F AELG Sbjct: 95 ----ELGAGFDP--ELTGRENIYLRGLILGLTRKEIDEKVDEIIEF--------AELG-- 138 Query: 137 MDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQ 196 D + +P+ SG ++A + +EP + +LDE + D + + +N L + Sbjct: 139 -DFIDQPVKTYSSGMYARLAFSVATH-VEPDILLLDEVLAVGDAAFQEKCLERLNELVEK 196 Query: 197 DRSFLIITHYQRLLNYIKP--DTIHVLHNGKIIKTGDYSIALDLEENGYAELIKE 249 +++ ++++H L IK D L +G+I G + E A+ + Sbjct: 197 NKTIVLVSHD---LGAIKQYCDRAIWLEHGQIRMEGSPEEVIPAYEEDLADRLSL 248 >gnl|CDD|31330 COG1135, AbcC, ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]. Length = 339 Score = 64.5 bits (157), Expect = 2e-11 Identities = 49/240 (20%), Positives = 108/240 (45%), Gaps = 24/240 (10%) Query: 1 MLEIKNLR---AKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEI 57 M+E++N+ + + ++L++ E+ I+G +G+GKSTL L++ + Sbjct: 1 MIELENVSKTFGQTGTGTVTALDDVSLEIPKGEIFGIIGYSGAGKSTLLRLINLLERP-- 58 Query: 58 TAGDILYKGESI--LDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEK 115 T+G + G+ + L + + + + I + FQ+ + + + + L + E Sbjct: 59 TSGSVFVDGQDLTALSEAELRQLRQKIGMIFQHFNLLSSRTVFENVAFPLELAGVPKAEI 118 Query: 116 ELLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETD 175 + ++V ++ +G++ + P L SGG+K+ I + P + + DE Sbjct: 119 K-------QRVAELLELVGLSDKADRYPAQL--SGGQKQRVAIARALANNPKILLCDEAT 169 Query: 176 SGLDIDALKIAAQGVNALRSQDRSF----LIITHYQRLLNYIKPDTIHVLHNGKIIKTGD 231 S LD + + L+ +R ++ITH ++ I D + VL G++++ G Sbjct: 170 SALDP---ETTQSILELLKDINRELGLTIVLITHEMEVVKRI-CDRVAVLDQGRLVEEGT 225 >gnl|CDD|34241 COG4618, ArpD, ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]. Length = 580 Score = 64.5 bits (157), Expect = 3e-11 Identities = 56/217 (25%), Positives = 97/217 (44%), Gaps = 18/217 (8%) Query: 14 TDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWS 73 I++G++ ++ E + I+GP+GSGKSTL+ LL G + T+G + G + W Sbjct: 347 QKKPILKGISFALQAGEALGIIGPSGSGKSTLARLLVG--IWPPTSGSVRLDGADLRQW- 403 Query: 74 IVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTR--KVRKITA 131 +R G + + +P + + IA N R + + R V ++ Sbjct: 404 --DREQLGRHIGY-----LPQDVELFDGTIAENIARFGEEADPEKVIEAARLAGVHELIL 456 Query: 132 ELGINMDMLKRPLNLGFSGGEKKIAEILQMRLL--EPSLCILDETDSGLDIDALKIAAQG 189 L D SGG+++ I R L +P L +LDE +S LD + A Sbjct: 457 RLPQGYDTRIGEGGATLSGGQRQ--RIALARALYGDPFLVVLDEPNSNLDSEGEAALAAA 514 Query: 190 VNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKI 226 + A +++ + ++I H L + D I VL +G+I Sbjct: 515 ILAAKARGGTVVVIAHRPSALASV--DKILVLQDGRI 549 >gnl|CDD|32537 COG2401, COG2401, ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]. Length = 593 Score = 64.6 bits (157), Expect = 3e-11 Identities = 51/213 (23%), Positives = 105/213 (49%), Gaps = 23/213 (10%) Query: 18 IIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSG-HKDYEITAGDILYKGESILDWSIVE 76 ++R LNL+++P +VVA++G +G+GK+TL ++ G K G+ Y+ +S Sbjct: 398 VLRNLNLEIKPGDVVAVVGQSGAGKTTLLRMILGAQKGR----GEEKYRPDSGKVEVPKN 453 Query: 77 RASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGIN 136 S IPG +F ++ + E +++ D V +I G++ Sbjct: 454 TVS----------ALIPGEYEPEFGEVTILEHLRSK------TGDLNAAV-EILNRAGLS 496 Query: 137 MDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLD-IDALKIAAQGVNALRS 195 +L R S G+K+ A++ ++ P++ ++DE + LD + A+++A + R Sbjct: 497 DAVLYRRKFSELSTGQKERAKLAKLLAERPNVLLIDEFAAHLDELTAVRVARKISELARE 556 Query: 196 QDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIK 228 + +++TH + N ++PDT+ ++ GK+ Sbjct: 557 AGITLIVVTHRPEVGNALRPDTLILVGYGKVPV 589 >gnl|CDD|73007 cd03248, ABCC_TAP, TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules. Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells. Subsequently, virus-infected or malignantly transformed cells can be eliminated. TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.. Length = 226 Score = 64.2 bits (156), Expect = 3e-11 Identities = 60/218 (27%), Positives = 98/218 (44%), Gaps = 23/218 (10%) Query: 15 DTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSI 74 DT +++ ++ + P EV A++GP+GSGKST+ LL Y+ G +L G+ I + Sbjct: 26 DTLVLQDVSFTLHPGEVTALVGPSGSGKSTVVALL--ENFYQPQGGQVLLDGKPISQYEH 83 Query: 75 VERASKGIFLAFQYPVEIPGIIMMQF---LKIALNEQRKARNEK---ELLIPDFTRKVRK 128 SK + L Q PV + L+ E K +K I + Sbjct: 84 KYLHSK-VSLVGQEPVLFARSLQDNIAYGLQSCSFECVKEAAQKAHAHSFISEL------ 136 Query: 129 ITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQ 188 G + ++ ++ L SGG+K+ I + + P + ILDE S LD ++ + Q Sbjct: 137 ---ASGYDTEVGEKGSQL--SGGQKQRVAIARALIRNPQVLILDEATSALDAESEQQVQQ 191 Query: 189 GVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKI 226 + + R+ L+I H RL + D I VL G+I Sbjct: 192 ALYD-WPERRTVLVIAH--RLSTVERADQILVLDGGRI 226 >gnl|CDD|73024 cd03265, ABC_DrrA, DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin. In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. 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 = 220 Score = 64.1 bits (156), Expect = 4e-11 Identities = 53/230 (23%), Positives = 99/230 (43%), Gaps = 17/230 (7%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 +E++NL K D E +RG++ +V E+ ++GPNG+GK+T +L+ + T+G Sbjct: 1 IEVENLVKKY--GDFEAVRGVSFRVRRGEIFGLLGPNGAGKTTTIKMLTTL--LKPTSGR 56 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPD 121 G ++ R GI FQ + + L I E+ Sbjct: 57 ATVAGHDVVREPREVRRRIGI--VFQDLSVDDELTGWENLYIHARLYGVPGAER------ 108 Query: 122 FTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDID 181 ++ ++ +G+ ++ R + +SGG ++ EI + + P + LDE GLD Sbjct: 109 -RERIDELLDFVGL-LEAADRLVK-TYSGGMRRRLEIARSLVHRPEVLFLDEPTIGLDPQ 165 Query: 182 ALKIAAQGVNAL-RSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 + + L + L+ THY + D + ++ +G+II G Sbjct: 166 TRAHVWEYIEKLKEEFGMTILLTTHYMEEAEQLC-DRVAIIDHGRIIAEG 214 >gnl|CDD|33892 COG4136, COG4136, ABC-type uncharacterized transport system, ATPase component [General function prediction only]. Length = 213 Score = 63.8 bits (155), Expect = 4e-11 Identities = 59/240 (24%), Positives = 99/240 (41%), Gaps = 30/240 (12%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 ML +KN+ ++ + ++ +N + E+V +MGP+G GKSTL + G + + Sbjct: 2 MLCLKNVSLRL--PGSCLLANVNFTIAKGEIVTLMGPSGCGKSTLLSWMIGALAGQFSCT 59 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 L+ E LD + GI FQ + P + + Q L AL K + Sbjct: 60 GELWLNEQRLDMLPAAQRQIGIL--FQDALLFPHLSVGQNLLFALPATLKGNARRNAANA 117 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDI 180 R G++ + P L SGG++ +L+ L +P +LDE S LD+ Sbjct: 118 ALER--------SGLDGAFHQDPATL--SGGQRARVALLRALLAQPKALLLDEPFSRLDV 167 Query: 181 DALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEE 240 ALR Q R ++ + + P T+ V H+ + + G I + E Sbjct: 168 -----------ALRDQFRQWV----FSEVRAAGIP-TVQVTHDLQDVPAGSRVIEMAQWE 211 >gnl|CDD|73059 cd03300, ABC_PotA_N, PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. 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 = 232 Score = 63.3 bits (154), Expect = 6e-11 Identities = 59/232 (25%), Positives = 108/232 (46%), Gaps = 22/232 (9%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 +E++N+ K + G++L ++ E ++GP+G GK+TL L++G + T+G+ Sbjct: 1 IELENVS-KFYGGFV-ALDGVSLDIKEGEFFTLLGPSGCGKTTLLRLIAGFE--TPTSGE 56 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPD 121 IL G+ I + +R + FQ P + F IA + K + E+ Sbjct: 57 ILLDGKDITNLPPHKR---PVNTVFQNYALFPH--LTVFENIAFGLRLKKLPKAEI---- 107 Query: 122 FTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDID 181 +V + + + ++P L SGG+++ I + + EP + +LDE LD+ Sbjct: 108 -KERVAEALDLVQLEGYANRKPSQL--SGGQQQRVAIARALVNEPKVLLLDEPLGALDLK 164 Query: 182 ALKIAAQGVNALRSQDR---SFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 L+ Q + R Q +F+ +TH Q + D I V++ GKI + G Sbjct: 165 -LRKDMQ-LELKRLQKELGITFVFVTHDQEEALTMS-DRIAVMNKGKIQQIG 213 >gnl|CDD|73057 cd03298, ABC_ThiQ_thiamine_transporter, ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP. Probably responsible for the translocation of thiamine across the membrane. 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 = 211 Score = 63.4 bits (154), Expect = 6e-11 Identities = 50/211 (23%), Positives = 93/211 (44%), Gaps = 18/211 (8%) Query: 22 LNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEI-TAGDILYKGESILDWSIVERASK 80 +L E+ AI+GP+GSGKSTL L++G +E +G +L G +D + A + Sbjct: 17 FDLTFAQGEITAIVGPSGSGKSTLLNLIAG---FETPQSGRVLING---VDVTAAPPADR 70 Query: 81 GIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGINMDML 140 + + FQ + + Q + + L+ K E + + A +G+ Sbjct: 71 PVSMLFQENNLFAHLTVEQNVGLGLSPGLKLTAEDR-------QAIEVALARVGLAGLEK 123 Query: 141 KRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQDR-S 199 + P L SGGE++ + ++ + + + +LDE + LD V L ++ + + Sbjct: 124 RLPGEL--SGGERQRVALARVLVRDKPVLLLDEPFAALDPALRAEMLDLVLDLHAETKMT 181 Query: 200 FLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 L++TH + + L NG+I G Sbjct: 182 VLMVTHQPEDAKRLAQRVVF-LDNGRIAAQG 211 >gnl|CDD|72993 cd03234, ABCG_White, The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors. The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in macrophages, hepatocytes, and intestinal mucosa cells. ABCG1 (ABC8), the human homolog of the Drosophila white gene is induced in monocyte-derived macrophages during cholesterol influx mediated by acetylated low-density lipoprotein. It is possible that human ABCG1 forms heterodimers with several heterologous partners.. Length = 226 Score = 63.3 bits (154), Expect = 6e-11 Identities = 61/227 (26%), Positives = 109/227 (48%), Gaps = 14/227 (6%) Query: 7 LRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGH-KDYEITAGDILYK 65 L+AK + I+ ++L VE +V+AI+G +GSGK+TL +SG + T+G IL+ Sbjct: 11 LKAKNWNKYARILNDVSLHVESGQVMAILGSSGSGKTTLLDAISGRVEGGGTTSGQILFN 70 Query: 66 GESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRK 125 G+ + + ++ Q + +PG+ + + L + ++ D RK Sbjct: 71 GQPRKPDQFQKCVA---YVR-QDDILLPGLTVRETLTYTAILRLPRKS------SDAIRK 120 Query: 126 VR-KITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLD-IDAL 183 R + + + + L G SGGE++ I L +P + ILDE SGLD AL Sbjct: 121 KRVEDVLLRDLALTRIGGNLVKGISGGERRRVSIAVQLLWDPKVLILDEPTSGLDSFTAL 180 Query: 184 KIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 + ++ L ++R ++ H R + D I +L +G+I+ +G Sbjct: 181 NL-VSTLSQLARRNRIVILTIHQPRSDLFRLFDRILLLSSGEIVYSG 226 >gnl|CDD|72988 cd03229, ABC_Class3, This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment. 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 = 178 Score = 62.9 bits (153), Expect = 8e-11 Identities = 55/226 (24%), Positives = 96/226 (42%), Gaps = 50/226 (22%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 LE+KN+ + ++ ++L +E E+VA++GP+GSGKSTL ++G + E +G Sbjct: 1 LELKNVSKRY--GQKTVLNDVSLNIEAGEIVALLGPSGSGKSTLLRCIAGLE--EPDSGS 56 Query: 62 ILYKGESILDWSIVERASKG-IFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 IL GE + D + I + FQ L P Sbjct: 57 ILIDGEDLTDLEDELPPLRRRIGMVFQDFA---------------------------LFP 89 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDI 180 T V + A LG SGG+++ + + ++P + +LDE S LD Sbjct: 90 HLT--VLENIA--------------LGLSGGQQQRVALARALAMDPDVLLLDEPTSALDP 133 Query: 181 DALKIAAQGVNALRSQD-RSFLIITHYQRLLNYIKPDTIHVLHNGK 225 + + +L++Q + +++TH + D + VL +GK Sbjct: 134 ITRREVRALLKSLQAQLGITVVLVTHDLDEAARLA-DRVVVLRDGK 178 >gnl|CDD|72975 cd03216, ABC_Carb_Monos_I, This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.. Length = 163 Score = 63.1 bits (154), Expect = 8e-11 Identities = 48/217 (22%), Positives = 82/217 (37%), Gaps = 67/217 (30%) Query: 15 DTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSI 74 + + G++L V EV A++G NG+GKSTL +LSG Y+ +G+IL G+ Sbjct: 12 GVKALDGVSLSVRRGEVHALLGENGAGKSTLMKILSG--LYKPDSGEILVDGK------- 62 Query: 75 VERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELG 134 V + IA+ Q Sbjct: 63 --------------EVSFASPRDARRAGIAMVYQ-------------------------- 82 Query: 135 INMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALR 194 S GE+++ EI + L ILDE + L ++ + + LR Sbjct: 83 -------------LSVGERQMVEIARALARNARLLILDEPTAALTPAEVERLFKVIRRLR 129 Query: 195 SQDRSFLIITHYQRLLNYIKP--DTIHVLHNGKIIKT 229 +Q + + I+H L+ + D + VL +G+++ T Sbjct: 130 AQGVAVIFISHR---LDEVFEIADRVTVLRDGRVVGT 163 >gnl|CDD|73006 cd03247, ABCC_cytochrome_bd, The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.. Length = 178 Score = 62.5 bits (152), Expect = 1e-10 Identities = 60/232 (25%), Positives = 98/232 (42%), Gaps = 57/232 (24%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 L I N+ + + ++++ L+L+++ E +A++G +GSGKSTL LL+G D + G+ Sbjct: 1 LSINNVSFSYPEQEQQVLKNLSLELKQGEKIALLGRSGSGKSTLLQLLTG--DLKPQQGE 58 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPD 121 I G + D L+ AL+ N++ L Sbjct: 59 ITLDGVPVSD-----------------------------LEKALSSLISVLNQRPYLFDT 89 Query: 122 FTRKVRKITAELGINMDMLKRPLNLG--FSGGEKKIAEILQMRLLEPSLCILDETDSGLD 179 R NLG FSGGE++ + ++ L + + +LDE GLD Sbjct: 90 TLRN-------------------NLGRRFSGGERQRLALARILLQDAPIVLLDEPTVGLD 130 Query: 180 -IDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 I ++ + L+ D++ + ITH L D I L NGKII G Sbjct: 131 PITERQLLSLIFEVLK--DKTLIWITH--HLTGIEHMDKILFLENGKIIMQG 178 >gnl|CDD|33909 COG4167, SapF, ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]. Length = 267 Score = 62.3 bits (151), Expect = 1e-10 Identities = 59/247 (23%), Positives = 115/247 (46%), Gaps = 35/247 (14%) Query: 1 MLEIKNLRAKIVDTDT-------EIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHK 53 +LE++NL E ++ ++ + + +AI+G NGSGKSTL+ +L+G Sbjct: 4 LLEVRNLSKTFRYRTGLFRRQTVEAVKPVSFTLREGQTLAIIGENGSGKSTLAKMLAGM- 62 Query: 54 DYEITAGDILYKGESILDWSIVERASKGIFLAFQ------YPVEIPGIIMMQFLKIALNE 107 E T+G+IL + R+ K I + FQ P G I+ L++ + Sbjct: 63 -IEPTSGEILINDHPLHFGDYSFRS-KRIRMIFQDPNTSLNPRLRIGQILDFPLRLNTDL 120 Query: 108 QRKARNEKELLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPS 167 + + R ++ I + R V + ML + G+K+ + + +L P Sbjct: 121 EPEQRRKQ---IFETLRMVGLLPDHANYYPHML--------APGQKQRVALARALILRPK 169 Query: 168 LCILDETDSGLDIDALKIAAQGVN-ALRSQDR---SFLIITHYQRLLNYIKPDTIHVLHN 223 + I DE + LD + + +Q +N L Q++ S++ +T + ++ +I D + V+H Sbjct: 170 IIIADEALASLD---MSMRSQLINLMLELQEKQGISYIYVTQHIGMIKHIS-DQVLVMHE 225 Query: 224 GKIIKTG 230 G++++ G Sbjct: 226 GEVVERG 232 >gnl|CDD|73017 cd03258, ABC_MetN_methionine_transporter, MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. 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 = 233 Score = 61.7 bits (150), Expect = 2e-10 Identities = 59/254 (23%), Positives = 105/254 (41%), Gaps = 53/254 (20%) Query: 1 MLEIKNLRAKIVDTDTEI--IRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEIT 58 M+E+KN+ DT ++ ++ ++L V E+ I+G +G+GKSTL ++G + T Sbjct: 1 MIELKNVSKVFGDTGGKVTALKDVSLSVPKGEIFGIIGRSGAGKSTLIRCINGLERP--T 58 Query: 59 AGDILYKGESILDWSIVER--ASKGIFLAFQ---------------YPVEIPGIIMMQFL 101 +G +L G + S E A + I + FQ P+EI G+ Sbjct: 59 SGSVLVDGTDLTLLSGKELRKARRRIGMIFQHFNLLSSRTVFENVALPLEIAGVPK---- 114 Query: 102 KIALNEQRKARNEKELLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQM 161 + + R + L + K A+L SGG+K+ I + Sbjct: 115 -----AEIEERVLELLELVGLEDKADAYPAQL---------------SGGQKQRVGIARA 154 Query: 162 RLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQDRSF----LIITHYQRLLNYIKPDT 217 P + + DE S LD + + LR +R ++ITH ++ I D Sbjct: 155 LANNPKVLLCDEATSALDP---ETTQSILALLRDINRELGLTIVLITHEMEVVKRI-CDR 210 Query: 218 IHVLHNGKIIKTGD 231 + V+ G++++ G Sbjct: 211 VAVMEKGEVVEEGT 224 >gnl|CDD|73011 cd03252, ABCC_Hemolysin, The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E. coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.. Length = 237 Score = 61.1 bits (148), Expect = 3e-10 Identities = 62/241 (25%), Positives = 103/241 (42%), Gaps = 34/241 (14%) Query: 17 EIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVE 76 I+ ++L+++P EVV I+G +GSGKSTL+ L+ Y G +L G D ++ + Sbjct: 16 VILDNISLRIKPGEVVGIVGRSGSGKSTLTKLIQRF--YVPENGRVLVDGH---DLALAD 70 Query: 77 RAS--KGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP-----DFTRKVRK- 128 A + + + Q V I IAL + + DF ++ + Sbjct: 71 PAWLRRQVGVVLQENVLFNRSIRDN---IALADPGMSMERVIEAAKLAGAHDFISELPEG 127 Query: 129 ---ITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKI 185 I E G G SGG+++ I + + P + I DE S LD ++ Sbjct: 128 YDTIVGEQGA-----------GLSGGQRQRIAIARALIHNPRILIFDEATSALDYESEHA 176 Query: 186 AAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEENGYAE 245 + ++ + R+ +II H RL D I V+ G+I++ G + L E YA Sbjct: 177 IMRNMHDI-CAGRTVIIIAH--RLSTVKNADRIIVMEKGRIVEQGSHDELLA-ENGLYAY 232 Query: 246 L 246 L Sbjct: 233 L 233 >gnl|CDD|31316 COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]. Length = 257 Score = 61.0 bits (148), Expect = 3e-10 Identities = 58/242 (23%), Positives = 102/242 (42%), Gaps = 29/242 (11%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 ++E+KN+ + +I+ L+ +V P E AI+GPNG+GK+TL LL+G ++ ++G Sbjct: 31 LIELKNV--SVRRNGKKILGDLSWQVNPGEHWAIVGPNGAGKTTLLSLLTG--EHPPSSG 86 Query: 61 DILYKGESILDWSIVERASKGI-----FLAFQYPVEIPG---IIMMQFLKIALNEQRKAR 112 D+ G + K I L ++ V ++ F I + ++ Sbjct: 87 DVTLLGRRFGKGETIFELRKRIGLVSSELHERFRVRETVRDVVLSGFFASIGIYQEDLTA 146 Query: 113 NEKELLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILD 172 + + + LG + RP S GE++ I + + +P L ILD Sbjct: 147 EDLA--------AAQWLLELLGA-KHLADRPF-GSLSQGEQRRVLIARALVKDPELLILD 196 Query: 173 ETDSGLDIDALKIAAQGVN--ALRSQDRSFLIITHYQRLLNYIKPDTIHVLH--NGKIIK 228 E GLD+ A + + A + L +TH+ I P H L G+++ Sbjct: 197 EPAQGLDLIAREQLLNRLEELAASPGAPALLFVTHH---AEEIPPCFTHRLLLKEGEVVA 253 Query: 229 TG 230 G Sbjct: 254 QG 255 >gnl|CDD|34199 COG4555, NatA, ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]. Length = 245 Score = 60.7 bits (147), Expect = 4e-10 Identities = 50/237 (21%), Positives = 104/237 (43%), Gaps = 29/237 (12%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 MLE+ +L K + + +R ++ + E E+ ++G NG+GK+TL +++ +G Sbjct: 1 MLEVTDL-TKSYGSKVQAVRDVSFEAEEGEITGLLGENGAGKTTLLRMIATL--LIPDSG 57 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNE------ 114 + G + + P + I + F + L + AR Sbjct: 58 KVTIDGVDTV----------------RDPSFVRRKIGVLFGERGLYARLTARENLKYFAR 101 Query: 115 -KELLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDE 173 L + ++ +++ L + + +R FS G K+ I + + +PS+ +LDE Sbjct: 102 LNGLSRKEIKARIAELSKRLQLLEYLDRRV--GEFSTGMKQKVAIARALVHDPSILVLDE 159 Query: 174 TDSGLDIDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 SGLDI + + L+++ R+ + +H + + + D + VLH G+++ G Sbjct: 160 PTSGLDIRTRRKFHDFIKQLKNEGRAVIFSSHIMQEVEAL-CDRVIVLHKGEVVLEG 215 >gnl|CDD|33436 COG3638, COG3638, ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]. Length = 258 Score = 60.2 bits (146), Expect = 5e-10 Identities = 62/239 (25%), Positives = 118/239 (49%), Gaps = 20/239 (8%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 M+E+KNL +K + ++ +NL++ E+VAI+GP+G+GKSTL L+G D T+G Sbjct: 3 MIEVKNL-SKTYPGGHQALKDVNLEINQGEMVAIIGPSGAGKSTLLRSLNGLVD--PTSG 59 Query: 61 DILYKGESI--LDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIA-LNEQRKARNEKEL 117 +IL+ G I L + + + I + FQ +P + +++ + + L R+ Sbjct: 60 EILFNGVQITKLKGKELRKLRRDIGMIFQQFNLVPRLSVLENVLLGRLGYTSTWRS---- 115 Query: 118 LIPDFTRKVRKIT----AELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDE 173 L F+++ + +GI +R L SGG+++ I + + +P + + DE Sbjct: 116 LFGLFSKEDKAQALDALERVGILDKAYQRASTL--SGGQQQRVAIARALVQQPKIILADE 173 Query: 174 TDSGLDIDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKP--DTIHVLHNGKIIKTG 230 + LD ++ K + + +D +I+ +Q ++ K D I L G+I+ G Sbjct: 174 PVASLDPESAKKVMDILKDINQEDGITVIVNLHQ--VDLAKKYADRIIGLKAGRIVFDG 230 >gnl|CDD|33919 COG4181, COG4181, Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]. Length = 228 Score = 59.9 bits (145), Expect = 7e-10 Identities = 54/215 (25%), Positives = 99/215 (46%), Gaps = 17/215 (7%) Query: 1 MLEIKNLRAKIVDTDTE--IIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEIT 58 ++E+ +L + + E I++G+ L V+ E VAI+GP+GSGKSTL +L+G D + Sbjct: 6 IIEVHHLSKTVGQGEGELSILKGVELVVKRGETVAIVGPSGSGKSTLLAVLAGLDD--PS 63 Query: 59 AGDILYKGESILDWSIVERA---SKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEK 115 +G++ G+ + RA ++ + FQ IP + ++ + + L + R E Sbjct: 64 SGEVRLLGQPLHKLDEDARAALRARHVGFVFQSFHLIPNLTALENVALPL----ELRGES 119 Query: 116 ELLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETD 175 D + + +G+ + P L SGGE++ + + P + DE Sbjct: 120 S---ADSRAGAKALLEAVGLGKRLTHYPAQL--SGGEQQRVALARAFAGRPDVLFADEPT 174 Query: 176 SGLDID-ALKIAAQGVNALRSQDRSFLIITHYQRL 209 LD KIA R + + +++TH +L Sbjct: 175 GNLDRATGDKIADLLFALNRERGTTLVLVTHDPQL 209 >gnl|CDD|36145 KOG0927, KOG0927, KOG0927, Predicted transporter (ABC superfamily) [General function prediction only]. Length = 614 Score = 59.6 bits (144), Expect = 8e-10 Identities = 48/222 (21%), Positives = 92/222 (41%), Gaps = 28/222 (12%) Query: 13 DTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDW 72 + I + LN ++ VA++GPNG+GKSTL L++G D + T G + + L Sbjct: 400 SDNPMIYKKLNFGIDLDSRVALVGPNGAGKSTLLKLITG--DLQPTIGMVSRHSHNKL-- 455 Query: 73 SIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAE 132 LA Q ++ + M + +E+ ++R I Sbjct: 456 -----PRYNQHLAEQLDLDKSSLEFM--MPKFPDEKELE-------------EMRSILGR 495 Query: 133 LGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNA 192 G+ D P++ S G+++ ++ + +P L +LDE + LDI+ + A A Sbjct: 496 FGLTGDAQVVPMSQ-LSDGQRRRVLFARLAVKQPHLLLLDEPTNHLDIETIDALA---EA 551 Query: 193 LRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSI 234 + ++++H RL++ + + + GD I Sbjct: 552 INEFPGGVVLVSHDFRLISQVAEEIWVCENGTVTKWDGDIEI 593 Score = 59.2 bits (143), Expect = 1e-09 Identities = 59/249 (23%), Positives = 102/249 (40%), Gaps = 28/249 (11%) Query: 17 EIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVE 76 E+I+ + L++ ++GPNGSGKST ++G ++ I Y ++ S + Sbjct: 89 ELIKDVTLELNRGRRYGLIGPNGSGKSTFLRAIAG-REVPIPEHIDFYLLSREIEPSEKQ 147 Query: 77 RASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTR-----------K 125 + +++L L + + EK+ L + R K Sbjct: 148 AVQAVVMETDH------ERKRLEYLAEDLAQACDDK-EKDELDELYERLDEMDNDTFEAK 200 Query: 126 VRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKI 185 KI LG +M + + SGG + A + + +P L +LDE + LD++A+ Sbjct: 201 AAKILHGLGFLSEMQDKKVK-DLSGGWRMRAALARALFQKPDLLLLDEPTNHLDLEAIVW 259 Query: 186 AAQGVNALRSQDRSFLIIT-HYQRLLNYIKPDTIHVLHNGKIIKTGDYSI----ALDLEE 240 + L DR L+I H Q LN + + IH+ + I G+Y +LEE Sbjct: 260 LEE---YLAKYDRIILVIVSHSQDFLNGVCTNIIHLDNKKLIYYEGNYDQYVKTRSELEE 316 Query: 241 NGYAELIKE 249 N K+ Sbjct: 317 NQMKAYEKQ 325 >gnl|CDD|73023 cd03264, ABC_drug_resistance_like, ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. 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 = 211 Score = 59.8 bits (145), Expect = 8e-10 Identities = 52/214 (24%), Positives = 102/214 (47%), Gaps = 18/214 (8%) Query: 18 IIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVER 77 + G++L + P + ++GPNG+GK+TL +L+ ++G I G+ +L R Sbjct: 15 ALDGVSLTLGPG-MYGLLGPNGAGKTTLMRILATLT--PPSSGTIRIDGQDVLKQPQKLR 71 Query: 78 ASKGIFLAFQYPVEIPGIIMMQFLK-IALNEQRKARNEKELLIPDFTRKVRKITAELGIN 136 G +L ++ V P + +FL IA K + + +V ++ + + Sbjct: 72 RRIG-YLPQEFGV-YPNFTVREFLDYIAW--------LKGIPSKEVKARVDEVLELVNLG 121 Query: 137 MDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQ 196 D K+ + SGG ++ I Q + +PS+ I+DE +GLD +I + + + + Sbjct: 122 -DRAKKKIG-SLSGGMRRRVGIAQALVGDPSILIVDEPTAGLDP-EERIRFRNLLSELGE 178 Query: 197 DRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 DR ++ TH + + + + VL+ GK++ G Sbjct: 179 DRIVILSTHIVEDVESLC-NQVAVLNKGKLVFEG 211 >gnl|CDD|73015 cd03256, ABC_PhnC_transporter, ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. 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 = 241 Score = 59.4 bits (144), Expect = 1e-09 Identities = 54/229 (23%), Positives = 107/229 (46%), Gaps = 8/229 (3%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 +E++NL +K + ++ ++L + P E VA++GP+G+GKSTL L+G E T+G Sbjct: 1 IEVENL-SKTYPNGKKALKDVSLSINPGEFVALIGPSGAGKSTLLRCLNGL--VEPTSGS 57 Query: 62 ILYKGESILDWSIVE--RASKGIFLAFQYPVEIPGIIMMQ-FLKIALNEQRKARNEKELL 118 +L G I + + I + FQ I + +++ L L + R+ L Sbjct: 58 VLIDGTDINKLKGKALRQLRRQIGMIFQQFNLIERLSVLENVLSGRLGRRSTWRSLFGLF 117 Query: 119 IPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGL 178 + ++ +G+ +R L SGG+++ I + + +P L + DE + L Sbjct: 118 PKEEKQRALAALERVGLLDKAYQRADQL--SGGQQQRVAIARALMQQPKLILADEPVASL 175 Query: 179 DIDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKII 227 D + + + + ++ +I++ +Q L D I L +G+I+ Sbjct: 176 DPASSRQVMDLLKRINREEGITVIVSLHQVDLAREYADRIVGLKDGRIV 224 >gnl|CDD|73055 cd03296, ABC_CysA_sulfate_importer, Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). 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 = 239 Score = 59.1 bits (143), Expect = 1e-09 Identities = 52/220 (23%), Positives = 97/220 (44%), Gaps = 26/220 (11%) Query: 19 IRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVERA 78 + ++L + E+VA++GP+GSGK+TL L++G + +G IL+ GE D + ER Sbjct: 18 LDDVSLDIPSGELVALLGPSGSGKTTLLRLIAGLER--PDSGTILFGGEDATDVPVQER- 74 Query: 79 SKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGINMD 138 + FQ+ + + + L + ++ E I ++ K+ + +D Sbjct: 75 --NVGFVFQHYALFRHMTVFDNVAFGLRVKPRSERPPEAEIRAKVHELLKL-----VQLD 127 Query: 139 MLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQDR 198 L SGG+++ + + +EP + +LDE LD A+ LR R Sbjct: 128 WLADRYPAQLSGGQRQRVALARALAVEPKVLLLDEPFGALD-------AKVRKELRRWLR 180 Query: 199 SF--------LIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 + +TH Q + D + V++ G+I + G Sbjct: 181 RLHDELHVTTVFVTHDQEEALEVA-DRVVVMNKGRIEQVG 219 >gnl|CDD|34233 COG4598, HisP, ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]. Length = 256 Score = 58.4 bits (141), Expect = 2e-09 Identities = 54/243 (22%), Positives = 112/243 (46%), Gaps = 27/243 (11%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 LE+++L + + E+++G++L+ +V++I+G +GSGKST ++ + + +AG Sbjct: 7 LEVEDLHKRY--GEHEVLKGVSLQANAGDVISIIGSSGSGKSTFLRCINFLE--KPSAGS 62 Query: 62 ILYKGESI------------LDWSIVERASKGIFLAFQYPVEIPGIIMMQ-FLKIALNEQ 108 I GE I D ++R + + FQ+ + +++ ++ ++ Sbjct: 63 IRVNGEEIRLKRDKDGQLKPADKRQLQRLRTRLGMVFQHFNLWSHMTVLENVIEAPVHVL 122 Query: 109 RKARNEKELLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSL 168 ++ E + K A++GI P +L SGG+++ I + +EP + Sbjct: 123 GVSKAEA-------IERAEKYLAKVGIAEKADAYPAHL--SGGQQQRVAIARALAMEPEV 173 Query: 169 CILDETDSGLDIDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIK 228 + DE S LD + + + + L + R+ +++TH + I LH GKI + Sbjct: 174 MLFDEPTSALDPELVGEVLKVMQDLAEEGRTMVVVTHEMGFARDVSSHVIF-LHQGKIEE 232 Query: 229 TGD 231 G Sbjct: 233 EGP 235 >gnl|CDD|35280 KOG0057, KOG0057, KOG0057, Mitochondrial Fe/S cluster exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]. Length = 591 Score = 57.9 bits (140), Expect = 2e-09 Identities = 60/226 (26%), Positives = 97/226 (42%), Gaps = 20/226 (8%) Query: 15 DTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSI 74 ++++G++ + E VAI+G NGSGKST+ LL DY G IL G+ I + Sbjct: 364 KRKVLKGVSFTIPKGEKVAIVGSNGSGKSTILRLLLRFFDYS---GSILIDGQDI--KEV 418 Query: 75 VERASKG-IFLAFQYPVEIPGIIMMQFL---KIALNEQRKARNEKELLIPDFTRKVRKIT 130 + + I + Q V I+ A +E+ ++ L +R Sbjct: 419 SLESLRQSIGVVPQDSVLFNDTILYNIKYGNPSASDEEVVEACKRAGLHDVISRLPDGYQ 478 Query: 131 AELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGV 190 +G ML SGGEK+ + + L + + +LDE S LD + + + Sbjct: 479 TLVGERGLML--------SGGEKQRVSLARAFLKDAPILLLDEATSALDSETEREILDMI 530 Query: 191 NALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIAL 236 + S R+ ++I H LL D I VL NG + + G +S L Sbjct: 531 MDVMS-GRTVIMIVHRLDLLK--DFDKIIVLDNGTVKEYGTHSELL 573 >gnl|CDD|72971 cd00267, ABC_ATPase, 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 = 157 Score = 58.0 bits (140), Expect = 2e-09 Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 1/78 (1%) Query: 148 FSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQDRSFLIITHYQ 207 SGG+++ + + LL P L +LDE SGLD + + + + L + R+ +I+TH Sbjct: 81 LSGGQRQRVALARALLLNPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDP 140 Query: 208 RLLNYIKPDTIHVLHNGK 225 L D + VL +GK Sbjct: 141 ELAELA-ADRVIVLKDGK 157 Score = 56.8 bits (137), Expect = 6e-09 Identities = 28/85 (32%), Positives = 46/85 (54%), Gaps = 5/85 (5%) Query: 3 EIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDI 62 EI+NL + + ++L ++ E+VA++GPNGSGKSTL ++G + T+G+I Sbjct: 1 EIENLSFRY--GGRTALDNVSLTLKAGEIVALVGPNGSGKSTLLRAIAGL--LKPTSGEI 56 Query: 63 LYKGESILDWSIVERASKGIFLAFQ 87 L G+ I + E + I Q Sbjct: 57 LIDGKDIAKLPL-EELRRRIGYVPQ 80 >gnl|CDD|143798 pfam00005, ABC_tran, ABC transporter. ABC transporters for a large family of proteins responsible for translocation of a variety of compounds across biological membranes. ABC transporters are the largest family of proteins in many completely sequenced bacteria. ABC transporters are composed of two copies of this domain and two copies of a transmembrane domain pfam00664. These four domains may belong to a single polypeptide or belong in different polypeptide chains. Length = 119 Score = 56.6 bits (137), Expect = 6e-09 Identities = 34/131 (25%), Positives = 57/131 (43%), Gaps = 15/131 (11%) Query: 43 STLSYLLSGHKDYEITAGDILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLK 102 STL L++G + T+G IL GE D S + K I + FQ P P + + + L Sbjct: 1 STLLKLITGL--LQPTSGTILLDGEDGTDLSSRKALRKRIGVVFQDPQLFPELTVRENLF 58 Query: 103 IALNEQRKARNEKELLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMR 162 L ++ + + +G+ + + P+ SGG+K+ I + Sbjct: 59 FGLRDKE------------ADARAEEALERVGLPDFLDRSPVG-TLSGGQKQRVAIARAL 105 Query: 163 LLEPSLCILDE 173 L +P L +LDE Sbjct: 106 LKKPKLLLLDE 116 >gnl|CDD|33632 COG3840, ThiQ, ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]. Length = 231 Score = 56.5 bits (136), Expect = 6e-09 Identities = 55/211 (26%), Positives = 94/211 (44%), Gaps = 16/211 (7%) Query: 22 LNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVERASKG 81 +L V E+VAI+GP+G+GKSTL L++G + +G+IL G ER Sbjct: 18 FDLTVPAGEIVAILGPSGAGKSTLLNLIAGFE--TPASGEILINGVDHTASPPAERP--- 72 Query: 82 IFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGINMDMLK 141 + + FQ + + Q + + L+ K E+ KV A++G+ + + Sbjct: 73 VSMLFQENNLFAHLTVAQNIGLGLSPGLKLNAEQR-------EKVEAAAAQVGLAGFLKR 125 Query: 142 RPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQ-DRSF 200 P L SGG+++ + + + E + +LDE S LD V+ L + + Sbjct: 126 LPGEL--SGGQRQRVALARCLVREQPILLLDEPFSALDPALRAEMLALVSQLCDERKMTL 183 Query: 201 LIITHYQRLLNYIKPDTIHVLHNGKIIKTGD 231 L++TH+ I + L NG+I G Sbjct: 184 LMVTHHPEDAARIADRVV-FLDNGRIAAQGS 213 >gnl|CDD|72979 cd03220, ABC_KpsT_Wzt, ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.. Length = 224 Score = 56.3 bits (136), Expect = 7e-09 Identities = 53/220 (24%), Positives = 93/220 (42%), Gaps = 39/220 (17%) Query: 18 IIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVER 77 ++ ++ +V E + ++G NG+GKSTL LL+G Y +G + +G R Sbjct: 37 ALKDVSFEVPRGERIGLIGRNGAGKSTLLRLLAGI--YPPDSGTVTVRG----------R 84 Query: 78 ASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGINM 137 S + L + E+ G + L RK +EK I +F +ELG Sbjct: 85 VSSLLGLGGGFNPELTGRENIYLNGRLLGLSRKEIDEKIDEIIEF--------SELG--- 133 Query: 138 DMLKRPLNLGFSGGEKKIAEILQMRL-------LEPSLCILDETDSGLDIDALKIAAQGV 190 D + P+ +S G ++ RL LEP + ++DE + D + + + Sbjct: 134 DFIDLPVK-TYSSG-------MKARLAFAIATALEPDILLIDEVLAVGDAAFQEKCQRRL 185 Query: 191 NALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 L Q ++ ++++H + + D VL GKI G Sbjct: 186 RELLKQGKTVILVSHDPSSIKRL-CDRALVLEKGKIRFDG 224 >gnl|CDD|33894 COG4138, BtuD, ABC-type cobalamin transport system, ATPase component [Coenzyme metabolism]. Length = 248 Score = 55.8 bits (134), Expect = 1e-08 Identities = 57/218 (26%), Positives = 99/218 (45%), Gaps = 30/218 (13%) Query: 22 LNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVERASKG 81 L+ +V E++ ++GPNG+GKSTL ++G G I + G+ + WS E A Sbjct: 18 LSGEVRAGEILHLVGPNGAGKSTLLARMAGMTSGS---GSIQFAGQPLEAWSATELARHR 74 Query: 82 IFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGINMDMLK 141 +L+ Q + P M + + L++ K R T + + L ++ D L Sbjct: 75 AYLSQQ---QTPPFAMPVWHYLTLHQPDKTR----------TELLNDVAGALALD-DKLG 120 Query: 142 RPLNLGFSGGE----KKIAEILQMR-LLEPS--LCILDETDSGLDIDALKIAAQGVNALR 194 R N SGGE + A +LQ+ P+ L +LDE + LD+ + ++AL Sbjct: 121 RSTN-QLSGGEWQRVRLAAVVLQITPDANPAGQLLLLDEPMNSLDVAQQSALDRLLSALC 179 Query: 195 SQDRSFLIITHYQRLLNYI--KPDTIHVLHNGKIIKTG 230 Q + ++ +H LN+ +L GK++ +G Sbjct: 180 QQGLAIVMSSHD---LNHTLRHAHRAWLLKRGKLLASG 214 >gnl|CDD|73056 cd03297, ABC_ModC_molybdenum_transporter, ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. 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 = 214 Score = 55.6 bits (134), Expect = 1e-08 Identities = 55/217 (25%), Positives = 92/217 (42%), Gaps = 25/217 (11%) Query: 22 LNLKVE-PSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSI---VER 77 L + + EV I G +G+GKSTL ++G + + G I+ G + D + Sbjct: 15 LKIDFDLNEEVTGIFGASGAGKSTLLRCIAGLE--KPDGGTIVLNGTVLFDSRKKINLPP 72 Query: 78 ASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGINM 137 + I L FQ P + + + L L +RK E + V ++ LG+ Sbjct: 73 QQRKIGLVFQQYALFPHLNVRENLAFGL--KRKRNREDRIS-------VDELLDLLGL-- 121 Query: 138 DMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQD 197 D L SGGEK+ + + +P L +LDE S LD AL++ L+ Sbjct: 122 DHLLNRYPAQLSGGEKQRVALARALAAQPELLLLDEPFSALD-RALRLQLL--PELKQIK 178 Query: 198 RSF----LIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 ++ + +TH Y+ D I V+ +G++ G Sbjct: 179 KNLNIPVIFVTHDLSEAEYLA-DRIVVMEDGRLQYIG 214 >gnl|CDD|73003 cd03244, ABCC_MRP_domain2, Domain 2 of the ABC subfamily C. This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.. Length = 221 Score = 55.1 bits (133), Expect = 2e-08 Identities = 53/232 (22%), Positives = 102/232 (43%), Gaps = 18/232 (7%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 +E KN+ + +++ ++ ++P E V I+G GSGKS+L LL+ + E+++G Sbjct: 3 IEFKNVSLRYRPNLPPVLKNISFSIKPGEKVGIVGRTGSGKSSL--LLALFRLVELSSGS 60 Query: 62 ILYKGESILDWSIVE-RASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 IL G I + + R+ I Q PV G I + +++EL Sbjct: 61 ILIDGVDISKIGLHDLRSRISIIP--QDPVLFSGTIRSNL------DPFGEYSDEELWQA 112 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDI 180 +++ L +D + S G++++ + + L + + +LDE + +D Sbjct: 113 LERVGLKEFVESLPGGLDTVVEEGGENLSVGQRQLLCLARALLRKSKILVLDEATASVDP 172 Query: 181 DALKIAAQGVNALRSQ--DRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 + + + +R D + L I H RL I D I VL G++++ Sbjct: 173 ETDALIQK---TIREAFKDCTVLTIAH--RLDTIIDSDRILVLDKGRVVEFD 219 >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 = 54.6 bits (131), Expect = 2e-08 Identities = 54/220 (24%), Positives = 88/220 (40%), Gaps = 33/220 (15%) Query: 17 EIIRGLNLKVEPSEVVAIMGPNGSGKSTL-SYLLSGHKDYEITAGDILYKGESILDWSIV 75 ++ NL + ++G NG GKSTL + +G + V Sbjct: 94 ILLNKANLTLSRGRRYGLVGRNGIGKSTLLRAIANGQV-------SGFH----------V 136 Query: 76 ERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGI 135 E+ +G V + F +A ++ A E + KI A LG Sbjct: 137 EQEVRGDDTEALQSVLESDTERLDF--LAEEKELLAGLTLEEIY-------DKILAGLGF 187 Query: 136 NMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRS 195 +M +P SGG + + + +P L +LDE + LD+ A+ A N L++ Sbjct: 188 TPEMQLQPTK-SLSGGWRMRLALARALFAKPDLLLLDEPTNHLDVVAV---AWLENYLQT 243 Query: 196 QDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIK-TGDYSI 234 + LI++H + LN + D IH L N K+ G+YS Sbjct: 244 WKITSLIVSHDRNFLNTVCTDIIH-LENLKLDYYKGNYSQ 282 Score = 48.8 bits (116), Expect = 1e-06 Identities = 47/210 (22%), Positives = 85/210 (40%), Gaps = 32/210 (15%) Query: 18 IIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVER 77 + L L E ++ +G NG GKSTL +L G D T G + R Sbjct: 379 WRKQLGLDRESDSRISRVGENGDGKSTLLKILKG--DLTPTRGIV----------GRHPR 426 Query: 78 ASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRK-VRKITAELGIN 136 F Q+ V+ FL +N A + E P T + +R+ G++ Sbjct: 427 LRIKYF--AQHHVD--------FLDKNVN----AVDFMEKSFPGKTEEEIRRHLGSFGLS 472 Query: 137 MDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQ 196 ++ + + SGG+K P L +LDE + LD D+L A+ + Sbjct: 473 GELALQSIA-SLSGGQKSRVAFAACTWNNPHLLVLDEPTNHLDRDSLGALAKALKNFNG- 530 Query: 197 DRSFLIITHYQRLLNYIKPDTIHVLHNGKI 226 ++++H + ++ + + + V+ +GK+ Sbjct: 531 --GVVLVSHDEEFISSLCKE-LWVVEDGKV 557 >gnl|CDD|72974 cd03215, ABC_Carb_Monos_II, This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.. Length = 182 Score = 54.7 bits (132), Expect = 2e-08 Identities = 51/227 (22%), Positives = 93/227 (40%), Gaps = 49/227 (21%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 +LE++ L K +R ++ +V E+V I G G+G++ L+ L G + +G Sbjct: 4 VLEVRGLSVKGA------VRDVSFEVRAGEIVGIAGLVGNGQTELAEALFGLR--PPASG 55 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 +I G+ + S + GI +P E RK +E L+ Sbjct: 56 EITLDGKPVTRRSPRDAIRAGIAY-------VP-------------EDRK----REGLVL 91 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDI 180 D + + N+ L+ SGG ++ + + +P + ILDE G+D+ Sbjct: 92 DLS---------VAENIA-----LSSLLSGGNQQKVVLARWLARDPRVLILDEPTRGVDV 137 Query: 181 DALKIAAQGVNALRSQDRSFLII-THYQRLLNYIKPDTIHVLHNGKI 226 A + + L ++ L+I + LL D I V++ G+I Sbjct: 138 GAKAEIYRLIRELADAGKAVLLISSELDELLG--LCDRILVMYEGRI 182 >gnl|CDD|73028 cd03269, ABC_putative_ATPase, This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. 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 = 210 Score = 54.4 bits (131), Expect = 3e-08 Identities = 49/230 (21%), Positives = 104/230 (45%), Gaps = 21/230 (9%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 LE++N+ + + ++ VE E+ ++GPNG+GK+T ++ G +G+ Sbjct: 1 LEVENVTKRF--GRVTALDDISFSVEKGEIFGLLGPNGAGKTTTIRMILGI--ILPDSGE 56 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNE-KELLIP 120 +L+ G+ LD + R Y E G+ + K+ + +Q + K L Sbjct: 57 VLFDGKP-LDIAARNR--------IGYLPEERGL----YPKMKVIDQLVYLAQLKGLKKE 103 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDI 180 + R++ + L + + + + S G ++ + + + +P L ILDE SGLD Sbjct: 104 EARRRIDEWLERLEL-SEYANKRVE-ELSKGNQQKVQFIAAVIHDPELLILDEPFSGLDP 161 Query: 181 DALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 +++ + L ++ ++ TH L+ + D + +L+ G+ + G Sbjct: 162 VNVELLKDVIRELARAGKTVILSTHQMELVEEL-CDRVLLLNKGRAVLYG 210 >gnl|CDD|73026 cd03267, ABC_NatA_like, Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake. NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.. Length = 236 Score = 53.7 bits (129), Expect = 5e-08 Identities = 52/199 (26%), Positives = 96/199 (48%), Gaps = 21/199 (10%) Query: 15 DTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSI 74 + E ++G++ +E E+V +GPNG+GK+T +LSG + T+G++ G ++ W Sbjct: 33 EVEALKGISFTIEKGEIVGFIGPNGAGKTTTLKILSGL--LQPTSGEVRVAG--LVPWKR 88 Query: 75 VERASKGIFLAF----QYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKIT 130 ++ + I + F Q ++P I L A+ + AR F +++ +++ Sbjct: 89 RKKFLRRIGVVFGQKTQLWWDLPVIDSFYLLA-AIYDLPPAR---------FKKRLDELS 138 Query: 131 AELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDA-LKIAAQG 189 L + ++L P+ S G++ AEI L EP + LDE GLD+ A I Sbjct: 139 ELLDLE-ELLDTPVR-QLSLGQRMRAEIAAALLHEPEILFLDEPTIGLDVVAQENIRNFL 196 Query: 190 VNALRSQDRSFLIITHYQR 208 R + + L+ +HY + Sbjct: 197 KEYNRERGTTVLLTSHYMK 215 >gnl|CDD|73005 cd03246, ABCC_Protease_Secretion, This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substrates ranges from inorganic ions, nutrients such as amino acids, sugars, or peptides, hydrophobic drugs, to large polypeptides, such as HlyA.. Length = 173 Score = 53.6 bits (129), Expect = 5e-08 Identities = 25/71 (35%), Positives = 42/71 (59%), Gaps = 2/71 (2%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 LE++N+ + + ++R ++ +EP E +AI+GP+GSGKSTL+ L+ G T+G Sbjct: 1 LEVENVSFRYPGAEPPVLRNVSFSIEPGESLAIIGPSGSGKSTLARLILGL--LRPTSGR 58 Query: 62 ILYKGESILDW 72 + G I W Sbjct: 59 VRLDGADISQW 69 Score = 40.5 bits (95), Expect = 4e-04 Identities = 23/81 (28%), Positives = 42/81 (51%), Gaps = 6/81 (7%) Query: 148 FSGGEKKIAEILQMRLL--EPSLCILDETDSGLDIDALKIAAQGVNALRSQDRSFLIITH 205 SGG+++ + R L P + +LDE +S LD++ + Q + AL++ + ++I H Sbjct: 97 LSGGQRQ--RLGLARALYGNPRILVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIAH 154 Query: 206 YQRLLNYIKPDTIHVLHNGKI 226 L D I VL +G++ Sbjct: 155 RPETLASA--DRILVLEDGRV 173 >gnl|CDD|35289 KOG0066, KOG0066, KOG0066, eIF2-interacting protein ABC50 (ABC superfamily) [Translation, ribosomal structure and biogenesis]. Length = 807 Score = 52.8 bits (126), Expect = 1e-07 Identities = 36/125 (28%), Positives = 63/125 (50%), Gaps = 4/125 (3%) Query: 125 KVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALK 184 + R+I A LG + +M +RP FSGG + + + LEP+L +LDE + LD++A+ Sbjct: 391 RARRILAGLGFSKEMQERPTT-KFSGGWRMRVSLARALFLEPTLLMLDEPTNHLDLNAVI 449 Query: 185 IAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEENGYA 244 N L+ ++ LI++H Q L+ + D IH+ + G+Y++ + Sbjct: 450 WLD---NYLQGWKKTLLIVSHDQGFLDSVCTDIIHLDNQKLHYYRGNYTLFKKMYAQKMQ 506 Query: 245 ELIKE 249 E K Sbjct: 507 EHEKN 511 Score = 47.8 bits (113), Expect = 3e-06 Identities = 44/193 (22%), Positives = 81/193 (41%), Gaps = 30/193 (15%) Query: 18 IIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVER 77 + + L+ ++ +AI+GPNG GKSTL LL G ++ D + L ++ Sbjct: 602 LFKKLDFGIDMDSRIAIVGPNGVGKSTLLKLLIG----KLDPNDGELRKNHRLRIGWFDQ 657 Query: 78 ASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGINM 137 + + PVE + + + E RK L T K++ + Sbjct: 658 HANEALNGEETPVEY----LQRKFNLPYQEARKQLGTFGLASHAHTIKIKDL-------- 705 Query: 138 DMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQD 197 SGG+K + ++ L P + ILDE + LDI+++ A+ +N Sbjct: 706 -----------SGGQKARVALAELALGGPDVLILDEPTNNLDIESIDALAEAINEYNG-- 752 Query: 198 RSFLIITHYQRLL 210 ++++H +RL+ Sbjct: 753 -GVIMVSHDERLI 764 >gnl|CDD|72992 cd03233, ABC_PDR_domain1, The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters. PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including 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 = 202 Score = 52.5 bits (126), Expect = 1e-07 Identities = 51/218 (23%), Positives = 85/218 (38%), Gaps = 38/218 (17%) Query: 16 TEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKD-YEITAGDILYKGESILDWSI 74 I++ + V+P E+V ++G GSG STL L+ + GDI Y G + Sbjct: 20 IPILKDFSGVVKPGEMVLVLGRPGSGCSTLLKALANRTEGNVSVEGDIHYNGIPYKE--F 77 Query: 75 VERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELG 134 E+ I + V P + + + L AL + + +F R Sbjct: 78 AEKYPGEIIYVSEEDVHFPTLTVRETLDFAL----RCKGN------EFVR---------- 117 Query: 135 INMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLD-IDALKIAAQGVNAL 193 G SGGE+K I + + S+ D + GLD AL+I + + + Sbjct: 118 ------------GISGGERKRVSIAEALVSRASVLCWDNSTRGLDSSTALEI-LKCIRTM 164 Query: 194 RSQDRSFLIITHYQRLLN-YIKPDTIHVLHNGKIIKTG 230 ++ ++ YQ Y D + VL+ G+ I G Sbjct: 165 ADVLKTTTFVSLYQASDEIYDLFDKVLVLYEGRQIYYG 202 >gnl|CDD|31322 COG1125, OpuBA, ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]. Length = 309 Score = 52.2 bits (125), Expect = 1e-07 Identities = 42/206 (20%), Positives = 94/206 (45%), Gaps = 13/206 (6%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 M+E +N+ + + + + +NL +E E + ++GP+GSGK+T +++ E T+G Sbjct: 1 MIEFENVSKR--YGNKKAVDDVNLTIEEGEFLVLIGPSGSGKTTTLKMINRL--IEPTSG 56 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 +IL GE I D VE + I Q P + + + IA + +++ + Sbjct: 57 EILIDGEDISDLDPVE-LRRKIGYVIQQIGLFPHLTVAE--NIATVPKLLGWDKERI--- 110 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLD- 179 ++ ++ +G++ SGG+++ + + +P + ++DE LD Sbjct: 111 --KKRADELLDLVGLDPSEYADRYPHELSGGQQQRVGVARALAADPPILLMDEPFGALDP 168 Query: 180 IDALKIAAQGVNALRSQDRSFLIITH 205 I ++ + + ++ + +TH Sbjct: 169 ITRKQLQEEIKELQKELGKTIVFVTH 194 >gnl|CDD|34224 COG4586, COG4586, ABC-type uncharacterized transport system, ATPase component [General function prediction only]. Length = 325 Score = 51.4 bits (123), Expect = 2e-07 Identities = 50/225 (22%), Positives = 93/225 (41%), Gaps = 28/225 (12%) Query: 17 EIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVE 76 E ++ ++ ++ E+V +G NG+GKST +L+G + V Sbjct: 38 EAVQDISFEIPKGEIVGFLGANGAGKSTTLKMLTG---------------LLLPTSGKVR 82 Query: 77 RASKGIFLAFQYPVEIPGIIMMQFLKI--ALNEQRKARNEKELL-IPD--FTRKVRKITA 131 K F + + G++M Q L++ L K + IPD F ++ +T Sbjct: 83 VNGKDPFRRREEYLRSIGLVMGQKLQLWWDLPALDSLEVLKLIYEIPDDEFAERLDFLTE 142 Query: 132 ELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDI---DALKIAAQ 188 L + LK P+ S G++ AE+ L P + LDE GLD+ ++ + Sbjct: 143 ILDLE-GFLKWPVR-KLSLGQRMRAELAAALLHPPKVLFLDEPTVGLDVNAQANIREFLK 200 Query: 189 GVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYS 233 N R + L+ TH + + D + ++ G+++ G + Sbjct: 201 EYNEERQA--TVLLTTHIFDDIATL-CDRVLLIDQGQLVFDGTLA 242 >gnl|CDD|34177 COG4525, TauB, ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]. Length = 259 Score = 51.4 bits (123), Expect = 2e-07 Identities = 44/208 (21%), Positives = 86/208 (41%), Gaps = 22/208 (10%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 ML + +L + ++L + E+V ++GP+G GK+TL L++G Sbjct: 3 MLNVSHLSLSYEGKPRSALEDVSLTIASGELVVVLGPSGCGKTTLLNLIAGFVTPS---- 58 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 +G L+ +E + FQ +P + ++ + L + + ++ Sbjct: 59 ----RGSIQLNGRRIEGPGAERGVVFQNEALLPWLNVIDNVAFGLQLRGIEKAQR----- 109 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDI 180 ++ A +G+ K L SGG ++ I + +EP L +LDE L Sbjct: 110 --REIAHQMLALVGLEGAEHKYIWQL--SGGMRQRVGIARALAVEPQLLLLDEPFGAL-- 163 Query: 181 DAL---KIAAQGVNALRSQDRSFLIITH 205 DAL ++ ++ + + L+ITH Sbjct: 164 DALTREQMQELLLDLWQETGKQVLLITH 191 >gnl|CDD|33889 COG4133, CcmA, ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]. Length = 209 Score = 50.3 bits (120), Expect = 5e-07 Identities = 43/179 (24%), Positives = 75/179 (41%), Gaps = 18/179 (10%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 MLE +NL + + + L+ + E + I GPNG+GK+TL +L+G AG Sbjct: 2 MLEAENLSCE--RGERTLFSDLSFTLNAGEALQITGPNGAGKTTLLRILAGL--LRPDAG 57 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 ++ ++GE I + + A Y PGI K L + Sbjct: 58 EVYWQGEPI------QNVRESYHQALLYLGHQPGI------KTELTALENLHFWQRFHGS 105 Query: 121 DFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLD 179 + + A++G+ + P+ S G+++ + ++ L L ILDE + LD Sbjct: 106 GNAATIWEALAQVGL-AGLEDLPVG-QLSAGQQRRVALARLWLSPAPLWILDEPFTALD 162 >gnl|CDD|73051 cd03292, ABC_FtsE_transporter, FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane. The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.. Length = 214 Score = 50.3 bits (120), Expect = 5e-07 Identities = 50/214 (23%), Positives = 92/214 (42%), Gaps = 14/214 (6%) Query: 15 DTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESI--LDW 72 T + G+N+ + E V ++GP+G+GKSTL L+ +K+ T+G I G+ + L Sbjct: 13 GTAALDGINISISAGEFVFLVGPSGAGKSTLLKLI--YKEELPTSGTIRVNGQDVSDLRG 70 Query: 73 SIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAE 132 + + I + FQ +P + + + AL E ++V Sbjct: 71 RAIPYLRRKIGVVFQDFRLLPDRNVYENVAFALEVTGVPPRE-------IRKRVPAALEL 123 Query: 133 LGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNA 192 +G++ R L SGGE++ I + + P++ I DE LD D + Sbjct: 124 VGLSHK--HRALPAELSGGEQQRVAIARAIVNSPTILIADEPTGNLDPDTTWEIMNLLKK 181 Query: 193 LRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKI 226 + + ++ TH + L++ + I L GK+ Sbjct: 182 INKAGTTVVVATHAKELVDTTRHRVI-ALERGKL 214 >gnl|CDD|35277 KOG0054, KOG0054, KOG0054, Multidrug resistance-associated protein/mitoxantrone resistance protein, ABC superfamily [Secondary metabolites biosynthesis, transport and catabolism]. Length = 1381 Score = 49.9 bits (119), Expect = 7e-07 Identities = 57/258 (22%), Positives = 115/258 (44%), Gaps = 32/258 (12%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 +E ++L + +++G++ ++P E V I+G G+GKS+L L + E G+ Sbjct: 1139 IEFEDLSLRYRPNLPLVLKGISFTIKPGEKVGIVGRTGAGKSSLILAL--FRLVEPAEGE 1196 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMM------QFLKIALNEQRKARNEK 115 IL G I + + S+ + + Q PV G + ++ + E + K Sbjct: 1197 ILIDGVDISKIGLHDLRSR-LSIIPQDPVLFSGTVRFNLDPFDEYSDDEIWEALERCQLK 1255 Query: 116 ELLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETD 175 + ++ + +E G N FS G++++ + + L + + +LDE Sbjct: 1256 D-VVSSLPGGLDSEVSEGGEN-----------FSVGQRQLLCLARALLRKSKILVLDEAT 1303 Query: 176 SGLD--IDALKIAAQGVNALRSQ--DRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGD 231 + +D DAL Q +R + D + L I H RL + D + VL G++++ Sbjct: 1304 ASVDPETDAL---IQ--KTIREEFKDCTVLTIAH--RLNTVMDSDRVLVLDAGRVVEFDS 1356 Query: 232 YSIALDLEENGYAELIKE 249 + L +++ ++ L+KE Sbjct: 1357 PAELLSDKDSLFSSLLKE 1374 Score = 42.6 bits (100), Expect = 1e-04 Identities = 57/254 (22%), Positives = 105/254 (41%), Gaps = 59/254 (23%) Query: 13 DTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTL-------SYLLSGHKDYEITAGDILYK 65 ++ ++ +N +++ ++VA++GP GSGKS+L LSG G + Y Sbjct: 531 ESPEPTLKDINFEIKKGQLVAVVGPVGSGKSSLLSAILGEMPKLSGSV---AVNGSVAYV 587 Query: 66 GES--ILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARN-EKELLIPD- 121 + I + ++ E + F P +E+R + + L D Sbjct: 588 PQQPWIQNGTVREN------ILFGSP---------------YDEERYDKVIKACALKKDL 626 Query: 122 --FTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLL--EPSLCILDETDSG 177 E GIN+ SGG+K I R + + + +LD+ S Sbjct: 627 EILPFGDLTEIGERGINL-----------SGGQK--QRISLARAVYQDADIYLLDDPLSA 673 Query: 178 LDIDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALD 237 +D K + + ++ +++TH + L + D I VL +GKI+++G Y + Sbjct: 674 VDAHVGKHIFEECIRGLLRGKTVILVTHQLQFLPHA--DQIIVLKDGKIVESGTYE---E 728 Query: 238 LEENG--YAELIKE 249 L ++G +AEL E Sbjct: 729 LLKSGGDFAELAHE 742 >gnl|CDD|33900 COG4148, ModC, ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]. Length = 352 Score = 49.9 bits (119), Expect = 7e-07 Identities = 60/239 (25%), Positives = 105/239 (43%), Gaps = 38/239 (15%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 MLE+ N R ++ + + N + + A+ GP+GSGK++L +++G +T Sbjct: 1 MLEL-NFRQRLGNFALDA----NFTLPARGITALFGPSGSGKTSLINMIAG-----LTRP 50 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKAR-NEKELLI 119 D +G L+ ++ A KGIFL P E I + F L R N + + Sbjct: 51 D---EGRIELNGRVLVDAEKGIFL----PPEKRRIGYV-FQDARLFPHYTVRGNLRYGMW 102 Query: 120 PDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLD 179 + ++ A LGI + + P L SGGEK+ I + L P L ++DE + LD Sbjct: 103 KSMRAQFDQLVALLGIEHLLDRYPGTL--SGGEKQRVAIGRALLTAPELLLMDEPLASLD 160 Query: 180 IDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLH-NGKIIKTGDYSIALD 237 + R I+ + +RL + I ++V H ++++ D + L+ Sbjct: 161 L----------------PRKREILPYLERLRDEINIPILYVSHSLDEVLRLADRVVVLE 203 >gnl|CDD|32710 COG2884, FtsE, Predicted ATPase involved in cell division [Cell division and chromosome partitioning]. Length = 223 Score = 49.4 bits (118), Expect = 1e-06 Identities = 53/230 (23%), Positives = 98/230 (42%), Gaps = 15/230 (6%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 M+ +N+ +K E +R ++ + E V + GP+G+GKSTL L+ G + T G Sbjct: 1 MIRFENV-SKAYPGGREALRDVSFHIPKGEFVFLTGPSGAGKSTLLKLIYG--EERPTRG 57 Query: 61 DILYKGESI--LDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELL 118 IL G + L + + I + FQ +P + + + + L K E Sbjct: 58 KILVNGHDLSRLKGREIPFLRRQIGVVFQDFRLLPDRTVYENVALPLRVIGKPPREIRRR 117 Query: 119 IPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGL 178 + + V L L P L SGGE++ I + + +P++ + DE L Sbjct: 118 VSEVLDLVG-----LKHKARAL--PSQL--SGGEQQRVAIARAIVNQPAVLLADEPTGNL 168 Query: 179 DIDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIK 228 D D + + + L+ TH L+N ++ + L +G++++ Sbjct: 169 DPDLSWEIMRLFEEINRLGTTVLMATHDLELVNRMRHRVLA-LEDGRLVR 217 >gnl|CDD|73053 cd03294, ABC_Pro_Gly_Bertaine, This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. 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 = 269 Score = 49.4 bits (118), Expect = 1e-06 Identities = 52/217 (23%), Positives = 100/217 (46%), Gaps = 18/217 (8%) Query: 19 IRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWS---IV 75 + ++L V E+ IMG +GSGKSTL ++ E T+G +L G+ I S + Sbjct: 40 VNDVSLDVREGEIFVIMGLSGSGKSTLLRCINRL--IEPTSGKVLIDGQDIAAMSRKELR 97 Query: 76 ERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGI 135 E K I + FQ +P +++ + L Q R E+E + + +G+ Sbjct: 98 ELRRKKISMVFQSFALLPHRTVLENVAFGLEVQGVPRAERE-------ERAAEALELVGL 150 Query: 136 NMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLD-IDALKIAAQGVNALR 194 K P L SGG ++ + + ++P + ++DE S LD + ++ + + Sbjct: 151 EGWEHKYPDEL--SGGMQQRVGLARALAVDPDILLMDEAFSALDPLIRREMQDELLRLQA 208 Query: 195 SQDRSFLIITHYQRLLNYIK-PDTIHVLHNGKIIKTG 230 ++ + ITH L ++ D I ++ +G++++ G Sbjct: 209 ELQKTIVFITH--DLDEALRLGDRIAIMKDGRLVQVG 243 >gnl|CDD|34235 COG4604, CeuD, ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]. Length = 252 Score = 49.0 bits (117), Expect = 1e-06 Identities = 50/235 (21%), Positives = 105/235 (44%), Gaps = 22/235 (9%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 M+ I+N+ ++ ++L + + +I+GPNG+GKSTL ++S + + +G Sbjct: 1 MITIENVSKSYGTKV--VLDDVSLDIPKGGITSIIGPNGAGKSTLLSMMS--RLLKKDSG 56 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGII--MMQFLKIALNEQRKARNEKELL 118 +I G + E A K L + + + ++ F + ++ R + ++ Sbjct: 57 EITIDGLELTSTPSKELAKKLSILKQENHINSRLTVRDLVGFGRFPYSQGRLTKEDR--- 113 Query: 119 IPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGL 178 R + + L + D+ R L+ SGG+++ A I + + +LDE + L Sbjct: 114 -----RIINEAIEYLHL-EDLSDRYLD-ELSGGQRQRAFIAMVLAQDTDYVLLDEPLNNL 166 Query: 179 DI-DALKIAAQGVNALRSQDRSFLIITHYQRLLNY--IKPDTIHVLHNGKIIKTG 230 D+ +++I ++ +++ H +N+ D I L NGK++K G Sbjct: 167 DMKHSVQIMKILRRLADELGKTIVVVLHD---INFASCYSDHIVALKNGKVVKQG 218 >gnl|CDD|33915 COG4175, ProV, ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]. Length = 386 Score = 49.2 bits (117), Expect = 1e-06 Identities = 47/164 (28%), Positives = 75/164 (45%), Gaps = 14/164 (8%) Query: 19 IRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWS---IV 75 + +L VE E+ IMG +GSGKSTL LL+ E T G+IL G+ I S + Sbjct: 44 VNDASLDVEEGEIFVIMGLSGSGKSTLVRLLNRL--IEPTRGEILVDGKDIAKLSAAELR 101 Query: 76 ERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGI 135 E K I + FQ +P +++ + L Q + E+E + + +G+ Sbjct: 102 ELRRKKISMVFQSFALLPHRTVLENVAFGLEVQGVPKAERE-------ERALEALELVGL 154 Query: 136 NMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLD 179 K P L SGG ++ + + +P + ++DE S LD Sbjct: 155 EGYADKYPNEL--SGGMQQRVGLARALANDPDILLMDEAFSALD 196 >gnl|CDD|34390 COG4778, PhnL, ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]. Length = 235 Score = 47.2 bits (112), Expect = 4e-06 Identities = 42/195 (21%), Positives = 78/195 (40%), Gaps = 17/195 (8%) Query: 18 IIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYK-GESILD----- 71 ++R ++L V E V + GP+GSGKSTL L +Y G IL + +D Sbjct: 26 VLRNVSLSVNAGECVVLHGPSGSGKSTLLRSLYA--NYLPDEGQILVRHEGEWVDLVTAE 83 Query: 72 -WSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKIT 130 ++E I Q+ IP + + + L + R K + Sbjct: 84 PREVLEVRRTTIGYVSQFLRVIPRVSALDVVAEPLLARGVPREVARA-------KAADLL 136 Query: 131 AELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGV 190 L + + FSGGE++ I + +++ + +LDE + LD + + + Sbjct: 137 TRLNLPERLWSLAPAT-FSGGEQQRVNIARGFIVDYPILLLDEPTASLDATNRAVVVELI 195 Query: 191 NALRSQDRSFLIITH 205 +++ + + I H Sbjct: 196 REAKARGAALVGIFH 210 >gnl|CDD|73038 cd03279, ABC_sbcCD, SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini.. Length = 213 Score = 46.0 bits (109), Expect = 1e-05 Identities = 44/202 (21%), Positives = 75/202 (37%), Gaps = 47/202 (23%) Query: 25 KVEPSEVVAIMGPNGSGKSTL----SYLLSGH---KDYEITAGDILYKGESILDWSIVER 77 ++ + + I GP G+GKST+ +Y L G + + GE + S + Sbjct: 24 GLDNNGLFLICGPTGAGKSTILDAITYALYGKTPRYGRQENLRSVFAPGEDTAEVSFTFQ 83 Query: 78 ASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGINM 137 + + G+ QF +I L Q + Sbjct: 84 LGGKKYRVERSR----GLDYDQFTRIVLLPQGEFD------------------------- 114 Query: 138 DMLKRPLNLGFSGGEKKIA---------EILQMRLLEP-SLCILDETDSGLDIDALKIAA 187 L RP++ SGGE +A E+LQ R +DE LD +AL+ A Sbjct: 115 RFLARPVS-TLSGGETFLASLSLALALSEVLQNRGGARLEALFIDEGFGTLDPEALEAVA 173 Query: 188 QGVNALRSQDRSFLIITHYQRL 209 + +R+++R +I+H + L Sbjct: 174 TALELIRTENRMVGVISHVEEL 195 >gnl|CDD|33864 COG4107, PhnK, ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]. Length = 258 Score = 45.7 bits (108), Expect = 1e-05 Identities = 62/244 (25%), Positives = 107/244 (43%), Gaps = 31/244 (12%) Query: 20 RGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILY--KGESILDWSIVER 77 R ++ + P EV+ I+G +GSGK+TL +SG AG + Y + D + Sbjct: 23 RDVSFDLYPGEVLGIVGESGSGKTTLLKCISGR--LTPDAGTVTYRMRDGQPRDLYTMSE 80 Query: 78 ASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKA-RNEKELLIPDFTRKVRKITAELGIN 136 A + L ++ + Q + L Q A N E L+ R I AE Sbjct: 81 AERRRLLRTEWG------FVHQNPRDGLRMQVSAGGNIGERLMAIGARHYGNIRAEAQDW 134 Query: 137 MDMLKRPLN------LGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGV 190 ++ ++ L+ FSGG ++ +I + + P L +DE GLD+ + A+ + Sbjct: 135 LEEVEIDLDRIDDLPRTFSGGMQQRLQIARNLVTRPRLVFMDEPTGGLDV---SVQARLL 191 Query: 191 NALRSQDRSF----LIITH---YQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEENGY 243 + LR R +I+TH RLL D + V+ G+++++G LD + Y Sbjct: 192 DLLRGLVRELGLAVVIVTHDLAVARLLA----DRLMVMKQGQVVESGLTDRVLDDPHHPY 247 Query: 244 AELI 247 +L+ Sbjct: 248 TQLL 251 >gnl|CDD|33903 COG4152, COG4152, ABC-type uncharacterized transport system, ATPase component [General function prediction only]. Length = 300 Score = 45.6 bits (108), Expect = 1e-05 Identities = 49/238 (20%), Positives = 99/238 (41%), Gaps = 33/238 (13%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 LEI+ + D + + ++ +V P E+ ++GPNG+GK+T ++ G E T G Sbjct: 2 ALEIEGVTKSF--GDKKAVDNISFEVPPGEIFGLLGPNGAGKTTTFRMILGL--LEPTEG 57 Query: 61 DILYKGESILDWSIVERASKGIFLAFQ---YPVEIPGIIMMQFLKIALNEQRKARNEKEL 117 +I + G + I R +L + YP + ++ + + + + + Sbjct: 58 EITWNGGPL-SQEIKNRIG---YLPEERGLYPKMTVEDQLKYLAELKGMPKAEIQKKLQA 113 Query: 118 LIPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSG 177 + +I + + L + G ++KI I + + EP L ILDE SG Sbjct: 114 WLERL-----EIVGKKTKKIKELSK-------GNQQKIQFISAV-IHEPELLILDEPFSG 160 Query: 178 LDIDALKIAAQGVNALRSQDRSFLIITH----YQRLLNYIKPDTIHVLHNGKIIKTGD 231 LD +++ + L+ + + + +H + L D + +L G+ + G Sbjct: 161 LDPVNVELLKDAIFELKEEGATIIFSSHRMEHVEELC-----DRLLMLKKGQTVLYGT 213 >gnl|CDD|72995 cd03236, ABC_RNaseL_inhibitor_domain1, The ATPase domain 1 of RNase L inhibitor. The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI s are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLIs have an N-terminal Fe-S domain and two nucleotide binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.. Length = 255 Score = 45.2 bits (107), Expect = 2e-05 Identities = 48/201 (23%), Positives = 88/201 (43%), Gaps = 14/201 (6%) Query: 26 VEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVERASKG---- 81 +V+ ++GPNG GKST +L+G ++ L K + DW + +G Sbjct: 23 PREGQVLGLVGPNGIGKSTALKILAG----KLKPN--LGKFDDPPDWDEILDEFRGSELQ 76 Query: 82 IFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGINMDMLK 141 + ++ I+ Q++ + + + K + + L D K+ ++ +L + +L Sbjct: 77 NYFTKLLEGDVKVIVKPQYVDL-IPKAVKGKVGELLKKKDERGKLDELVDQLELR-HVLD 134 Query: 142 RPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQDRSFL 201 R ++ SGGE + I + DE S LDI AA+ + L D L Sbjct: 135 RNID-QLSGGELQRVAIAAALARDADFYFFDEPSSYLDIKQRLNAARLIRELAEDDNYVL 193 Query: 202 IITHYQRLLNYIKPDTIHVLH 222 ++ H +L+Y+ D IH L+ Sbjct: 194 VVEHDLAVLDYLS-DYIHCLY 213 >gnl|CDD|72991 cd03232, ABC_PDR_domain2, The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters. PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including 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 = 192 Score = 45.2 bits (107), Expect = 2e-05 Identities = 46/222 (20%), Positives = 84/222 (37%), Gaps = 45/222 (20%) Query: 5 KNLRAKIVD--TDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDI 62 KNL + +++ ++ V+P + A+MG +G+GK+TL +L+G K + G+I Sbjct: 7 KNLNYTVPVKGGKRQLLNNISGYVKPGTLTALMGESGAGKTTLLDVLAGRKTAGVITGEI 66 Query: 63 LYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDF 122 L G + + + Q V P + + + L+ F Sbjct: 67 LINGR-----PLDKNFQRSTGYVEQQDVHSPNLTVREALR-------------------F 102 Query: 123 TRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDA 182 + +R ++ E ++K I +PS+ LDE SGLD A Sbjct: 103 SALLRGLSVE-------------------QRKRLTIGVELAAKPSILFLDEPTSGLDSQA 143 Query: 183 LKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNG 224 + + L ++ L H + K D + +L G Sbjct: 144 AYNIVRFLKKLADSGQAILCTIHQPSASIFEKFDRLLLLKRG 185 >gnl|CDD|72980 cd03221, ABCF_EF-3, ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.. Length = 144 Score = 44.7 bits (106), Expect = 2e-05 Identities = 21/78 (26%), Positives = 42/78 (53%), Gaps = 4/78 (5%) Query: 148 FSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQDRSFLIITHYQ 207 SGGEK + ++ L P+L +LDE + LD+++++ AL+ + ++++H + Sbjct: 71 LSGGEKMRLALAKLLLENPNLLLLDEPTNHLDLESIEALE---EALKEYPGTVILVSHDR 127 Query: 208 RLLNYIKPDTIHVLHNGK 225 L+ + I L +GK Sbjct: 128 YFLDQVATKIIE-LEDGK 144 Score = 42.4 bits (100), Expect = 1e-04 Identities = 17/61 (27%), Positives = 35/61 (57%), Gaps = 4/61 (6%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 +E++NL +++ ++L + P + + ++G NG+GKSTL L++G + E G Sbjct: 1 IELENLSKTY--GGKLLLKDISLTINPGDRIGLVGRNGAGKSTLLKLIAG--ELEPDEGI 56 Query: 62 I 62 + Sbjct: 57 V 57 >gnl|CDD|31438 COG1245, COG1245, Predicted ATPase, RNase L inhibitor (RLI) homolog [General function prediction only]. Length = 591 Score = 44.4 bits (105), Expect = 3e-05 Identities = 54/213 (25%), Positives = 89/213 (41%), Gaps = 38/213 (17%) Query: 26 VEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVERASKG---- 81 P +VV I+GPNG GKST +L+G E+ L + E W V + +G Sbjct: 97 PRPGKVVGILGPNGIGKSTALKILAG----ELKPN--LGRYEDPPSWDEVIKRFRGTELQ 150 Query: 82 ------------IFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKI 129 QY IP + +K + E K +E+ K ++ Sbjct: 151 NYFKKLYEGELRAVHKPQYVDLIP-----KVVKGKVGELLKKVDERG--------KFDEV 197 Query: 130 TAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQG 189 LG+ ++L R ++ SGGE + I L + + DE S LDI AA+ Sbjct: 198 VERLGLE-NVLDRDVS-ELSGGELQRVAIAAALLRDADVYFFDEPSSYLDIRQRLNAARV 255 Query: 190 VNALRSQDRSFLIITHYQRLLNYIKPDTIHVLH 222 + L + +++ H +L+Y+ D +H+L+ Sbjct: 256 IRELAEDGKYVIVVEHDLAVLDYLS-DFVHILY 287 Score = 37.9 bits (88), Expect = 0.003 Identities = 47/202 (23%), Positives = 84/202 (41%), Gaps = 42/202 (20%) Query: 21 GLNLKVEP-----SEVVAIMGPNGSGKSTLSYLLSGH-KDYEITAGD--ILYKGESILDW 72 L+VE EV+ I+GPNG GK+T LL+G K E + D + YK + I Sbjct: 354 DFKLEVEEGEIYDGEVIGILGPNGIGKTTFVKLLAGVIKPDEGSEEDLKVSYKPQYISP- 412 Query: 73 SIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAE 132 + G + + + + E++ P Sbjct: 413 ------------------DYDGTVEDLLRSAIRSAFGSSYFKTEIVKP------------ 442 Query: 133 LGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNA 192 L + D+L+RP++ SGGE + I E L +LDE + LD++ I A+ + Sbjct: 443 LNLE-DLLERPVD-ELSGGELQRVAIAAALSREADLYLLDEPSAYLDVEQRIIVAKVIRR 500 Query: 193 L-RSQDRSFLIITHYQRLLNYI 213 + +++ L++ H +++Y+ Sbjct: 501 FIENNEKTALVVDHDIYMIDYV 522 >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 = 44.0 bits (104), Expect = 4e-05 Identities = 44/214 (20%), Positives = 96/214 (44%), Gaps = 14/214 (6%) Query: 19 IRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVERA 78 + LNL++ E + ++GP+GSGK+T +++ + E T+G+I GE I + VE Sbjct: 17 VNNLNLEIAKGEFLVLIGPSGSGKTTTMKMIN--RLIEPTSGEIFIDGEDIREQDPVELR 74 Query: 79 SKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGINMD 138 K I Q P + + + + + + + + + ++ A +G++ Sbjct: 75 RK-IGYVIQQIGLFPHMTVEENIALVPKLLKWPKEKIR-------ERADELLALVGLDPA 126 Query: 139 MLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLD-IDALKIAAQGVNALRSQD 197 SGG+++ + + +P L ++DE LD I ++ + + Sbjct: 127 EFADRYPHELSGGQQQRVGVARALAADPPLLLMDEPFGALDPITRDQLQEEFKRLQQELG 186 Query: 198 RSFLIITHYQRLLNYIK-PDTIHVLHNGKIIKTG 230 ++ + +TH + + D I ++ NG+I++ G Sbjct: 187 KTIVFVTH--DIDEAFRLADRIAIMKNGEIVQVG 218 >gnl|CDD|73061 cd03369, ABCC_NFT1, Domain 2 of NFT1 (New full-length MRP-type transporter 1). NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.. Length = 207 Score = 43.3 bits (102), Expect = 6e-05 Identities = 50/231 (21%), Positives = 96/231 (41%), Gaps = 34/231 (14%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 +E++NL + +++ ++ KV+ E + I+G G+GKSTL +L+ + E G Sbjct: 7 IEVENLSVRYAPDLPPVLKNVSFKVKAGEKIGIVGRTGAGKSTL--ILALFRFLEAEEGK 64 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPD 121 I G I + E + + Q P + ++ L+ + +E+ Sbjct: 65 IEIDGIDISTIPL-EDLRSSLTIIPQDPT-----LFSGTIRSNLDPFDEYSDEE------ 112 Query: 122 FTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDI- 180 +++ E G+N S G++++ + + L P + +LDE + +D Sbjct: 113 -IYGALRVS-EGGLN-----------LSQGQRQLLCLARALLKRPRVLVLDEATASIDYA 159 Query: 181 -DALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTG 230 DAL Q + + L I H RL I D I V+ G++ + Sbjct: 160 TDAL---IQKTIREEFTNSTILTIAH--RLRTIIDYDKILVMDAGEVKEYD 205 >gnl|CDD|72990 cd03231, ABC_CcmA_heme_exporter, CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.. Length = 201 Score = 43.0 bits (101), Expect = 9e-05 Identities = 47/189 (24%), Positives = 79/189 (41%), Gaps = 21/189 (11%) Query: 18 IIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVER 77 + GL+ + E + + GPNGSGK+TL +L+G AG +L G LD+ Sbjct: 15 LFSGLSFTLAAGEALQVTGPNGSGKTTLLRILAGLS--PPLAGRVLLNGGP-LDFQRDSI 71 Query: 78 ASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDF-TRKVRKITAELGIN 136 A ++L PGI K L+ D +V + A +G+N Sbjct: 72 ARGLLYLGHA-----PGI------KTTLS----VLENLRFWHADHSDEQVEEALARVGLN 116 Query: 137 MDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQ 196 RP+ S G+++ + ++ L L ILDE + LD + A+ + ++ Sbjct: 117 -GFEDRPVA-QLSAGQQRRVALARLLLSGRPLWILDEPTTALDKAGVARFAEAMAGHCAR 174 Query: 197 DRSFLIITH 205 ++ TH Sbjct: 175 GGMVVLTTH 183 >gnl|CDD|73037 cd03278, ABC_SMC_barmotin, Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (formerly known as Rad18).. Length = 197 Score = 42.0 bits (99), Expect = 1e-04 Identities = 51/201 (25%), Positives = 77/201 (38%), Gaps = 70/201 (34%) Query: 28 PSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVERASKGIFLAFQ 87 P + AI+GPNGSGKS + ++I W + E+++K + Sbjct: 21 PPGLTAIVGPNGSGKSNI--------------------IDAIR-WVLGEQSAKSLRGE-- 57 Query: 88 YPVEIPGIIMMQFLKIALNEQRKARNEKEL-LIPDFTR---------KVRKITAELGINM 137 M + A +E RK N E+ L D + V +I G Sbjct: 58 ---------KMSDVIFAGSETRKPANFAEVTLTFDNSDGRYSIISQGDVSEIIEAPG--- 105 Query: 138 DMLKRPLNLG-FSGGEKK---IAEILQMRLLEPS-LCILDETDSGLDIDALKIAAQGVNA 192 K+ L SGGEK +A + + + PS C+LDE D+ LD N Sbjct: 106 ---KKVQRLSLLSGGEKALTALALLFAIFRVRPSPFCVLDEVDAALD---------DANV 153 Query: 193 LR--------SQDRSFLIITH 205 R S++ F++ITH Sbjct: 154 ERFARLLKEFSKETQFIVITH 174 >gnl|CDD|72986 cd03227, ABC_Class2, ABC-type Class 2 contains systems involved in cellular processes other than transport. These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.. Length = 162 Score = 41.9 bits (98), Expect = 1e-04 Identities = 25/70 (35%), Positives = 34/70 (48%), Gaps = 4/70 (5%) Query: 146 LGFSGGEK---KIAEILQMRLLEP-SLCILDETDSGLDIDALKIAAQGVNALRSQDRSFL 201 L SGGEK +A IL + L+P L ILDE D GLD + A+ + + + Sbjct: 76 LQLSGGEKELSALALILALASLKPRPLYILDEIDRGLDPRDGQALAEAILEHLVKGAQVI 135 Query: 202 IITHYQRLLN 211 +ITH L Sbjct: 136 VITHLPELAE 145 Score = 28.0 bits (62), Expect = 2.5 Identities = 10/18 (55%), Positives = 12/18 (66%) Query: 28 PSEVVAIMGPNGSGKSTL 45 + I GPNGSGKST+ Sbjct: 20 EGSLTIITGPNGSGKSTI 37 >gnl|CDD|33907 COG4161, ArtP, ABC-type arginine transport system, ATPase component [Amino acid transport and metabolism]. Length = 242 Score = 41.9 bits (98), Expect = 2e-04 Identities = 49/229 (21%), Positives = 99/229 (43%), Gaps = 28/229 (12%) Query: 16 TEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWS-- 73 + + + L E + ++GP+G+GKS+L +L+ E+ L + D+S Sbjct: 15 HQALFDITLDCPEGETLVLLGPSGAGKSSLLRVLN---LLEMPRSGTLNIAGNHFDFSKT 71 Query: 74 ----IVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKI 129 + + + + FQ P + + + L A ++ L + K+ Sbjct: 72 PSDKAIRDLRRNVGMVFQQYNLWPHLTVQENLIEAPCRVLGLSKDQAL------ARAEKL 125 Query: 130 TAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQG 189 L + + PL+L SGG+++ I + ++EP + + DE + LD + I AQ Sbjct: 126 LKRLRLKPYADRYPLHL--SGGQQQRVAIARALMMEPQVLLFDEPTAALDPE---ITAQI 180 Query: 190 VNALRSQDRSFL---IITHYQRLLNYIKPDTIHVLH--NGKIIKTGDYS 233 V+ ++ + + I+TH + + V++ NG I++ GD S Sbjct: 181 VSIIKELAETGITQVIVTHE---VEVARKTASRVVYMENGHIVEQGDAS 226 >gnl|CDD|73047 cd03288, ABCC_SUR2, The SUR domain 2. The sulfonylurea receptor SUR is an ATP binding cassette (ABC) protein of the ABCC/MRP family. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.. Length = 257 Score = 41.2 bits (96), Expect = 3e-04 Identities = 57/251 (22%), Positives = 114/251 (45%), Gaps = 20/251 (7%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 ++I +L + + +++ + ++P + V I G GSGKS+LS L+ + +I G Sbjct: 20 IKIHDLCVRYENNLKPVLKHVKAYIKPGQKVGICGRTGSGKSSLS--LAFFRMVDIFDGK 77 Query: 62 ILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEK---ELL 118 I+ G I + S+ + + Q P+ G I + L+ + K +++ L Sbjct: 78 IVIDGIDISKLPLHTLRSR-LSIILQDPILFSGSI-----RFNLDPECKCTDDRLWEALE 131 Query: 119 IPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGL 178 I V+ + L D + FS G++++ + + + + S+ I+DE + + Sbjct: 132 IAQLKNMVKSLPGGL----DAVVTEGGENFSVGQRQLFCLARAFVRKSSILIMDEATASI 187 Query: 179 DIDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDL 238 D+ I Q V DR+ + I H R+ + D + VL G +++ D L Sbjct: 188 DMATENI-LQKVVMTAFADRTVVTIAH--RVSTILDADLVLVLSRGILVEC-DTPENLLA 243 Query: 239 EENG-YAELIK 248 +E+G +A L++ Sbjct: 244 QEDGVFASLVR 254 >gnl|CDD|35283 KOG0060, KOG0060, KOG0060, Long-chain acyl-CoA transporter, ABC superfamily (involved in peroxisome organization and biogenesis) [Lipid transport and metabolism, General function prediction only]. Length = 659 Score = 41.1 bits (96), Expect = 3e-04 Identities = 46/205 (22%), Positives = 81/205 (39%), Gaps = 32/205 (15%) Query: 18 IIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVER 77 +I L+L+V + + I GP+G GK++L +L G + T G + + Sbjct: 450 LIENLSLEVPSGQNLLITGPSGCGKTSLLRVLGGL--WPSTGGKLTKPT---------DG 498 Query: 78 ASKGIFLAFQYPVEIPGIIMMQF---LKIALNEQRKARNEKELLIPDFTRKVRKITAELG 134 K +F Q P G + Q LK + + A +E L I + + + E G Sbjct: 499 GPKDLFFLPQRPYMTLGTLRDQVIYPLKAEDMDSKSASDEDILRILENVQLGHLLEREGG 558 Query: 135 IN-------MDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAA 187 ++ MD+L S GE++ ++ +P ILDE S + D + Sbjct: 559 LDQQVDWDWMDVL--------SPGEQQRLAFARLFYHKPKFAILDECTSAVTED---VEG 607 Query: 188 QGVNALRSQDRSFLIITHYQRLLNY 212 R +F+ + H + L + Sbjct: 608 ALYRKCREMGITFISVGHRKSLWKF 632 >gnl|CDD|34240 COG4615, PvdE, ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]. Length = 546 Score = 40.7 bits (95), Expect = 3e-04 Identities = 26/68 (38%), Positives = 43/68 (63%), Gaps = 3/68 (4%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 LE++N+R D + +NL ++ E+V ++G NGSGKSTL+ LL+G Y+ +G+ Sbjct: 323 LELRNVRFAYQDNAFHV-GPINLTIKRGELVFLIGGNGSGKSTLAMLLTGL--YQPQSGE 379 Query: 62 ILYKGESI 69 IL G+ + Sbjct: 380 ILLDGKPV 387 >gnl|CDD|33918 COG4178, COG4178, ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]. Length = 604 Score = 39.9 bits (93), Expect = 7e-04 Identities = 50/214 (23%), Positives = 85/214 (39%), Gaps = 28/214 (13%) Query: 1 MLEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAG 60 + ++NL + D T ++ LN +V P E + I G +G+GK++L L+G + +G Sbjct: 392 GITLENLSLRTPDGQT-LLSELNFEVRPGERLLITGESGAGKTSLLRALAGLWPWG--SG 448 Query: 61 DILYKGESILDWSIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIP 120 I +S L +FL Q P G + + ++ EL+ Sbjct: 449 RISMPADSAL-----------LFLP-QRPYLPQGTLREA---LCYPNAAPDFSDAELV-- 491 Query: 121 DFTRKVRKITAELGINMDMLKR--PLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGL 178 KV LG + L + SGGE++ ++ L +P LDE S L Sbjct: 492 AVLHKVG-----LGDLAERLDEEDRWDRVLSGGEQQRLAFARLLLHKPKWVFLDEATSAL 546 Query: 179 DIDALKIAAQGVNALRSQDRSFLIITHYQRLLNY 212 D + Q + D + + + H L N+ Sbjct: 547 DEETEDRLYQLLKE-ELPDATVISVGHRPTLWNF 579 >gnl|CDD|73050 cd03291, ABCC_CFTR1, The CFTR subfamily domain 1. The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits, or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.. Length = 282 Score = 39.6 bits (92), Expect = 8e-04 Identities = 58/238 (24%), Positives = 97/238 (40%), Gaps = 36/238 (15%) Query: 16 TEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIV 75 +++ +NLK+E E++AI G GSGK++L L+ G + E + G I + G Sbjct: 50 APVLKNINLKIEKGEMLAITGSTGSGKTSLLMLILG--ELEPSEGKIKHSGR-------- 99 Query: 76 ERASKGIFLAFQYPVEIPGIIMMQFL-KIALNEQRKARNEK----ELLIPDFTRKVRKIT 130 I + Q+ +PG I + ++ +E R K E I F K + Sbjct: 100 ------ISFSSQFSWIMPGTIKENIIFGVSYDEYRYKSVVKACQLEEDITKFPEKDNTVL 153 Query: 131 AELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALK-IAAQG 189 E GI + SGG++ + + + L +LD LD+ K I Sbjct: 154 GEGGITL-----------SGGQRARISLARAVYKDADLYLLDSPFGYLDVFTEKEIFESC 202 Query: 190 VNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIALDLEENGYAELI 247 V L + L+ + + L K D I +LH G G +S L + ++L+ Sbjct: 203 VCKLMANKTRILVTSKMEHLK---KADKILILHEGSSYFYGTFSELQSLRPDFSSKLM 257 >gnl|CDD|73048 cd03289, ABCC_CFTR2, The CFTR subfamily domain 2. The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.. Length = 275 Score = 39.6 bits (92), Expect = 8e-04 Identities = 22/67 (32%), Positives = 34/67 (50%), Gaps = 3/67 (4%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD 61 + +K+L AK + ++ ++ + P + V ++G GSGKST LLS T GD Sbjct: 3 MTVKDLTAKYTEGGNAVLENISFSISPGQRVGLLGRTGSGKST---LLSAFLRLLNTEGD 59 Query: 62 ILYKGES 68 I G S Sbjct: 60 IQIDGVS 66 >gnl|CDD|73009 cd03250, ABCC_MRP_domain1, Domain 1 of the ABC subfamily C. This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.. Length = 204 Score = 38.5 bits (90), Expect = 0.002 Identities = 58/214 (27%), Positives = 94/214 (43%), Gaps = 35/214 (16%) Query: 18 IIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVER 77 ++ +NL+V E+VAI+GP GSGKS+L L G + E +G + G Sbjct: 20 TLKDINLEVPKGELVAIVGPVGSGKSSLLSALLG--ELEKLSGSVSVPG----------- 66 Query: 78 ASKGIFLAFQYPVEIPGIIM--MQFLKIALNEQR-KARNEKELLIPDFTRKVRKITAELG 134 I Q P G I + F K +E+R + + L PD E+G Sbjct: 67 ---SIAYVSQEPWIQNGTIRENILFGK-PFDEERYEKVIKACALEPDLEILPDGDLTEIG 122 Query: 135 INMDMLKRPLNLGFSGGEKKIAEILQMRLL--EPSLCILDETDSGLDID-ALKIAAQGVN 191 ++ +NL SGG+K I R + + + +LD+ S +D I + Sbjct: 123 ------EKGINL--SGGQK--QRISLARAVYSDADIYLLDDPLSAVDAHVGRHIFENCIL 172 Query: 192 ALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGK 225 L +++ +++TH +LL + D I VL NG+ Sbjct: 173 GLLLNNKTRILVTHQLQLLPHA--DQIVVLDNGR 204 >gnl|CDD|72982 cd03223, ABCD_peroxisomal_ALDP, Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asymptomatic).. Length = 166 Score = 38.2 bits (89), Expect = 0.002 Identities = 38/200 (19%), Positives = 69/200 (34%), Gaps = 57/200 (28%) Query: 13 DTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDW 72 +++ L+ +++P + + I GP+G+GKS+ L Sbjct: 11 PDGRVLLKDLSFEIKPGDRLLITGPSGTGKSS---LF----------------------- 44 Query: 73 SIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAE 132 RA G++ + +P + FL QR P Sbjct: 45 ----RALAGLWPWGSGRIGMPEGEDLLFLP-----QR----------PYLPL-------- 77 Query: 133 LGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNA 192 G + L P + SGGE++ ++ L +P LDE S LD ++ Q Sbjct: 78 -GTLREQLIYPWDDVLSGGEQQRLAFARLLLHKPKFVFLDEATSALDEESEDRLYQ---L 133 Query: 193 LRSQDRSFLIITHYQRLLNY 212 L+ + + + H L + Sbjct: 134 LKELGITVISVGHRPSLWKF 153 >gnl|CDD|72998 cd03239, ABC_SMC_head, The structural maintenance of chromosomes (SMC) proteins are essential for successful chromosome transmission during replication and segregation of the genome in all organisms. SMCs are generally present as single proteins in bacteria, and as at least six distinct proteins in eukaryotes. The proteins range in size from approximately 110 to 170 kDa, and each has five distinct domains: amino- and carboxy-terminal globular domains, which contain sequences characteristic of ATPases, two coiled-coil regions separating the terminal domains , and a central flexible hinge. SMC proteins function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair, and epigenetic silencing of gene expression.. Length = 178 Score = 37.9 bits (88), Expect = 0.003 Identities = 18/67 (26%), Positives = 33/67 (49%), Gaps = 4/67 (5%) Query: 149 SGGEKKI---AEILQMRLLEPS-LCILDETDSGLDIDALKIAAQGVNALRSQDRSFLIIT 204 SGGEK + A I ++ ++PS +LDE D+ LD + + + + F++IT Sbjct: 96 SGGEKSLSALALIFALQEIKPSPFYVLDEIDAALDPTNRRRVSDMIKEMAKHTSQFIVIT 155 Query: 205 HYQRLLN 211 + + Sbjct: 156 LKKEMFE 162 Score = 27.1 bits (60), Expect = 5.0 Identities = 10/18 (55%), Positives = 13/18 (72%) Query: 28 PSEVVAIMGPNGSGKSTL 45 + AI+GPNGSGKS + Sbjct: 21 SNSFNAIVGPNGSGKSNI 38 >gnl|CDD|72996 cd03237, ABC_RNaseL_inhibitor_domain2, The ATPase domain 2 of RNase L inhibitor. The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.. Length = 246 Score = 36.8 bits (85), Expect = 0.006 Identities = 22/59 (37%), Positives = 30/59 (50%), Gaps = 10/59 (16%) Query: 21 GLNLKVEP-----SEVVAIMGPNGSGKSTLSYLLSG-----HKDYEITAGDILYKGESI 69 L+VE SEV+ I+GPNG GK+T +L+G D EI + YK + I Sbjct: 12 EFTLEVEGGSISESEVIGILGPNGIGKTTFIKMLAGVLKPDEGDIEIELDTVSYKPQYI 70 >gnl|CDD|35287 KOG0064, KOG0064, KOG0064, Peroxisomal long-chain acyl-CoA transporter, ABC superfamily [Lipid transport and metabolism]. Length = 728 Score = 36.1 bits (83), Expect = 0.010 Identities = 48/196 (24%), Positives = 78/196 (39%), Gaps = 19/196 (9%) Query: 18 IIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVER 77 ++ L ++EP + I GPNG GKS+L +L G + + G +L Sbjct: 497 LVPKLTFQIEPGMHLLITGPNGCGKSSLFRILGGL--WPVYNG-LLSI-----------P 542 Query: 78 ASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVR-KITAELGIN 136 IF Q P G + Q + +EQ K + + + V + + Sbjct: 543 RPNNIFYIPQRPYMSGGTLRDQIIYPDSSEQMKRKGYTDQDLEAILDIVHLEHILQREGG 602 Query: 137 MDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQ 196 D ++ ++ SGGEK+ + +M P +LDE S + ID + + A + Sbjct: 603 WDAVRDWKDV-LSGGEKQRMGMARMFYHRPKYALLDECTSAVSID---VEGKIFQAAKDA 658 Query: 197 DRSFLIITHYQRLLNY 212 S L ITH L Y Sbjct: 659 GISLLSITHRPSLWKY 674 >gnl|CDD|72997 cd03238, ABC_UvrA, The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.. Length = 176 Score = 36.0 bits (83), Expect = 0.011 Identities = 21/84 (25%), Positives = 37/84 (44%), Gaps = 5/84 (5%) Query: 132 ELGINMDMLKRPLNLGFSGGEK---KIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQ 188 ++G+ L + L+ SGGE K+A L +L ILDE +GL + + Sbjct: 73 DVGLGYLTLGQKLS-TLSGGELQRVKLASELFSEP-PGTLFILDEPSTGLHQQDINQLLE 130 Query: 189 GVNALRSQDRSFLIITHYQRLLNY 212 + L + ++I H +L+ Sbjct: 131 VIKGLIDLGNTVILIEHNLDVLSS 154 >gnl|CDD|35286 KOG0063, KOG0063, KOG0063, RNAse L inhibitor, ABC superfamily [RNA processing and modification]. Length = 592 Score = 35.7 bits (82), Expect = 0.012 Identities = 49/206 (23%), Positives = 93/206 (45%), Gaps = 28/206 (13%) Query: 28 PSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDW-----------SIVE 76 P +V+ ++G NG GKST +L+G + + D + IL + I+E Sbjct: 99 PGQVLGLVGTNGIGKSTALKILAGKQKPNLGRYDNPPDWQEILTYFRGSELQNYFTKILE 158 Query: 77 RASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGIN 136 K I + QY +IP + +K + ++E++ ++ +L +N Sbjct: 159 DNLKAI-IKPQYVDQIP-----RAVKGTVGSLLDRKDERDNK--------EEVCDQLDLN 204 Query: 137 MDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQ 196 ++L R + SGGE + I + + + + + DE S LD+ AA + +L + Sbjct: 205 -NLLDREVE-QLSGGELQRFAIAMVCVQKADVYMFDEPSSYLDVKQRLKAAITIRSLINP 262 Query: 197 DRSFLIITHYQRLLNYIKPDTIHVLH 222 DR +++ H +L+Y+ D I L+ Sbjct: 263 DRYIIVVEHDLSVLDYLS-DFICCLY 287 Score = 28.3 bits (63), Expect = 2.0 Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 4/45 (8%) Query: 29 SEVVAIMGPNGSGKSTLSYLLSGHK----DYEITAGDILYKGESI 69 SE++ ++G NG+GK+T +L+G EI ++ YK + I Sbjct: 367 SEIIVMLGENGTGKTTFIRMLAGRLKPDEGGEIPVLNVSYKPQKI 411 >gnl|CDD|73039 cd03280, ABC_MutS2, MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA structures or lesions results in ADP/ATP exchange.. Length = 200 Score = 34.8 bits (80), Expect = 0.023 Identities = 26/68 (38%), Positives = 30/68 (44%), Gaps = 6/68 (8%) Query: 148 FSGGEKKIAEILQMRLLEPSLCILDETDSGLDID---ALKIAAQGVNALRSQDRSFLIIT 204 FS K IA ILQ SL +LDE SG D AL IA + L + + T Sbjct: 92 FSSHMKNIARILQ-HADPDSLVLLDELGSGTDPVEGAALAIAI--LEELLERGALVIATT 148 Query: 205 HYQRLLNY 212 HY L Y Sbjct: 149 HYGELKAY 156 >gnl|CDD|72999 cd03240, ABC_Rad50, The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains. The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.. Length = 204 Score = 34.0 bits (78), Expect = 0.039 Identities = 51/228 (22%), Positives = 86/228 (37%), Gaps = 58/228 (25%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKST----LSYLLSGHKDYEI 57 L I+N+R+ ++ E L L I+G NG+GK+T L Y L+G Sbjct: 4 LSIRNIRSFHERSEIEFFSPLTL---------IVGQNGAGKTTIIEALKYALTGELPPN- 53 Query: 58 TAGDILYKGESILDWSIVERASKG-IFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKE 116 KG + I E + + LAF + N K+ Sbjct: 54 ------SKGGAHDPKLIREGEVRAQVKLAF-----------------------ENANGKK 84 Query: 117 LLIPDFTRKVRKITAELGINMDMLKRPL--NLGF-SGGEKKIAEILQMRLLEPSLC---- 169 I TR + + + + PL G SGGEK +A ++ L + Sbjct: 85 YTI---TRSLAILENVIFCHQGESNWPLLDMRGRCSGGEKVLASLIIRLALAETFGSNCG 141 Query: 170 --ILDETDSGLDIDALKIAAQGVNALRSQDRSF--LIITHYQRLLNYI 213 LDE + LD + ++ + + R ++F ++ITH + L++ Sbjct: 142 ILALDEPTTNLDEENIEESLAEIIEERKSQKNFQLIVITHDEELVDAA 189 >gnl|CDD|30527 COG0178, UvrA, Excinuclease ATPase subunit [DNA replication, recombination, and repair]. Length = 935 Score = 34.0 bits (78), Expect = 0.042 Identities = 34/121 (28%), Positives = 55/121 (45%), Gaps = 22/121 (18%) Query: 119 IPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEK---KIAEILQMRLLEPSLCILDETD 175 IP RK++ + ++G+ L +P SGGE K+A+ L R +L ILDE Sbjct: 796 IPKIARKLQTLV-DVGLGYIKLGQPATT-LSGGEAQRVKLAKELSKRSTGKTLYILDEPT 853 Query: 176 SGLDIDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIA 235 +GL D +K + ++ L + + ++I HN +IKT D+ I Sbjct: 854 TGLHFDDIKKLLEVLHRLVDKGNTVIVIE-----------------HNLDVIKTADWIID 896 Query: 236 L 236 L Sbjct: 897 L 897 Score = 27.4 bits (61), Expect = 3.7 Identities = 10/29 (34%), Positives = 23/29 (79%) Query: 19 IRGLNLKVEPSEVVAIMGPNGSGKSTLSY 47 ++ ++L++ +++V I G +GSGKS+L++ Sbjct: 16 LKNIDLEIPRNKLVVITGLSGSGKSSLAF 44 Score = 26.3 bits (58), Expect = 9.0 Identities = 8/27 (29%), Positives = 17/27 (62%) Query: 19 IRGLNLKVEPSEVVAIMGPNGSGKSTL 45 ++ +++++ + G +GSGKSTL Sbjct: 617 LKNIDVEIPLGVFTCVTGVSGSGKSTL 643 >gnl|CDD|36598 KOG1384, KOG1384, KOG1384, tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]. Length = 348 Score = 33.8 bits (77), Expect = 0.044 Identities = 21/54 (38%), Positives = 28/54 (51%), Gaps = 2/54 (3%) Query: 31 VVAIMGPNGSGKSTLSYLLSGHKDYEITAGDI--LYKGESILDWSIVERASKGI 82 VV IMG G+GKS L+ L+ EI D +YKG I+ I + KG+ Sbjct: 9 VVVIMGATGAGKSRLAVDLATRFPGEIINSDKMQVYKGLDIVTNKITLQERKGV 62 >gnl|CDD|73030 cd03271, ABC_UvrA_II, The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins and UvrB having one ATP binding site that is structurally related to that of helicases.. Length = 261 Score = 33.6 bits (77), Expect = 0.050 Identities = 32/121 (26%), Positives = 51/121 (42%), Gaps = 22/121 (18%) Query: 119 IPDFTRKVRKITAELGINMDMLKRPLNLGFSGGEK---KIAEILQMRLLEPSLCILDETD 175 IP RK++ ++G+ L +P SGGE K+A+ L R +L ILDE Sbjct: 143 IPKIARKLQ-TLCDVGLGYIKLGQPATT-LSGGEAQRIKLAKELSKRSTGKTLYILDEPT 200 Query: 176 SGLDIDALKIAAQGVNALRSQDRSFLIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIA 235 +GL +K + + L + + ++I HN +IK D+ I Sbjct: 201 TGLHFHDVKKLLEVLQRLVDKGNTVVVIE-----------------HNLDVIKCADWIID 243 Query: 236 L 236 L Sbjct: 244 L 244 Score = 26.7 bits (59), Expect = 6.3 Identities = 7/27 (25%), Positives = 17/27 (62%) Query: 19 IRGLNLKVEPSEVVAIMGPNGSGKSTL 45 ++ +++ + + + G +GSGKS+L Sbjct: 11 LKNIDVDIPLGVLTCVTGVSGSGKSSL 37 >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 = 32.9 bits (75), Expect = 0.082 Identities = 13/43 (30%), Positives = 22/43 (51%) Query: 31 VVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWS 73 ++ +MG +GSGKST+ L+ GD L+ +I + Sbjct: 1 IIVVMGVSGSGKSTVGKALAERLGAPFIDGDDLHPPANIAKMA 43 >gnl|CDD|72981 cd03222, ABC_RNaseL_inhibitor, The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.. Length = 177 Score = 32.7 bits (74), Expect = 0.091 Identities = 13/26 (50%), Positives = 20/26 (76%) Query: 26 VEPSEVVAIMGPNGSGKSTLSYLLSG 51 V+ EV+ I+GPNG+GK+T +L+G Sbjct: 22 VKEGEVIGIVGPNGTGKTTAVKILAG 47 Score = 29.2 bits (65), Expect = 1.1 Identities = 27/96 (28%), Positives = 45/96 (46%), Gaps = 6/96 (6%) Query: 142 RPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQ-DRSF 200 +P + SGGE + I L + + DE + LDI+ AA+ + L + ++ Sbjct: 66 KPQYIDLSGGELQRVAIAAALLRNATFYLFDEPSAYLDIEQRLNAARAIRRLSEEGKKTA 125 Query: 201 LIITHYQRLLNYIKPDTIHVLHNGKIIKTGDYSIAL 236 L++ H +L+Y+ D IHV + G Y IA Sbjct: 126 LVVEHDLAVLDYLS-DRIHVFEG----EPGVYGIAS 156 >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 = 32.8 bits (75), Expect = 0.091 Identities = 14/33 (42%), Positives = 20/33 (60%), Gaps = 1/33 (3%) Query: 31 VVAIMGPNGSGKSTLSYLLSGHKDYE-ITAGDI 62 ++AI GP GSGKST++ LL+ + G I Sbjct: 1 IIAIDGPAGSGKSTVAKLLAKKLGLPYLDTGGI 33 >gnl|CDD|33911 COG4170, SapD, ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]. Length = 330 Score = 32.7 bits (74), Expect = 0.098 Identities = 21/96 (21%), Positives = 47/96 (48%), Gaps = 7/96 (7%) Query: 1 MLEIKNLRAKIVDTD--TEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSG--HKDYE 56 +L+I+NL + + + + +++ + E+ ++G +GSGKS ++ + G ++ Sbjct: 3 LLDIRNLTIEFKTSQGWVKAVDRVSMTLNEGEIRGLVGESGSGKSLIAKAICGVNKDNWR 62 Query: 57 ITAGDILYKGESILDWSIVER---ASKGIFLAFQYP 89 +TA + + +L S ER + + FQ P Sbjct: 63 VTADRMRFDDIDLLRLSPRERRKLVGHNVSMIFQEP 98 >gnl|CDD|37566 KOG2355, KOG2355, KOG2355, Predicted ABC-type transport, ATPase component/CCR4 associated factor [General function prediction only, Transcription]. Length = 291 Score = 31.5 bits (71), Expect = 0.20 Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 1/50 (2%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSG 51 +E+ L+ K +D I NL + ++G NG+GK+TL +LSG Sbjct: 14 IEVSGLQFKYKVSDP-IFFDFNLDLPAGSRCLLVGANGAGKTTLLKILSG 62 >gnl|CDD|30768 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]. Length = 908 Score = 31.6 bits (71), Expect = 0.21 Identities = 22/75 (29%), Positives = 34/75 (45%), Gaps = 10/75 (13%) Query: 149 SGGEK---------KIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQDRS 199 SGGE+ ++++LQ R L LDE LD + L+ A+ + L S R Sbjct: 817 SGGERFLASLALRLALSDLLQGRARLELL-FLDEPFGTLDEERLEKLAEILEELLSDGRQ 875 Query: 200 FLIITHYQRLLNYIK 214 +II+H + L Sbjct: 876 IIIISHVEELKERAD 890 Score = 27.3 bits (60), Expect = 4.2 Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 8/44 (18%) Query: 2 LEIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTL 45 L +KN R+ D D E + S + I+GPNG+GKS++ Sbjct: 6 LRLKNFRS-FKDIDIEKLFD-------SGIFLIVGPNGAGKSSI 41 >gnl|CDD|37414 KOG2203, KOG2203, KOG2203, GTP-binding protein [General function prediction only]. Length = 772 Score = 31.5 bits (71), Expect = 0.23 Identities = 26/68 (38%), Positives = 35/68 (51%), Gaps = 13/68 (19%) Query: 31 VVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVERASKGIFLAFQYPV 90 VVA+MG SGKSTL L G E+ A +KG + +KGI+LA + Sbjct: 39 VVAVMGSQSSGKSTLLNHLFGTNFREMDA----FKGRQ--------QTTKGIWLARCAGI 86 Query: 91 EIPGIIMM 98 E P I++M Sbjct: 87 E-PCILVM 93 >gnl|CDD|31299 COG1102, Cmk, Cytidylate kinase [Nucleotide transport and metabolism]. Length = 179 Score = 31.4 bits (71), Expect = 0.24 Identities = 13/33 (39%), Positives = 21/33 (63%), Gaps = 1/33 (3%) Query: 31 VVAIMGPNGSGKSTLSYLLSGHKDYE-ITAGDI 62 V+ I G GSGK+T++ L+ H + ++AG I Sbjct: 2 VITISGLPGSGKTTVARELAEHLGLKLVSAGTI 34 >gnl|CDD|31389 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]. Length = 1163 Score = 31.2 bits (70), Expect = 0.29 Identities = 18/61 (29%), Positives = 34/61 (55%), Gaps = 5/61 (8%) Query: 149 SGGEKK---IAEILQMRLLEPS-LCILDETDSGLDIDALKIAAQGVNALRSQDRSFLIIT 204 SGGEK +A + ++ P+ +LDE D+ LD ++ A+ + + + + F++IT Sbjct: 1068 SGGEKSLTALALLFAIQKYRPAPFYVLDEVDAALDDANVERVARLIKEMSKETQ-FIVIT 1126 Query: 205 H 205 H Sbjct: 1127 H 1127 Score = 26.1 bits (57), Expect = 8.0 Identities = 10/18 (55%), Positives = 12/18 (66%) Query: 28 PSEVVAIMGPNGSGKSTL 45 AI+GPNGSGKS + Sbjct: 23 SPGFTAIVGPNGSGKSNI 40 >gnl|CDD|30631 COG0283, Cmk, Cytidylate kinase [Nucleotide transport and metabolism]. Length = 222 Score = 30.9 bits (70), Expect = 0.29 Identities = 11/25 (44%), Positives = 18/25 (72%) Query: 31 VVAIMGPNGSGKSTLSYLLSGHKDY 55 ++AI GP GSGKST++ +L+ + Sbjct: 6 IIAIDGPAGSGKSTVAKILAEKLGF 30 >gnl|CDD|73036 cd03277, ABC_SMC5_euk, Eukaryotic SMC5 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (formerly known as Rad18).. Length = 213 Score = 30.9 bits (70), Expect = 0.37 Identities = 50/208 (24%), Positives = 82/208 (39%), Gaps = 36/208 (17%) Query: 34 IMGPNGSGKSTL----SYLLSGHKDYEITA---GDILYKGESILDWSIVERASKGIFLAF 86 I+GPNGSGKS++ L G A G+ + +G D +E G Sbjct: 28 IIGPNGSGKSSIVCAICLGLGGKPKLLGRAKKVGEFVKRGC---DEGTIEIELYG----- 79 Query: 87 QYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGINMDMLKRPLNL 146 P I + QFL + + ELL+ K R+ + L Sbjct: 80 -NPGNIQVDNLCQFLPQDRVGEFAKLSPIELLV-----KFREGE-----QLQELDPHHQ- 127 Query: 147 GFSGGEKKIAEILQ-MRLLEPSLC---ILDETDSGLDIDALKIAAQGVNALRSQDRS--- 199 SGGE+ ++ +L + L E + C ++DE + G+D + + ++ + Sbjct: 128 --SGGERSVSTMLYLLSLQELTRCPFRVVDEINQGMDPTNERKVFDMLVETACKEGTSQY 185 Query: 200 FLIITHYQRLLNYIKPDTIHVLHNGKII 227 FLI LNY + T+ ++NG I Sbjct: 186 FLITPKLLPGLNYHEKMTVLCVYNGPHI 213 >gnl|CDD|38564 KOG3354, KOG3354, KOG3354, Gluconate kinase [Carbohydrate transport and metabolism]. Length = 191 Score = 30.8 bits (69), Expect = 0.41 Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 6/54 (11%) Query: 31 VVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVERASKGIFL 84 V+ +MG +GSGKST+ LS + GD L+ + VE+ ++GI L Sbjct: 14 VIVVMGVSGSGKSTIGKALSEELGLKFIDGDDLHPPAN------VEKMTQGIPL 61 >gnl|CDD|133282 cd01882, BMS1, Bms1. Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes. Length = 225 Score = 30.7 bits (70), Expect = 0.41 Identities = 11/20 (55%), Positives = 14/20 (70%) Query: 26 VEPSEVVAIMGPNGSGKSTL 45 P VVA++GP G GK+TL Sbjct: 36 EPPPLVVAVVGPPGVGKTTL 55 >gnl|CDD|30189 cd01428, ADK, Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.. Length = 194 Score = 30.2 bits (68), Expect = 0.52 Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 1/34 (2%) Query: 31 VVAIMGPNGSGKSTLSYLLSGHKDYE-ITAGDIL 63 + ++GP GSGK T + L+ I+ GD+L Sbjct: 1 RILLLGPPGSGKGTQAERLAKKYGLPHISTGDLL 34 >gnl|CDD|133260 cd01851, GBP, Guanylate-binding protein (GBP), N-terminal domain. Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein (GAP) cannot approach. Length = 224 Score = 30.4 bits (69), Expect = 0.54 Identities = 9/15 (60%), Positives = 11/15 (73%) Query: 31 VVAIMGPNGSGKSTL 45 VV++ GP SGKS L Sbjct: 9 VVSVFGPQSSGKSFL 23 >gnl|CDD|31396 COG1203, COG1203, Predicted helicases [General function prediction only]. Length = 733 Score = 30.1 bits (67), Expect = 0.56 Identities = 38/191 (19%), Positives = 63/191 (32%), Gaps = 18/191 (9%) Query: 17 EIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGD---ILYKGESILDWS 73 + + + + S +V + P G GK+ S +L+ E I + Sbjct: 202 KALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIED 261 Query: 74 IVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAEL 133 + RA K IF F + G + K L + L D +K+ L Sbjct: 262 MYRRA-KEIFGLF----SVIGKSLHSSSKEPLLLEPDQDILLTLTTNDSYKKL-----LL 311 Query: 134 GINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNAL 193 + + + L G + + LL SL ILDE D L + AL Sbjct: 312 ALIVVTPIQILIFSVKGF-----KFEFLALLLTSLVILDEVHLYADETMLAALLALLEAL 366 Query: 194 RSQDRSFLIIT 204 L+++ Sbjct: 367 AEAGVPVLLMS 377 >gnl|CDD|39383 KOG4181, KOG4181, KOG4181, Uncharacterized conserved protein [Function unknown]. Length = 491 Score = 30.1 bits (67), Expect = 0.60 Identities = 11/21 (52%), Positives = 15/21 (71%) Query: 31 VVAIMGPNGSGKSTLSYLLSG 51 V+ ++G GSGKSTL LL+ Sbjct: 190 VIGVLGGQGSGKSTLLSLLAA 210 >gnl|CDD|30191 cd01673, dNK, Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.. Length = 193 Score = 29.8 bits (67), Expect = 0.69 Identities = 12/27 (44%), Positives = 18/27 (66%) Query: 31 VVAIMGPNGSGKSTLSYLLSGHKDYEI 57 V+ + G G+GKSTL+ L+ H YE+ Sbjct: 1 VIVVEGNIGAGKSTLAKELAEHLGYEV 27 >gnl|CDD|31889 COG1703, ArgK, Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]. Length = 323 Score = 29.9 bits (67), Expect = 0.77 Identities = 13/42 (30%), Positives = 22/42 (52%) Query: 4 IKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTL 45 +++ R E++R L + + V+ I G G+GKSTL Sbjct: 26 VESRRPDHRALARELLRALYPRTGNAHVIGITGVPGAGKSTL 67 >gnl|CDD|33963 COG4240, COG4240, Predicted kinase [General function prediction only]. Length = 300 Score = 29.6 bits (66), Expect = 0.84 Identities = 13/22 (59%), Positives = 15/22 (68%) Query: 31 VVAIMGPNGSGKSTLSYLLSGH 52 +V I GP GSGKSTLS L+ Sbjct: 52 IVGISGPQGSGKSTLSALIVRL 73 >gnl|CDD|30909 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide transport and metabolism]. Length = 178 Score = 29.5 bits (66), Expect = 0.85 Identities = 15/35 (42%), Positives = 21/35 (60%), Gaps = 5/35 (14%) Query: 32 VAIMGPNGSGKSTLSYLLSGHKDYEIT---AGDIL 63 + I+GP G+GKSTL+ L+ K + GDIL Sbjct: 3 ILILGPPGAGKSTLAKKLA--KKLGLPHLDTGDIL 35 >gnl|CDD|173938 cd08179, NADPH_BDH, NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria. NADPH-dependent butanol dehydrogenase (BDH) is involved in the butanol and ethanol formation pathway of some bacteria. The fermentation process is characterized by an acid producing growth phase, followed by a solvent producing phase. The latter phase is associated with the induction of solventogenic enzymes such as butanol dehydrogenase. The activity of the enzymes require NADPH as cofactor, as well as divalent ions zinc or iron. This family is a member of the iron-containing alcohol dehydrogenase superfamily. Protein structure has a dehydroquinate synthase-like fold. Length = 375 Score = 29.5 bits (67), Expect = 0.85 Identities = 12/34 (35%), Positives = 18/34 (52%) Query: 102 KIALNEQRKARNEKELLIPDFTRKVRKITAELGI 135 K A ++R A KE + D VR++ +LGI Sbjct: 289 KDAEAKKRYAGLAKEEGVEDLIEAVRELNKKLGI 322 >gnl|CDD|33076 COG3265, GntK, Gluconate kinase [Carbohydrate transport and metabolism]. Length = 161 Score = 29.5 bits (66), Expect = 0.91 Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 6/50 (12%) Query: 35 MGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVERASKGIFL 84 MG +GSGKST+ L+ + GD L+ +I E+ S GI L Sbjct: 1 MGVSGSGKSTVGSALAERLGAKFIDGDDLHPPANI------EKMSAGIPL 44 >gnl|CDD|34791 COG5192, BMS1, GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]. Length = 1077 Score = 29.4 bits (65), Expect = 0.96 Identities = 11/18 (61%), Positives = 15/18 (83%) Query: 28 PSEVVAIMGPNGSGKSTL 45 P +VA++GP G+GKSTL Sbjct: 68 PPFIVAVVGPPGTGKSTL 85 >gnl|CDD|73034 cd03275, ABC_SMC1_euk, Eukaryotic SMC1 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (formerly known as Rad18).. Length = 247 Score = 29.4 bits (66), Expect = 0.96 Identities = 49/219 (22%), Positives = 87/219 (39%), Gaps = 49/219 (22%) Query: 33 AIMGPNGSGKSTL----SYLLSGHKDYEI---TAGDILYKGESILDWSIVERASKGIFLA 85 I+GPNGSGKS L S++L G K + D++Y+ + + S ++ Sbjct: 26 CIIGPNGSGKSNLMDAISFVL-GEKSSHLRSKNLKDLIYRA------RVGKPDSNSAYVT 78 Query: 86 FQYPVEIPGIIMMQFLKIALNEQRKAR-NEKELLIPDFTRKVRKI--------------- 129 Y E F +I R N K + + ++ ++ KI Sbjct: 79 AVY--EDDDGEEKTFRRIITGGSSSYRINGKVVSLKEYNEELEKINILVKARNFLVFQGD 136 Query: 130 TAELGINMDMLKR--PLNLGFSGGEKKIAE---ILQMRLLEPS-LCILDETDSGLD-IDA 182 + KR ++ SGGEK +A + + +P+ +LDE D+ LD + Sbjct: 137 VESIASKNPPGKRFRDMDN-LSGGEKTMAALALLFAIHSYQPAPFFVLDEVDAALDNTNV 195 Query: 183 LKIAAQGVNALRSQDRS---FLIITHYQRLLNYIKPDTI 218 K+A + +R Q F++I+ + + K D + Sbjct: 196 GKVA----SYIREQAGPNFQFIVISLKEEF--FSKADAL 228 >gnl|CDD|32701 COG2874, FlaH, Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]. Length = 235 Score = 29.4 bits (66), Expect = 0.98 Identities = 32/127 (25%), Positives = 58/127 (45%), Gaps = 17/127 (13%) Query: 9 AKIVDTDT-EIIRGLNLKVEPSEVVAIMGPNGSGKSTLS------YLLSGHKDY----EI 57 KI+ + E+ + L + ++ I G NG+GKS LS +L++G++ E+ Sbjct: 7 KKIIKSGNDELDKRLGGGIPVGSLILIEGDNGTGKSVLSQRFAYGFLMNGYRVTYVSTEL 66 Query: 58 TAGDILYKGESILDWSIVERASKGIFLAFQ---YPVEIPGIIMMQFLKIALNEQRKARNE 114 T + + + ES L + + + G L F PV + L + L + R E Sbjct: 67 TVREFIKQMES-LSYDVSDFLLSGRLLFFPVNLEPVNWGRRSARKLLDLLLEFIK--RWE 123 Query: 115 KELLIPD 121 K+++I D Sbjct: 124 KDVIIID 130 >gnl|CDD|35952 KOG0733, KOG0733, KOG0733, Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]. Length = 802 Score = 29.2 bits (65), Expect = 1.0 Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 5/50 (10%) Query: 24 LKVEPSEVVAIMGPNGSGKSTLSYLLSGHKD---YEITAGDIL--YKGES 68 L V P V + GP G GK++L+ ++G I+A +I+ GES Sbjct: 218 LGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVSGVSGES 267 >gnl|CDD|145545 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain. This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162 Score = 29.2 bits (65), Expect = 1.0 Identities = 19/68 (27%), Positives = 34/68 (50%), Gaps = 5/68 (7%) Query: 148 FSGGEKK---IAEILQMRLLEPS-LCILDETDSGLDIDALKIAAQGVNALRSQDRSFLII 203 SGGEK +A I ++ P+ +LDE D+ LD + A + S++ F++I Sbjct: 1079 LSGGEKTLVALALIFAIQKYRPAPFYLLDEIDAALDDQNVSRVANYLKE-LSKNAQFIVI 1137 Query: 204 THYQRLLN 211 + + +L Sbjct: 1138 SLREEMLE 1145 Score = 26.1 bits (57), Expect = 9.4 Identities = 10/11 (90%), Positives = 11/11 (100%) Query: 33 AIMGPNGSGKS 43 AI+GPNGSGKS Sbjct: 27 AIVGPNGSGKS 37 >gnl|CDD|33731 COG3950, COG3950, Predicted ATP-binding protein involved in virulence [General function prediction only]. Length = 440 Score = 29.2 bits (65), Expect = 1.1 Identities = 14/36 (38%), Positives = 20/36 (55%) Query: 10 KIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTL 45 KI + L++ SE I+GPNGSGK+T+ Sbjct: 5 KISLNNFRCFLNLDITFGESETTIIVGPNGSGKTTV 40 >gnl|CDD|73029 cd03270, ABC_UvrA_I, The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.. Length = 226 Score = 29.0 bits (65), Expect = 1.3 Identities = 9/29 (31%), Positives = 22/29 (75%) Query: 19 IRGLNLKVEPSEVVAIMGPNGSGKSTLSY 47 ++ +++ + +++V I G +GSGKS+L++ Sbjct: 11 LKNVDVDIPRNKLVVITGVSGSGKSSLAF 39 >gnl|CDD|133370 cd04170, EF-G_bact, Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group contains only bacterial members. Length = 268 Score = 29.1 bits (66), Expect = 1.4 Identities = 8/14 (57%), Positives = 13/14 (92%) Query: 32 VAIMGPNGSGKSTL 45 +A++G +GSGK+TL Sbjct: 2 IALVGHSGSGKTTL 15 >gnl|CDD|73031 cd03272, ABC_SMC3_euk, Eukaryotic SMC3 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (formerly known as Rad18).. Length = 243 Score = 28.3 bits (63), Expect = 1.9 Identities = 38/169 (22%), Positives = 71/169 (42%), Gaps = 25/169 (14%) Query: 34 IMGPNGSGKS----TLSYLLSGHKDY--EITAGDILYKGESILDWS----IVERASKGIF 83 ++G NGSGKS + ++LS + E +L++G S I+ S F Sbjct: 28 VVGRNGSGKSNFFAAIRFVLSDEYTHLREEQRQALLHEGSGPSVMSAYVEIIFDNSDNRF 87 Query: 84 LAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLI---------PDFTRKVRKITAELG 134 + V + I ++ + L+++ +N+ L+ P + KI + Sbjct: 88 PIDKEEVRLRRTIGLKKDEYFLDKKNVTKNDVMNLLESAGFSRSNPYYIVPQGKINSLTN 147 Query: 135 INMDMLKRPLNLGFSGGEKK---IAEILQMRLLEPS-LCILDETDSGLD 179 + D + L SGG+K +A I ++ +P+ + DE D+ LD Sbjct: 148 MKQDEQQEMQQL--SGGQKSLVALALIFAIQKCDPAPFYLFDEIDAALD 194 >gnl|CDD|144640 pfam01121, CoaE, Dephospho-CoA kinase. This family catalyses the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form Coenzyme A EC:2.7.1.24. This enzyme uses ATP in its reaction. Length = 179 Score = 28.4 bits (64), Expect = 2.0 Identities = 18/59 (30%), Positives = 29/59 (49%), Gaps = 5/59 (8%) Query: 31 VVAIMGPNGSGKSTLSYLLSGHK----DYEITAGDILYKGESILDWSIVERASKGIFLA 85 +V + G GSGKST++ L + D ++ A ++ G L +IV+ I LA Sbjct: 2 IVGLTGGIGSGKSTVANLFADLGVPIVDADVIARQVVEPGSPALA-AIVDHFGPDILLA 59 >gnl|CDD|34613 COG5008, PilU, Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]. Length = 375 Score = 28.4 bits (63), Expect = 2.1 Identities = 11/32 (34%), Positives = 19/32 (59%) Query: 23 NLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKD 54 +L + +V I+G GSGKST + G+++ Sbjct: 121 DLALAKRGLVIIVGATGSGKSTTMAAMIGYRN 152 >gnl|CDD|30598 COG0249, MutS, Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]. Length = 843 Score = 28.3 bits (63), Expect = 2.1 Identities = 17/45 (37%), Positives = 19/45 (42%), Gaps = 2/45 (4%) Query: 167 SLCILDETDSGLDI-DALKIAAQGVNALRSQDRSF-LIITHYQRL 209 SL ILDE G D L IA + L + L THY L Sbjct: 688 SLVILDEIGRGTSTYDGLAIAWAVLEYLHEKIGCRTLFATHYHEL 732 >gnl|CDD|30672 COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]. Length = 308 Score = 28.3 bits (63), Expect = 2.2 Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 2/41 (4%) Query: 31 VVAIMGPNGSGKSTLSYLLSGHKDYEITAGD--ILYKGESI 69 ++ I GP SGK+ L+ L+ EI + D +Y+G I Sbjct: 5 LIVIAGPTASGKTALAIALAKRLGGEIISLDSMQVYRGLDI 45 >gnl|CDD|33754 COG3973, COG3973, Superfamily I DNA and RNA helicases [General function prediction only]. Length = 747 Score = 28.1 bits (62), Expect = 2.3 Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 11/65 (16%) Query: 4 IKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKST-----LSYLLSGHKDYEIT 58 ++++ I EIIR E ++++ + G GSGK+T ++YLL G++ + Sbjct: 206 MRDIVETIQKEQNEIIRF-----EKNKILVVQGAAGSGKTTIALHRVAYLLYGYRG-PLQ 259 Query: 59 AGDIL 63 A +L Sbjct: 260 AKPVL 264 >gnl|CDD|30828 COG0480, FusA, Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]. Length = 697 Score = 27.9 bits (62), Expect = 2.4 Identities = 12/51 (23%), Positives = 25/51 (49%), Gaps = 2/51 (3%) Query: 32 VAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVERASKGI 82 + I+ +GK+TL+ + + G++ G + +DW E+ +GI Sbjct: 13 IGIVAHIDAGKTTLTERILFYTGIISKIGEVH-DGAATMDWMEQEQE-RGI 61 >gnl|CDD|32985 COG3172, NadR, Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]. Length = 187 Score = 28.0 bits (62), Expect = 2.5 Identities = 10/17 (58%), Positives = 12/17 (70%) Query: 29 SEVVAIMGPNGSGKSTL 45 + VAI+G SGKSTL Sbjct: 8 VKTVAILGGESSGKSTL 24 >gnl|CDD|145542 pfam02456, Adeno_IVa2, Adenovirus IVa2 protein. IVa2 protein can interact with the adenoviral packaging signal and that this interaction involves DNA sequences that have previously been demonstrated to be required for packaging. During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter. Length = 370 Score = 27.7 bits (62), Expect = 2.7 Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 2/33 (6%) Query: 22 LNLKVEPSEVVAIMGPNGSGKSTL-SYLLSGHK 53 LN ++P + + GP G GKS L LLS Sbjct: 81 LNYGLQPV-IGVVYGPTGCGKSQLLRNLLSCQL 112 >gnl|CDD|73237 cd00820, PEPCK_HprK, Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting that these two phosphotransferases have related functions.. Length = 107 Score = 27.7 bits (61), Expect = 2.9 Identities = 20/78 (25%), Positives = 29/78 (37%), Gaps = 9/78 (11%) Query: 21 GLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVE---- 76 G+ + V V I G +G GK+ L+ L K + + D + E D I Sbjct: 7 GVLVDVYGKVGVLITGDSGIGKTELALELIKRK-HRLVGDDNVEIREDSKDELIGRNPEL 65 Query: 77 ----RASKGIFLAFQYPV 90 R IFL + V Sbjct: 66 GLEIRLRLNIFLITKKTV 83 >gnl|CDD|31532 COG1341, COG1341, Predicted GTPase or GTP-binding protein [General function prediction only]. Length = 398 Score = 27.6 bits (61), Expect = 3.1 Identities = 14/45 (31%), Positives = 18/45 (40%), Gaps = 4/45 (8%) Query: 5 KNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLL 49 +I DT VV ++GP SGKSTL+ L Sbjct: 53 SEPLEEIADTWESKSESAGKV----GVVMVVGPVDSGKSTLTTYL 93 >gnl|CDD|147726 pfam05729, NACHT, NACHT domain. This NTPase domain is found in apoptosis proteins as well as those involved in MHC transcription activation. This family is closely related to pfam00931. Length = 165 Score = 27.7 bits (62), Expect = 3.2 Identities = 8/15 (53%), Positives = 10/15 (66%) Query: 31 VVAIMGPNGSGKSTL 45 V + G GSGK+TL Sbjct: 2 TVILQGEAGSGKTTL 16 >gnl|CDD|35440 KOG0219, KOG0219, KOG0219, Mismatch repair ATPase MSH2 (MutS family) [Replication, recombination and repair]. Length = 902 Score = 27.6 bits (61), Expect = 3.3 Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 3/47 (6%) Query: 1 MLEIKNLRAKIVDTDTE---IIRGLNLKVEPSEVVAIMGPNGSGKST 44 LE+K R +++ E I + L+ ++ I GPN GKST Sbjct: 614 RLELKQSRHPVLEGQDEIPFIPNDVVLEKGKCRMLIITGPNMGGKST 660 >gnl|CDD|133296 cd01896, DRG, The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins. GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding. Length = 233 Score = 27.5 bits (62), Expect = 3.4 Identities = 24/62 (38%), Positives = 30/62 (48%), Gaps = 12/62 (19%) Query: 32 VAIMGPNGSGKSTLSYLLSGHK----DYEIT-----AGDILYKGESI--LDW-SIVERAS 79 VA++G GKSTL L+ K YE T G + YKG I LD I+E A+ Sbjct: 3 VALVGFPSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVLEYKGAKIQLLDLPGIIEGAA 62 Query: 80 KG 81 G Sbjct: 63 DG 64 >gnl|CDD|37180 KOG1969, KOG1969, KOG1969, DNA replication checkpoint protein CHL12/CTF18 [Energy production and conversion, Replication, recombination and repair]. Length = 877 Score = 27.7 bits (61), Expect = 3.4 Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 3/37 (8%) Query: 28 PSEVVAIMGPNGSGKSTLSYLLSGHKDY---EITAGD 61 P +++ + GP G GK+TL+++++ Y EI A D Sbjct: 325 PKKILLLCGPPGLGKTTLAHVIAKQAGYSVVEINASD 361 >gnl|CDD|30197 cd02024, NRK1, Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+). This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.. Length = 187 Score = 27.6 bits (61), Expect = 3.5 Identities = 14/55 (25%), Positives = 21/55 (38%), Gaps = 9/55 (16%) Query: 31 VVAIMGPNGSGKSTLSYLLSGH---------KDYEITAGDILYKGESILDWSIVE 76 +V I G SGK+TL+ LL D+ +I W ++E Sbjct: 1 IVGISGVTNSGKTTLAKLLQRILPNCCVIHQDDFFKPEDEIPVDENGFKQWDVLE 55 >gnl|CDD|33504 COG3709, COG3709, Uncharacterized component of phosphonate metabolism [Inorganic ion transport and metabolism]. Length = 192 Score = 27.6 bits (61), Expect = 3.6 Identities = 8/21 (38%), Positives = 15/21 (71%) Query: 25 KVEPSEVVAIMGPNGSGKSTL 45 + ++A++GP+G+GK TL Sbjct: 1 RTFMGRLIAVVGPSGAGKDTL 21 >gnl|CDD|73033 cd03274, ABC_SMC4_euk, Eukaryotic SMC4 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (formerly known as Rad18).. Length = 212 Score = 27.5 bits (61), Expect = 3.7 Identities = 47/185 (25%), Positives = 82/185 (44%), Gaps = 39/185 (21%) Query: 33 AIMGPNGSGKSTL--SYLLS-GHKDYEITAG---DILYKGES--ILDWSIVERASKGIFL 84 AI+GPNGSGKS + S L G + ++ D+++ LD VE + Sbjct: 29 AIVGPNGSGKSNVIDSMLFVFGFRASKMRQKKLSDLIHNSAGHPNLDSCSVE-------V 81 Query: 85 AFQYPVEIPGIIMMQFLKIALNEQRKARNEKEL-LIPDFTRKVRKITAELGINMDMLKRP 143 FQ ++ P +++ I L+ R + E+ I +K K + L Sbjct: 82 HFQEIIDKP---LLKSKGIDLDHNRFLILQGEVEQIAQMPKKSWKNISNL---------- 128 Query: 144 LNLGFSGGEK---KIAEILQMRLLEPS-LCILDETDSGLDIDALKIAAQGVNALRSQDRS 199 SGGEK +A + + +P+ L ++DE D+ LD + I A + R+++ Sbjct: 129 -----SGGEKTLSSLALVFALHHYKPTPLYVMDEIDAALDFRNVSIVANYIKE-RTKNAQ 182 Query: 200 FLIIT 204 F++I+ Sbjct: 183 FIVIS 187 >gnl|CDD|73042 cd03283, ABC_MutS-like, MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA structures or lesions results in ADP/ATP exchange.. Length = 199 Score = 27.5 bits (61), Expect = 3.7 Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 2/43 (4%) Query: 3 EIKNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTL 45 E KNL ++ + + +++ E + I G N SGKST Sbjct: 1 EAKNLGHPLIGREKRVANDIDM--EKKNGILITGSNMSGKSTF 41 >gnl|CDD|36140 KOG0922, KOG0922, KOG0922, DEAH-box RNA helicase [RNA processing and modification]. Length = 674 Score = 27.5 bits (61), Expect = 3.7 Identities = 10/20 (50%), Positives = 15/20 (75%) Query: 25 KVEPSEVVAIMGPNGSGKST 44 VE ++V+ ++G GSGKST Sbjct: 62 AVEDNQVLIVIGETGSGKST 81 >gnl|CDD|35962 KOG0743, KOG0743, KOG0743, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 457 Score = 27.2 bits (60), Expect = 4.1 Identities = 8/22 (36%), Positives = 15/22 (68%) Query: 36 GPNGSGKSTLSYLLSGHKDYEI 57 GP G+GKS+ ++ + +Y+I Sbjct: 242 GPPGTGKSSFIAAMANYLNYDI 263 >gnl|CDD|133356 cd04156, ARLTS1, ARLTS1 subfamily. ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in high-risk familial breast cancer. Length = 160 Score = 27.4 bits (61), Expect = 4.3 Identities = 9/25 (36%), Positives = 14/25 (56%) Query: 32 VAIMGPNGSGKSTLSYLLSGHKDYE 56 V ++G + +GKSTL Y L + Sbjct: 2 VLLLGLDSAGKSTLLYKLKHAELVT 26 >gnl|CDD|33697 COG3910, COG3910, Predicted ATPase [General function prediction only]. Length = 233 Score = 27.2 bits (60), Expect = 4.3 Identities = 13/29 (44%), Positives = 17/29 (58%), Gaps = 1/29 (3%) Query: 18 IIRGLNLKVE-PSEVVAIMGPNGSGKSTL 45 R L ++E + + I G NGSGKSTL Sbjct: 25 AFRHLEERLEFRAPITFITGENGSGKSTL 53 >gnl|CDD|38289 KOG3079, KOG3079, KOG3079, Uridylate kinase/adenylate kinase [Nucleotide transport and metabolism]. Length = 195 Score = 27.1 bits (60), Expect = 4.4 Identities = 11/40 (27%), Positives = 22/40 (55%), Gaps = 1/40 (2%) Query: 25 KVEPSEVVAIMGPNGSGKSTLSYLLSGHKDY-EITAGDIL 63 K++ ++ ++G GSGK T + + ++AGD+L Sbjct: 4 KLDKPPIIFVLGGPGSGKGTQCEKIVEKYGFTHLSAGDLL 43 >gnl|CDD|144704 pfam01204, Trehalase, Trehalase. Trehalase (EC:3.2.1.28) is known to recycle trehalose to glucose. Trehalose is a physiological hallmark of heat-shock response in yeast and protects of proteins and membranes against a variety of stresses. This family is found in conjunction with pfam07492 in fungi. Length = 509 Score = 27.3 bits (61), Expect = 4.5 Identities = 12/45 (26%), Positives = 14/45 (31%) Query: 99 QFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGINMDMLKRP 143 KI R L P RKV+K L +L P Sbjct: 70 FLAKIEDPSLRLWAEHLHALWPALVRKVKKKVGLLPEASSLLPVP 114 >gnl|CDD|35441 KOG0220, KOG0220, KOG0220, Mismatch repair ATPase MSH4 (MutS family) [Replication, recombination and repair]. Length = 867 Score = 26.9 bits (59), Expect = 4.8 Identities = 14/40 (35%), Positives = 18/40 (45%), Gaps = 7/40 (17%) Query: 5 KNLRAKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKST 44 K K + +T + G N + I GPN SGKST Sbjct: 604 KISAEKPIANNTYVTEGSNFLI-------ITGPNMSGKST 636 >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 = 27.0 bits (60), Expect = 4.8 Identities = 10/26 (38%), Positives = 14/26 (53%), Gaps = 1/26 (3%) Query: 31 VVAIMGPNGSGKSTL-SYLLSGHKDY 55 ++ + GP+G GKSTL LL Sbjct: 1 LIVLSGPSGVGKSTLLKRLLEEFDPN 26 >gnl|CDD|38230 KOG3020, KOG3020, KOG3020, TatD-related DNase [Replication, recombination and repair]. Length = 296 Score = 26.8 bits (59), Expect = 5.0 Identities = 15/37 (40%), Positives = 20/37 (54%) Query: 140 LKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDS 176 LK L +GF+G K E L++ P +L ETDS Sbjct: 193 LKLGLYIGFTGCSLKTEENLEVLRSIPLERLLLETDS 229 >gnl|CDD|35241 KOG0018, KOG0018, KOG0018, Structural maintenance of chromosome protein 1 (sister chromatid cohesion complex Cohesin, subunit SMC1) [Cell cycle control, cell division, chromosome partitioning]. Length = 1141 Score = 26.8 bits (59), Expect = 5.2 Identities = 21/68 (30%), Positives = 38/68 (55%), Gaps = 10/68 (14%) Query: 142 RPLNLGFSGGEKKIAEI---LQMRLLEPS-LCILDETDSGLD-IDALKIAAQGVNALRSQ 196 RP++ SGGEK +A + + +P+ +LDE D+ LD + K+A + +RS Sbjct: 1047 RPMDN-LSGGEKTVAALALLFAIHSYKPAPFFVLDEIDAALDNTNIGKVA----SYIRSS 1101 Query: 197 DRSFLIIT 204 + F++I+ Sbjct: 1102 NFQFIVIS 1109 Score = 26.8 bits (59), Expect = 6.1 Identities = 11/15 (73%), Positives = 12/15 (80%) Query: 31 VVAIMGPNGSGKSTL 45 AI+GPNGSGKS L Sbjct: 27 FTAIIGPNGSGKSNL 41 >gnl|CDD|73032 cd03273, ABC_SMC2_euk, Eukaryotic SMC2 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (formerly known as Rad18).. Length = 251 Score = 26.7 bits (59), Expect = 5.4 Identities = 19/57 (33%), Positives = 31/57 (54%), Gaps = 6/57 (10%) Query: 128 KITAELGINMDMLKRPLNLGFSGGEKKIAE---ILQMRLLEPS-LCILDETDSGLDI 180 +IT L + + K L SGG++ + IL + L +P+ + ILDE D+ LD+ Sbjct: 149 RITKVLNMG-GVWKESLT-ELSGGQRSLVALSLILALLLFKPAPMYILDEVDAALDL 203 >gnl|CDD|36580 KOG1366, KOG1366, KOG1366, Alpha-macroglobulin [Posttranslational modification, protein turnover, chaperones]. Length = 1436 Score = 26.9 bits (59), Expect = 5.5 Identities = 31/133 (23%), Positives = 47/133 (35%), Gaps = 22/133 (16%) Query: 90 VEIPGIIMMQFLKIALNEQRKARNEKELLIP-DFTRKVRKITA-----ELGINMDMLKRP 143 VE GI + + ++ A E L +P D + LG +M+ L Sbjct: 871 VEPEGITQERNFSVLIDLSVSASKELSLGVPNDVVPGSERARISVVGDVLGPSMNNLSNL 930 Query: 144 LNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDIDALKIAAQGVNALRSQDRSFLII 203 L L + GE+ M P++ +L L Q L+ + FL Sbjct: 931 LRLPYGCGEQ------NMINFAPNIYVLKY---------LPKTNQLTPELKRKALKFLEQ 975 Query: 204 THYQRLLNYIKPD 216 YQR L Y + D Sbjct: 976 G-YQRQLTYKRAD 987 >gnl|CDD|38089 KOG2878, KOG2878, KOG2878, Predicted kinase [General function prediction only]. Length = 282 Score = 26.9 bits (59), Expect = 5.6 Identities = 14/28 (50%), Positives = 18/28 (64%), Gaps = 4/28 (14%) Query: 31 VVAIMGPNGSGKSTLSYLLSGHKDYEIT 58 V+ GP GSGKSTL + L DY++T Sbjct: 33 VIGFSGPQGSGKSTLVFAL----DYKLT 56 >gnl|CDD|31270 COG1072, CoaA, Panthothenate kinase [Coenzyme metabolism]. Length = 283 Score = 26.8 bits (59), Expect = 5.8 Identities = 10/34 (29%), Positives = 17/34 (50%), Gaps = 1/34 (2%) Query: 17 EIIRGLNLKVEPSE-VVAIMGPNGSGKSTLSYLL 49 E++R L + ++ I G GKST + +L Sbjct: 69 ELLRFLGTNNQQRPFIIGIAGSVAVGKSTTARIL 102 >gnl|CDD|31609 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and secretion]. Length = 407 Score = 26.8 bits (59), Expect = 5.9 Identities = 12/22 (54%), Positives = 16/22 (72%) Query: 23 NLKVEPSEVVAIMGPNGSGKST 44 NL VE V+A++GP G GK+T Sbjct: 197 NLIVEQKRVIALVGPTGVGKTT 218 >gnl|CDD|73049 cd03290, ABCC_SUR1_N, The SUR domain 1. The sulfonylurea receptor SUR is an ATP transporter of the ABCC/MRP family with tandem ATPase binding domains. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.. Length = 218 Score = 26.6 bits (58), Expect = 5.9 Identities = 42/200 (21%), Positives = 88/200 (44%), Gaps = 19/200 (9%) Query: 14 TDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWS 73 + + +N+++ ++ I+G G GKS+L LL+ + + G + + ++ + S Sbjct: 12 SGLATLSNINIRIPTGQLTMIVGQVGCGKSSL--LLAILGEMQTLEGKVHWSNKNESEPS 69 Query: 74 IVERASKGIFLAFQYPVEIPGIIMMQF-----LKIALNEQR-KARNEKELLIPDFTRKVR 127 S+ + + Y + P ++ N+QR KA + L PD Sbjct: 70 FEATRSRNRY-SVAYAAQKPWLLNATVEENITFGSPFNKQRYKAVTDACSLQPDIDLLPF 128 Query: 128 KITAELGINMDMLKRPLNLGFSGGEKKIAEILQMRLLEPSLCILDETDSGLDID-ALKIA 186 E+G +R +NL SGG+++ + + ++ LD+ S LDI + + Sbjct: 129 GDQTEIG------ERGINL--SGGQRQRICVARALYQNTNIVFLDDPFSALDIHLSDHLM 180 Query: 187 AQGV-NALRSQDRSFLIITH 205 +G+ L+ R+ +++TH Sbjct: 181 QEGILKFLQDDKRTLVLVTH 200 >gnl|CDD|147760 pfam05783, DLIC, Dynein light intermediate chain (DLIC). This family consists of several eukaryotic dynein light intermediate chain proteins. The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo. Length = 490 Score = 26.7 bits (59), Expect = 6.2 Identities = 10/24 (41%), Positives = 15/24 (62%) Query: 32 VAIMGPNGSGKSTLSYLLSGHKDY 55 V ++G +GSGK+TL L G + Sbjct: 48 VLVLGEDGSGKTTLIAKLQGVEHP 71 >gnl|CDD|30727 COG0378, HypB, Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]. Length = 202 Score = 26.7 bits (59), Expect = 6.3 Identities = 16/50 (32%), Positives = 21/50 (42%), Gaps = 4/50 (8%) Query: 20 RGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGH--KDYEIT--AGDILYK 65 L K P + + GP GSGK+ L +Y+I GDI K Sbjct: 4 DRLAEKNRPMLRIGVGGPPGSGKTALIEKTLRALKDEYKIAVITGDIYTK 53 >gnl|CDD|30917 COG0572, Udk, Uridine kinase [Nucleotide transport and metabolism]. Length = 218 Score = 26.7 bits (59), Expect = 6.5 Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 3/49 (6%) Query: 25 KVEPSEVVAIMGPNGSGKSTLSYLLS---GHKDYEITAGDILYKGESIL 70 K E ++ I G +GSGK+T++ LS G + + + D YK +S L Sbjct: 4 KPEKVIIIGIAGGSGSGKTTVAKELSEQLGVEKVVVISLDDYYKDQSHL 52 >gnl|CDD|146027 pfam03193, DUF258, Protein of unknown function, DUF258. Length = 161 Score = 26.8 bits (60), Expect = 6.5 Identities = 11/32 (34%), Positives = 14/32 (43%), Gaps = 2/32 (6%) Query: 31 VVAIMGPNGSGKSTLSYLLSGHKDYEITAGDI 62 + G +G GKSTL L D G+I Sbjct: 37 TSVLAGQSGVGKSTLLNALLPELDLRT--GEI 66 >gnl|CDD|147074 pfam04730, Agro_virD5, Agrobacterium VirD5 protein. The virD operon in Agrobacterium encodes a site-specific endonuclease, and a number of other poorly characterized products. This family represents the VirD5 protein. Length = 645 Score = 26.4 bits (58), Expect = 7.0 Identities = 13/33 (39%), Positives = 17/33 (51%) Query: 164 LEPSLCILDETDSGLDIDALKIAAQGVNALRSQ 196 L+PS I DE D D +AL +Q A +S Sbjct: 224 LDPSAWIPDEHDPFEDGEALGPPSQASTANKSN 256 >gnl|CDD|36214 KOG0996, KOG0996, KOG0996, Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics, Cell cycle control, cell division, chromosome partitioning]. Length = 1293 Score = 26.5 bits (58), Expect = 7.1 Identities = 10/13 (76%), Positives = 12/13 (92%) Query: 33 AIMGPNGSGKSTL 45 AI+GPNGSGKS + Sbjct: 112 AIVGPNGSGKSNV 124 >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 = 26.4 bits (58), Expect = 7.2 Identities = 12/22 (54%), Positives = 15/22 (68%) Query: 31 VVAIMGPNGSGKSTLSYLLSGH 52 VV I GP+GSGK+T + LS Sbjct: 1 VVGIAGPSGSGKTTFAKKLSNQ 22 >gnl|CDD|146108 pfam03306, AAL_decarboxy, Alpha-acetolactate decarboxylase. Length = 221 Score = 26.3 bits (59), Expect = 7.3 Identities = 12/24 (50%), Positives = 15/24 (62%) Query: 43 STLSYLLSGHKDYEITAGDILYKG 66 STLS L+ G D IT G++L G Sbjct: 5 STLSALMDGVYDGTITIGELLKHG 28 >gnl|CDD|36197 KOG0979, KOG0979, KOG0979, Structural maintenance of chromosome protein SMC5/Spr18, SMC superfamily [Chromatin structure and dynamics, Cell cycle control, cell division, chromosome partitioning, Replication, recombination and repair]. Length = 1072 Score = 26.5 bits (58), Expect = 7.4 Identities = 9/12 (75%), Positives = 12/12 (100%) Query: 34 IMGPNGSGKSTL 45 I+GPNGSGKS++ Sbjct: 47 IIGPNGSGKSSI 58 >gnl|CDD|112137 pfam03308, ArgK, ArgK protein. The ArgK protein acts as an ATPase enzyme and as a kinase, and phosphorylates periplasmic binding proteins involved in the LAO (lysine, arginine, ornithine)/AO transport systems. Length = 267 Score = 26.6 bits (59), Expect = 7.5 Identities = 12/30 (40%), Positives = 16/30 (53%) Query: 16 TEIIRGLNLKVEPSEVVAIMGPNGSGKSTL 45 E++R L + V I G G+GKSTL Sbjct: 16 RELLRRLMPLTGRAHRVGITGVPGAGKSTL 45 >gnl|CDD|133305 cd04105, SR_beta, Signal recognition particle receptor, beta subunit (SR-beta). SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this type of cancer. Length = 203 Score = 26.5 bits (59), Expect = 7.6 Identities = 8/19 (42%), Positives = 12/19 (63%) Query: 31 VVAIMGPNGSGKSTLSYLL 49 V ++GP+ SGK+ L L Sbjct: 2 TVLLLGPSDSGKTALFTKL 20 >gnl|CDD|110578 pfam01583, APS_kinase, Adenylylsulphate kinase. Enzyme that catalyses the phosphorylation of adenylylsulphate to 3'-phosphoadenylylsulfate. This domain contains an ATP binding P-loop motif. Length = 157 Score = 26.5 bits (59), Expect = 7.7 Identities = 9/19 (47%), Positives = 12/19 (63%) Query: 31 VVAIMGPNGSGKSTLSYLL 49 V G +GSGKST++ L Sbjct: 4 TVWFTGLSGSGKSTIANAL 22 >gnl|CDD|73035 cd03276, ABC_SMC6_euk, Eukaryotic SMC6 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (formerly known as Rad18).. Length = 198 Score = 26.3 bits (58), Expect = 7.8 Identities = 43/179 (24%), Positives = 65/179 (36%), Gaps = 40/179 (22%) Query: 34 IMGPNGSGKSTLSYLLSGHKDYEITAGDILYKGESILDWSIVERAS--KGIFLAFQYPVE 91 I+G NGSGKS + +TA I G++ S R S K + + + Sbjct: 26 IVGNNGSGKSAI-----------LTALTIGLGGKA----SDTNRGSSLKDLIKDGESSAK 70 Query: 92 IPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKITAELGINMDMLKRPLNLGFSGG 151 I + L Q N +L D R ++ L SGG Sbjct: 71 I---------TVTLKNQGLDANPLCVLSQDMARSFLTSNKAAVRDVKTL--------SGG 113 Query: 152 EKKIAEI-LQMRLLEPSLC---ILDETDSGLDIDALKIAAQGV--NALRSQDRSFLIIT 204 E+ + + L + L E LDE D +D+ KI+ + A + R F+ IT Sbjct: 114 ERSFSTVCLLLSLWEVMESPFRCLDEFDVFMDMVNRKISTDLLVKEAKKQPGRQFIFIT 172 >gnl|CDD|73002 cd03243, ABC_MutS_homologs, The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA structures or lesions results in ADP/ATP exchange.. Length = 202 Score = 26.3 bits (58), Expect = 7.9 Identities = 8/23 (34%), Positives = 13/23 (56%) Query: 23 NLKVEPSEVVAIMGPNGSGKSTL 45 ++ + ++ I GPN GKST Sbjct: 23 DINLGSGRLLLITGPNMGGKSTY 45 >gnl|CDD|57925 cd01854, YjeQ_engC, YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.. Length = 287 Score = 26.3 bits (58), Expect = 8.1 Identities = 9/25 (36%), Positives = 13/25 (52%) Query: 30 EVVAIMGPNGSGKSTLSYLLSGHKD 54 + ++G +G GKSTL L D Sbjct: 162 KTSVLVGQSGVGKSTLINALLPDLD 186 >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 = 26.4 bits (59), Expect = 8.3 Identities = 9/15 (60%), Positives = 11/15 (73%) Query: 36 GPNGSGKSTLSYLLS 50 GP G GKSTL+ L+ Sbjct: 5 GPPGCGKSTLAKYLA 19 >gnl|CDD|30898 COG0552, FtsY, Signal recognition particle GTPase [Intracellular trafficking and secretion]. Length = 340 Score = 26.4 bits (58), Expect = 8.6 Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 6/64 (9%) Query: 4 IKNLRAKIVDTDTEIIRGLNLKVEPS-EVVAIMGPNGSGKST-----LSYLLSGHKDYEI 57 ++ +I+ ++ L + E V+ +G NG GK+T YL K + Sbjct: 113 LREALIEILRPVDKVDLPLEIPKEKKPFVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLL 172 Query: 58 TAGD 61 AGD Sbjct: 173 AAGD 176 >gnl|CDD|29833 cd01918, HprK_C, HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.. Length = 149 Score = 26.4 bits (58), Expect = 8.6 Identities = 9/15 (60%), Positives = 11/15 (73%) Query: 32 VAIMGPNGSGKSTLS 46 V I GP+G GKS L+ Sbjct: 17 VLITGPSGIGKSELA 31 >gnl|CDD|34546 COG4938, COG4938, Uncharacterized conserved protein [Function unknown]. Length = 374 Score = 26.2 bits (57), Expect = 9.1 Identities = 26/120 (21%), Positives = 38/120 (31%), Gaps = 25/120 (20%) Query: 23 NLKVEPSEVVAIMGPNGSGKST----LSYLLSGHKDYEITAGDILYKG------ESILDW 72 N K+ + +GPN SGKST L + SG + E L W Sbjct: 15 NGKIILKPLTVFIGPNSSGKSTTIQSLYLIYSGLTRSYALPRLACAEYSRNKKWEEYLQW 74 Query: 73 ---SIVERASKGIFLAFQYPVEIPGIIMMQFLKIALNEQRKARNEKELLIPDFTRKVRKI 129 V KG F + +Q L + + E L + +V+ I Sbjct: 75 LQLRAVNVVEKGFRRVFG--------LNLQDLTT----RGASGEELILTVKHRRERVKYI 122 >gnl|CDD|73045 cd03286, ABC_MSH6_euk, MutS6 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA structures or lesions results in ADP/ATP exchange.. Length = 218 Score = 26.0 bits (57), Expect = 9.7 Identities = 9/37 (24%), Positives = 16/37 (43%) Query: 9 AKIVDTDTEIIRGLNLKVEPSEVVAIMGPNGSGKSTL 45 + + ++L ++ + GPN GKSTL Sbjct: 10 LNASTASSFVPNDVDLGATSPRILVLTGPNMGGKSTL 46 >gnl|CDD|30875 COG0529, CysC, Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]. Length = 197 Score = 26.0 bits (57), Expect = 9.8 Identities = 11/26 (42%), Positives = 16/26 (61%) Query: 24 LKVEPSEVVAIMGPNGSGKSTLSYLL 49 LK + V+ G +GSGKST++ L Sbjct: 18 LKGQKGAVIWFTGLSGSGKSTIANAL 43 >gnl|CDD|36637 KOG1423, KOG1423, KOG1423, Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms]. Length = 379 Score = 26.1 bits (57), Expect = 9.9 Identities = 10/22 (45%), Positives = 14/22 (63%) Query: 32 VAIMGPNGSGKSTLSYLLSGHK 53 VA++G GKSTL+ + G K Sbjct: 75 VAVIGAPNVGKSTLTNQMIGQK 96 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 0.319 0.139 0.386 Gapped Lambda K H 0.267 0.0626 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 2,930,214 Number of extensions: 155618 Number of successful extensions: 1120 Number of sequences better than 10.0: 1 Number of HSP's gapped: 956 Number of HSP's successfully gapped: 374 Length of query: 249 Length of database: 6,263,737 Length adjustment: 91 Effective length of query: 158 Effective length of database: 4,297,318 Effective search space: 678976244 Effective search space used: 678976244 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 56 (25.6 bits)