RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780270|ref|YP_003064683.1| ATP-dependent protease La [Candidatus Liberibacter asiaticus str. psy62] (820 letters) >gnl|CDD|30814 COG0466, Lon, ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]. Length = 782 Score = 1102 bits (2851), Expect = 0.0 Identities = 476/774 (61%), Positives = 607/774 (78%), Gaps = 4/774 (0%) Query: 26 IIYPLLPLRDIVVFPYMIVPLFVGREKSVRALDEAM-NSHKKIILVTQMNSNDENPIASS 84 I P+LPLRD+VVFP M++PLFVGREKS++AL+EAM N K I+LVTQ +++ + P Sbjct: 8 IELPVLPLRDVVVFPGMVIPLFVGREKSIKALEEAMKNDQKYILLVTQKDASTDEPTEDD 67 Query: 85 VYRIGTIVDIVQILRLPDGTVKILVEGSVRARIVEYIEREDFLEAITQVLPD-PTEDPVE 143 +Y +GT+ I+QIL+LPDGTVK+LVEG R RI + + E+F EA ++LPD P ++ E Sbjct: 68 LYEVGTLAKILQILKLPDGTVKVLVEGLQRVRISKLSDEEEFFEAEIELLPDEPIDEERE 127 Query: 144 LEALSRSVIAEFSNYIKLNKKISPEVIGITSQIEGFSKLADVIAANLSIKVAERQKILEA 203 +EAL RS+++EF Y KLNKKI PE + + I+ KLAD IAA+L +K+ E+Q+ILE Sbjct: 128 IEALVRSILSEFEEYAKLNKKIPPEELQSLNSIDDPGKLADTIAAHLPLKLEEKQEILET 187 Query: 204 VSVKERLEMLLVFMESEISVLQVEKRIRSRVKRQMEKTQREYYLHEQMKAIQKELDNGEE 263 + VKERLE LL +E EI +LQ+EKRIR +VK QMEK+QREYYL EQ+KAIQKEL ++ Sbjct: 188 LDVKERLEKLLDLLEKEIDLLQLEKRIRKKVKEQMEKSQREYYLREQLKAIQKELGEDDD 247 Query: 264 GRDEISDFEARISKIRLSKEAREKALSELQKLRQMNPLSAESSVVRNYLDWLLGVPWDKK 323 +DE+ + +I K++L KEA+EKA EL+KL M+P+SAE++V+RNYLDWLL +PW K+ Sbjct: 248 DKDEVEELREKIEKLKLPKEAKEKAEKELKKLETMSPMSAEATVIRNYLDWLLDLPWGKR 307 Query: 324 SKTKKNLDFAIRILDQDHFGLEKVKERIIEYLAVQMRVIKNKGLILCFVGPPGVGKTSLA 383 SK K +L A +ILD+DH+GLEKVKERI+EYLAVQ K KG ILC VGPPGVGKTSL Sbjct: 308 SKDKLDLKKAEKILDKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLG 367 Query: 384 QSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLKRAKRSNPLLLLDEID 443 +SIAKA GR++VR+SLGGV DEA+IRGHRRTYIG+MPG+IIQ +K+A NP+ LLDEID Sbjct: 368 KSIAKALGRKFVRISLGGVRDEAEIRGHRRTYIGAMPGKIIQGMKKAGVKNPVFLLDEID 427 Query: 444 KMGSDLRGDPSAALLEVLDPAQNSSFVDHYLEVEYDLSDVMFIMTANTLN-IPLPLMDRM 502 KMGS RGDP++ALLEVLDP QN++F DHYLEV YDLS VMFI TAN+L+ IP PL+DRM Sbjct: 428 KMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIATANSLDTIPAPLLDRM 487 Query: 503 EIIRIAGYTEEEKLQIAKNHLVKKVLTEHALKQEECCISDGVLLDIIRLFTHEAGVRSFE 562 E+IR++GYTE+EKL+IAK HL+ K L EH LK+ E I+D + DIIR +T EAGVR+ E Sbjct: 488 EVIRLSGYTEDEKLEIAKRHLIPKQLKEHGLKKGELTITDEAIKDIIRYYTREAGVRNLE 547 Query: 563 RALMKIARKAVTKIVKNS-DTTVSINENNLQDYLGVPRYKYGKIEGEDQVGIVTGLAWTE 621 R + KI RKA KI+ + V I+E NL+ YLGVP ++YGK E EDQVG+VTGLAWTE Sbjct: 548 REIAKICRKAAKKILLKKEKSIVKIDEKNLKKYLGVPVFRYGKAEEEDQVGVVTGLAWTE 607 Query: 622 VGGEILTVEGVIMPGKGEITITGNLKEIMKESILAASSYVRSKATTFGIIPSAFNEINIH 681 VGG++LT+E V MPGKG++T+TG+L ++MKES AA SYVRS+A GI P F + +IH Sbjct: 608 VGGDLLTIEAVKMPGKGKLTLTGSLGDVMKESAQAALSYVRSRAEKLGIDPDFFEKRDIH 667 Query: 682 VHVPEGATPKDGPSAGIAMATAIVSIMTCIPVYKNVAMTGELTLRGRVLPIGGLKEKLLA 741 +HVPEGATPKDGPSAGI MATA+VS++T PV +VAMTGE+TLRGRVLPIGGLKEKLLA Sbjct: 668 IHVPEGATPKDGPSAGITMATALVSLLTGKPVRADVAMTGEITLRGRVLPIGGLKEKLLA 727 Query: 742 ALRAGVTKVLIPEENIKDLMDIPENVKNGLEIIPVSFMGEVLKHALLRMPDPLE 795 A R G+ V+IP++N +DL +IP+NVK GLEI PV + EVLK AL+ P+P+ Sbjct: 728 AHRGGIKTVIIPKDNERDLEEIPDNVKEGLEIHPVKTIDEVLKLALVGNPEPIS 781 >gnl|CDD|37215 KOG2004, KOG2004, KOG2004, Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]. Length = 906 Score = 670 bits (1729), Expect = 0.0 Identities = 311/827 (37%), Positives = 479/827 (57%), Gaps = 69/827 (8%) Query: 29 PLLPLRDIVVFPYMIVPLFVGREKSVRALDEAMNSHKKII--LVTQMNSNDENPIAS--- 83 P LP+ +FP + V K + + E + + I + + +S+ ++ I S Sbjct: 70 PALPITRGPLFPGFYKRIEVKSPKVLALIREKLRRQQPYIGAFLLKDDSSGDSVITSINE 129 Query: 84 -----------------SVYRIGTIVDIVQI---LRLPDGTVKILVEGSVRARIVEYIER 123 +R I ++ I + +LV G R I E E Sbjct: 130 VYILEVFPGKDKLRMVLYPHRRIRITELAPISEGKEDAEVEYSLLVTGLSRLNITEMKEE 189 Query: 124 EDF---LEAITQVLPDPTEDPVELEALSRSVIAEFSNYIKLNKKISPEVIGITSQIEGFS 180 ++ + V +P + E++AL+ ++ + I +N +V ++ I + Sbjct: 190 KEAEVLSVEVENVKDEPFKKDEEIKALTSEILKTLRDIIAVNSLFREQVATLSQLIVEDN 249 Query: 181 --KLADVIAANLSIKVAERQKILEAVSVKERLEMLLVFMESEISVLQVEKRIRSRVKRQM 238 KLAD AA + E Q++LE +++RLE L ++ E+ + +++++I V+ ++ Sbjct: 250 PIKLADFGAAISGAEFHELQEVLEETDIEKRLEKALELLKKELELAKLQQKIGKEVEEKI 309 Query: 239 EKTQREYYLHEQMKAIQKELDNGEEGRDEISD-FEARISKIRLSKEAREKALSELQKLRQ 297 ++ REY L EQ+KAI+KEL ++ +D + + F RI +++ + EL KL+ Sbjct: 310 KQDHREYLLREQLKAIKKELGIEKDDKDALVEKFRERIKSLKMPDHVLKVIDEELTKLKL 369 Query: 298 MNPLSAESSVVRNYLDWLLGVPWDKKSKTKKNLDFAIRILDQDHFGLEKVKERIIEYLAV 357 + P S+E +V RNYLDWL +PW K S +L A ILD+DH+G+E VKERI+E++AV Sbjct: 370 LEPSSSEFNVTRNYLDWLTSLPWGKSSTENLDLARAKEILDEDHYGMEDVKERILEFIAV 429 Query: 358 QMRVIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIG 417 +G ILCFVGPPGVGKTS+A+SIA+A R++ R S+GG+ D A+I+GHRRTY+G Sbjct: 430 GKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTDVAEIKGHRRTYVG 489 Query: 418 SMPGRIIQSLKRAKRSNPLLLLDEIDKMGSDLRGDPSAALLEVLDPAQNSSFVDHYLEVE 477 +MPG+IIQ LK+ K NPL+L+DE+DK+GS +GDP++ALLE+LDP QN++F+DHYL+V Sbjct: 490 AMPGKIIQCLKKVKTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVP 549 Query: 478 YDLSDVMFIMTANTLN-IPLPLMDRMEIIRIAGYTEEEKLQIAKNHLVKKVLTEHALKQE 536 DLS V+FI TAN ++ IP PL+DRME+I ++GY EEK++IA+ +L+ + L + LK E Sbjct: 550 VDLSKVLFICTANVIDTIPPPLLDRMEVIELSGYVAEEKVKIAERYLIPQALKDCGLKPE 609 Query: 537 ECCISDGVLLDIIRLFTHEAGVRSFERALMKIARKAVTKIVKNSDT-------------- 582 + ISD LL +I + EAGVR+ ++ + KI RK K+V+ ++ Sbjct: 610 QVKISDDALLALIERYCREAGVRNLQKQIEKICRKVALKVVEGENSKEESAEKNGRESTE 669 Query: 583 ---------------------TVSINENNLQDYLGVPRYKYGKIEGEDQVGIVTGLAWTE 621 + I+E+NLQD LG P + ++ G+V GLAWT Sbjct: 670 KSIEEAESSTSGADLLPEMPENIEIDESNLQDILGPPVFTSERMYEVTPPGVVMGLAWTA 729 Query: 622 VGGEILTVEGVIMPGKGE--ITITGNLKEIMKESILAASSYVRSKATTFGIIPSAFNEIN 679 +GG L VE +M G G+ + ITG L ++MKES A ++ R+ + + Sbjct: 730 MGGSTLYVETSLMRGLGDGSLEITGQLGDVMKESAQIAYTWARAFLSKKEPENKFLENSD 789 Query: 680 IHVHVPEGATPKDGPSAGIAMATAIVSIMTCIPVYKNVAMTGELTLRGRVLPIGGLKEKL 739 IH+HVPEGATPKDGPSAG+ M TA++S+ PV +++AMTGE+TL G+VLP+GG+KEK Sbjct: 790 IHLHVPEGATPKDGPSAGVTMVTALLSLALGKPVRQDLAMTGEVTLTGKVLPVGGIKEKT 849 Query: 740 LAALRAGVTKVLIPEENIKDLMDIPENVKNGLEIIPVSFMGEVLKHA 786 +AA R+GV ++ PE N +D ++PENVK GLE+ +V + A Sbjct: 850 IAARRSGVKTIIFPEANRRDFEELPENVKEGLEVHFAETYEDVFEAA 896 >gnl|CDD|114104 pfam05362, Lon_C, Lon protease (S16) C-terminal proteolytic domain. The Lon serine proteases must hydrolyse ATP to degrade protein substrates. In Escherichia coli, these proteases are involved in turnover of intracellular proteins, including abnormal proteins following heat-shock. The active site for protease activity resides in a C-terminal domain. The Lon proteases are classified as family S16 in Merops. Length = 205 Score = 353 bits (909), Expect = 9e-98 Identities = 139/205 (67%), Positives = 169/205 (82%) Query: 585 SINENNLQDYLGVPRYKYGKIEGEDQVGIVTGLAWTEVGGEILTVEGVIMPGKGEITITG 644 +I NL+ YLGVPR++Y + E EDQVG+VTGLAWTEVGG++LT+E IMPGKG++T+TG Sbjct: 1 TITAKNLEKYLGVPRFRYEEAEKEDQVGVVTGLAWTEVGGDLLTIEATIMPGKGKLTLTG 60 Query: 645 NLKEIMKESILAASSYVRSKATTFGIIPSAFNEINIHVHVPEGATPKDGPSAGIAMATAI 704 L ++MKES AA SYVRS+A GI P F + +IH+HVPEGATPKDGPSAG+ MATA+ Sbjct: 61 QLGDVMKESAQAALSYVRSRAEELGIDPDFFEKKDIHIHVPEGATPKDGPSAGVTMATAL 120 Query: 705 VSIMTCIPVYKNVAMTGELTLRGRVLPIGGLKEKLLAALRAGVTKVLIPEENIKDLMDIP 764 VS +T IPV K+VAMTGE+TLRGRVLPIGGLKEKLLAA RAG+ V+IP+EN KDL +IP Sbjct: 121 VSALTGIPVRKDVAMTGEITLRGRVLPIGGLKEKLLAAHRAGIKTVIIPKENEKDLEEIP 180 Query: 765 ENVKNGLEIIPVSFMGEVLKHALLR 789 ENV+ GLEIIPV + EVLKHAL+ Sbjct: 181 ENVREGLEIIPVEHVDEVLKHALVG 205 >gnl|CDD|145377 pfam02190, LON, ATP-dependent protease La (LON) domain. Length = 193 Score = 161 bits (408), Expect = 1e-39 Identities = 73/195 (37%), Positives = 116/195 (59%), Gaps = 6/195 (3%) Query: 28 YPLLPLRDIVVFPYMIVPLFVGREKSVRALDEAMNSHKKIILVTQMNSNDENPIASSVYR 87 PLLPLR++V+FP M++PL V + + A++EA+ S + + + S + P +Y Sbjct: 2 LPLLPLRNVVLFPGMVLPLHVFEPRYIAAIEEALESDRPFFGLV-LVSQKDPPSPDDLYE 60 Query: 88 IGTIVDIVQILRLPDGTVKILVEGSVRARIVEYIERED-FLEAITQVLP--DPTEDPVEL 144 +GT+ I+QI++LPDG +KILVEG R RI+E E+E+ +L A + LP + E L Sbjct: 61 VGTLARIIQIVKLPDGRLKILVEGLERFRILELEEQEEPYLVAEVEDLPEEESEELEEAL 120 Query: 145 EALSRSVIAEFSNYIKLNKKISPEVIGITSQIEGFSKLADVIAANLSIKVAERQKILEAV 204 EAL + +I + L + E++ IE +LAD+IA+ L + E+Q++LE + Sbjct: 121 EALVKELIELLKELLPLL--LPLELLLKIDNIEDPGRLADLIASLLPLSPEEKQELLETL 178 Query: 205 SVKERLEMLLVFMES 219 VKERLE LL ++ Sbjct: 179 DVKERLEKLLELLKR 193 >gnl|CDD|31266 COG1067, LonB, Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]. Length = 647 Score = 105 bits (262), Expect = 7e-23 Identities = 67/248 (27%), Positives = 110/248 (44%), Gaps = 33/248 (13%) Query: 568 IARKAVTKIVKNSDTTVS-INENNLQDYLGVPRYKYGKIEGEDQVGIVTGLAWTEVG--- 623 I + V + ++ + + E ++D G + EGE +VG + GL+ EV Sbjct: 387 ITAEDVEEALQKRELREGQLAERYIEDIKG--GQILIETEGE-RVGQINGLSVIEVPGHH 443 Query: 624 --GEILTVEGVIMPGKGEITITGNLKEIMKESILAASSYVRSKATTFGIIPSAFNEINIH 681 GE + + G GEI E + +I ++ F + ++ IH Sbjct: 444 AFGEPARISCAVHKGDGEIVDIERKAE-LAGNIHNKGMMIK---QAFLMSILNYD---IH 496 Query: 682 VHVPEGAT------PKDGPSAGIAMATAIVSIMTCIPVYKNVAMTGELTLRGRVLPIGGL 735 + DG SA +A A A++S ++ IPV +++A+TG + G V P+GG+ Sbjct: 497 IPFSASLVFEQSYGEVDGDSASLAEACALISALSKIPVDQDIAITGSIDQFGEVQPVGGV 556 Query: 736 KEKL-------LAALRAGVTKVLIPEENIKDLM---DIPENVKNG-LEIIPVSFMGEVLK 784 EK+ AA G V+IP+ N+KDL D+ + VK G EI PV + E L+ Sbjct: 557 NEKIEGFFRVCQAAGLTGEQGVIIPKANVKDLSLSEDVVKAVKEGKFEIWPVETIDEALE 616 Query: 785 HALLRMPD 792 L + Sbjct: 617 LLLGKGEG 624 >gnl|CDD|143797 pfam00004, AAA, ATPase family associated with various cellular activities (AAA). AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes. Length = 131 Score = 97.7 bits (244), Expect = 1e-20 Identities = 37/152 (24%), Positives = 58/152 (38%), Gaps = 31/152 (20%) Query: 369 LCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLK 428 L GPPG GKT+LA+++AK G ++ +S + Y+G R+ + + Sbjct: 1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSEL---------VSKYVGESEKRLRELFE 51 Query: 429 RAKRSNP-LLLLDEIDKMGSD-------LRGDPSAALLEVLDPAQNSSFVDHYLEVEYDL 480 AK+ P ++ +DEID + LL LD + L Sbjct: 52 AAKKLAPCVIFIDEIDALAGSRGSGGDSESRRVVNQLLTELDGFTS------------SL 99 Query: 481 SDVMFIMTANTLNIPLP--LMDRMEIIRIAGY 510 S V+ I N + P L R + I Sbjct: 100 SKVIVIAATNRPDKLDPALLRGRFDRIIEFPL 131 >gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.. Length = 151 Score = 72.6 bits (178), Expect = 4e-13 Identities = 33/164 (20%), Positives = 60/164 (36%), Gaps = 24/164 (14%) Query: 348 KERIIEYLAVQMRVIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQ---YVRMSLGGVYD 404 + A++ + L GPPG GKT+LA++IA R ++ ++ + + Sbjct: 1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLE 60 Query: 405 EADIRGHRRTYIGSMPGRIIQSLKRAKRSNPLLLLDEIDKMGSDLRGDPSAALLEVLDPA 464 + ++ + K +L +DEID + ALL VL Sbjct: 61 GLVVAELFGHFL-----VRLLFELAEKAKPGVLFIDEIDSLSRGA----QNALLRVL--- 108 Query: 465 QNSSFVDHYLEVEYDLSDVMFIMTANTLN---IPLPLMDRMEII 505 + ++ D +V I N + L DR++I Sbjct: 109 ------ETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIR 146 >gnl|CDD|32634 COG2802, COG2802, Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]. Length = 221 Score = 72.3 bits (177), Expect = 5e-13 Identities = 42/198 (21%), Positives = 82/198 (41%), Gaps = 11/198 (5%) Query: 29 PLLPLRDIVVFPYMIVPLFVGREKSVRALDEAMNSHKKI-ILVTQMNSNDENPIASSVYR 87 PL PL V+ P ++PL + + + + + ++ +++ + + Sbjct: 13 PLFPLPGAVLLPGGLLPLNIFEPRYLAMVRTCLAEGRRFGVVLIDRGREVGGGLPPELSD 72 Query: 88 IGTIVDIVQILRLPDGTVKILVEGSVRARIVEYI-EREDFLEAITQVLPDPTEDPVELEA 146 +G + I + L DG ILV G R R++E + + + + A PD DP E Sbjct: 73 VGCLARITEFEELGDGRYLILVRGGQRFRVLEELADDDPYRRARVPFWPDLPSDPDGAEE 132 Query: 147 LSRSVIAEFSNYIKLNKKISPEVIGITSQIEGFSK-----LADVIAANLSIKVAERQKIL 201 + R + A + + + + + E + + LA+ + L AE+Q +L Sbjct: 133 VDRRLDALLMRAA----RAYLQRLELLADWESYERASNADLANRLYMLLPFDPAEKQALL 188 Query: 202 EAVSVKERLEMLLVFMES 219 EA + R E L+ +E Sbjct: 189 EAPDLPTRAERLIRLLEQ 206 >gnl|CDD|31058 COG0714, COG0714, MoxR-like ATPases [General function prediction only]. Length = 329 Score = 67.1 bits (163), Expect = 2e-11 Identities = 51/213 (23%), Positives = 81/213 (38%), Gaps = 41/213 (19%) Query: 319 PWDKKSKTKKNLDFAIRILDQDHFGLEKVKERIIEYLAVQMRVIKNKGLILCFVGPPGVG 378 + + L L++ G E+V E + L V+ GPPGVG Sbjct: 4 IMAPLERVAEILGKIRSELEKVVVGDEEVIELALLALLAGGHVL--------LEGPPGVG 55 Query: 379 KTSLAQSIAKATGRQYVRMS----------LGGVYDEADIRGHRRTYIGSMPGRIIQSLK 428 KT LA+++A+A G +VR+ LG A + +PG + ++ Sbjct: 56 KTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFRF--VPGPLFAAV- 112 Query: 429 RAKRSNPLLLLDEIDKMGSDLRGDPSAALLEVLDPAQNSSFVDHYLEVEYDLSD-VMFIM 487 +LLLDEI++ +++ ALLE L+ Q V L + I Sbjct: 113 -----RVILLLDEINRAPPEVQ----NALLEALEERQ----VTVPGLTTIRLPPPFIVIA 159 Query: 488 TANTLN------IPLPLMDRMEIIRIAGYTEEE 514 T N +P L+DR + Y + E Sbjct: 160 TQNPGEYEGTYPLPEALLDRFLLRIYVDYPDSE 192 >gnl|CDD|30812 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]. Length = 494 Score = 61.0 bits (147), Expect = 1e-09 Identities = 57/265 (21%), Positives = 103/265 (38%), Gaps = 30/265 (11%) Query: 339 QDHFGLEKVKE---RIIEYLAVQMRVIKNKGL----ILCFVGPPGVGKTSLAQSIAKATG 391 D GLE+ KE IE + + + GL + GPPG GKT LA+++A + Sbjct: 242 DDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESR 301 Query: 392 RQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLKRAKRSNPL-LLLDEIDKMGSDLR 450 +++ + + + ++G I + ++A++ P + +DEID + S Sbjct: 302 SRFISVKGSELLSK---------WVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRG 352 Query: 451 GDPSAALLEVLDPAQNSSFVDHYLEVEYDLSDVMFIMTANTLNIPLPLMDRM----EIIR 506 + V+ + +E V+ I N + P + R +I Sbjct: 353 PSEDGSGRRVV-----GQLLTELDGIE-KAEGVLVIAATNRPDDLDPALLRPGRFDRLIY 406 Query: 507 IAGYTEEEKLQIAKNHL--VKKVLTEHALKQEECCISDGVLLDIIRLFTHEAGVRSFERA 564 + EE+L+I K HL K L E +E I++G I EA + + A Sbjct: 407 VPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVREAALEALREA 466 Query: 565 LM-KIARKAVTKIVKNSDTTVSINE 588 ++ +K +V+ E Sbjct: 467 RRREVTLDDFLDALKKIKPSVTYEE 491 >gnl|CDD|31936 COG1750, COG1750, Archaeal serine proteases [General function prediction only]. Length = 579 Score = 58.9 bits (142), Expect = 6e-09 Identities = 31/85 (36%), Positives = 44/85 (51%) Query: 693 GPSAGIAMATAIVSIMTCIPVYKNVAMTGELTLRGRVLPIGGLKEKLLAALRAGVTKVLI 752 GPSAG M AI + + + K+V MTG + G + P+GG+ EKL AA +AG LI Sbjct: 114 GPSAGGYMTVAIYAALMGWSIRKDVMMTGMINPDGSIGPVGGILEKLEAAAKAGAKIFLI 173 Query: 753 PEENIKDLMDIPENVKNGLEIIPVS 777 P + + GL++I V Sbjct: 174 PVGQRIVVDLVEYGKSLGLKVIEVG 198 >gnl|CDD|33283 COG3480, SdrC, Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]. Length = 342 Score = 52.3 bits (125), Expect = 6e-07 Identities = 31/103 (30%), Positives = 53/103 (51%), Gaps = 11/103 (10%) Query: 692 DGPSAGIAMATAIVSIMTCIPVYKN--VAMTGELTLRGRVLPIGGLKEKLLAALRAGVTK 749 GPSAG+ + AI +T + +A TG + + G+V PIGG+ +K++AA +AG Sbjct: 233 GGPSAGLMFSLAIYDQLTKGDLTGGRFIAGTGTIEVDGKVGPIGGIDQKVVAAAKAGADV 292 Query: 750 VLIPEENIKDLMDIP---------ENVKNGLEIIPVSFMGEVL 783 +P +N + M E++ ++I+PV + E L Sbjct: 293 FFVPADNCAEEMSDSNYDEALVAAEDLSTAMKIVPVKTLQEAL 335 >gnl|CDD|31265 COG1066, Sms, Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]. Length = 456 Score = 52.1 bits (125), Expect = 6e-07 Identities = 25/93 (26%), Positives = 49/93 (52%), Gaps = 8/93 (8%) Query: 692 DGPSAGIAMATAIVSIMTCIPVYKNVAMTGELTLRGRVLPIGGLKEKLLAALRAGVTKVL 751 P+A +A+A A+VS P+ ++ + GE+ L G + P+ + +L A + G + + Sbjct: 367 TEPAADLAVALALVSSFRNRPLPQDTVVFGEVGLSGEIRPVPRGERRLKEAAKLGFKRAI 426 Query: 752 IPEENIKDLMDIPENVKNGLEIIPVSFMGEVLK 784 +P+ NI + G+++I VS + E L+ Sbjct: 427 VPKGNIP--------LPEGIKVIGVSTLAEALE 451 >gnl|CDD|36269 KOG1051, KOG1051, KOG1051, Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]. Length = 898 Score = 47.7 bits (113), Expect = 1e-05 Identities = 63/327 (19%), Positives = 126/327 (38%), Gaps = 35/327 (10%) Query: 181 KLADVIAANLSIK-VAERQKILEAVSVKERLEMLLVFMESEISVLQVEKRIRSRVKRQME 239 L D AA + + + + V +L+ + ++ + + ++ + Sbjct: 401 DLEDEAAALVKSQAESLPPWLQNLERVDIKLQDEISELQKKWNQALHKRPSLESLAPSKP 460 Query: 240 KTQREYYLHEQMKAIQKELDNGEEGRDEISDFEARISKIRLSKEAR------EKALSELQ 293 Q + +++ +EL + D S ++E LSE Sbjct: 461 TQQPLSASVDSERSVIEELKLKKNSLDRNSLLAKAHRPNDYTRETDLRYGRIPDELSEKS 520 Query: 294 KLRQMNPLSAESSVVRNYLDWLLGVPWDKKSKTKKNLDFAI------RILDQDHFGLEKV 347 Q V R G+P D+ ++ + + R++ QD + + Sbjct: 521 NDNQGGESDISEVVSRW-----TGIPVDRLAEAEAERLKKLEERLHERVIGQDE-AVAAI 574 Query: 348 KERIIEYLAVQMRVIKNKGLILCFVGPPGVGKTSLAQSIAK---ATGRQYVRMSLGGVYD 404 I A N F+GP GVGKT LA+++A+ + ++R+ + + Sbjct: 575 AAAIRRSRAGLKD--PNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLDMSEFQE 632 Query: 405 EADIRGHRRTYIGS-MPGRIIQSLKRAKRSNPLLLLDEIDKMGSDLRGDPSAALLEVLDP 463 + + G Y+G G++ +++KR R ++L +EI+K D+ LL++LD Sbjct: 633 VSKLIGSPPGYVGKEEGGQLTEAVKR--RPYSVVLFEEIEKAHPDVLN----ILLQLLDR 686 Query: 464 AQNSSFVDHYLEVEYDLSDVMFIMTAN 490 + D + E D + +FIMT+N Sbjct: 687 GR---LTDSHGR-EVDFKNAIFIMTSN 709 >gnl|CDD|37381 KOG2170, KOG2170, KOG2170, ATPase of the AAA+ superfamily [General function prediction only]. Length = 344 Score = 47.2 bits (112), Expect = 2e-05 Identities = 40/162 (24%), Positives = 65/162 (40%), Gaps = 24/162 (14%) Query: 337 LDQDHFGLEKVKERIIEYLAVQMRVIK-NKGLILCFVGPPGVGKTSLAQSIAKATGRQ-- 393 L + FG K+ ++ L K L+L F G G GK +A+ IA+ R Sbjct: 80 LARALFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGL 139 Query: 394 ---YVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLKRAKRSNPLLLLDEIDKMGSDLR 450 +V + Y + R+ +++ +RS L + DE+DK+ Sbjct: 140 RSPFVHHFV-ATLHFPHAS-KIEDYKEELKNRVRGTVQACQRS--LFIFDEVDKLPP--- 192 Query: 451 GDPSAALLEVLDPAQNSSFVDHYLEV-EYDLSDVMFIMTANT 491 LL+VL P F+D+Y +V D +FI +N Sbjct: 193 -----GLLDVLKP-----FLDYYPQVSGVDFRKAIFIFLSNA 224 >gnl|CDD|31416 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General function prediction only]. Length = 368 Score = 46.5 bits (110), Expect = 3e-05 Identities = 54/239 (22%), Positives = 98/239 (41%), Gaps = 54/239 (22%) Query: 303 AESSVVRNYLDWLLGVPWDKKSKTKKNLDFAIRILDQDHFGLEKVKER---IIEYLAVQM 359 + ++ + ++L P ++ + ++ D G E+ K + I+EYL Sbjct: 91 SGGGIITSTTIFVLETPREEDREIISDITL------DDVIGQEEAKRKCRLIMEYLENPE 144 Query: 360 RVIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSM 419 R + F GPPG GKT +A+++A + + + E ++G Sbjct: 145 RFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGE---------HVGDG 195 Query: 420 PGRIIQSLKRAKRSNP-LLLLDEIDKMGSD-----LRGDPSA---ALL------------ 458 RI + +RA+++ P ++ +DE+D + D LRGD S ALL Sbjct: 196 ARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGV 255 Query: 459 ---------EVLDPAQNSSFVDHYLEVEYDLSD---VMFIMTANTLNIPLPLMDRMEII 505 E+LDPA S F + E+E+ L + + I+ PLP+ + + Sbjct: 256 VTIAATNRPELLDPAIRSRFEE---EIEFKLPNDEERLEILEYYAKKFPLPVDADLRYL 311 >gnl|CDD|30951 COG0606, COG0606, Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]. Length = 490 Score = 46.4 bits (110), Expect = 3e-05 Identities = 46/177 (25%), Positives = 71/177 (40%), Gaps = 18/177 (10%) Query: 624 GEILTVEGVIMPGKGEITITGNLKEIMKESILAASSYVRSKATTFGI-IPSAFNEINIHV 682 + VE I G TI G +KES VR+ T G P+ IN+ Sbjct: 2 APPVEVEVDISNGLPGFTIVGLPDTAVKESR----ERVRAALTNSGFEFPAKRITINL-- 55 Query: 683 HVPEGATPKDGPSAGIAMATAIVSIMTCIP--VYKNVAMTGELTLRGRVLPIGGLKEKLL 740 P PK+G + +A I++ +P GEL+L G + P+GG+ L Sbjct: 56 -APAD-LPKEGSRFDLPIALGILAASGQLPADALILYEFLGELSLDGLLRPVGGVLPAAL 113 Query: 741 AALRAGVTKVLIPEENIKDLMDIPENVKNGLEIIPVSFMGEVLKHALLRMPDPLESE 797 AA G +++P+EN ++ I GL + ++ EV+ L L Sbjct: 114 AAKEKGKRGLIVPKENAEEASLIG-----GLPVYGARYLEEVVNF--LEGKLRLPIP 163 >gnl|CDD|30888 COG0542, ClpA, ATPases with chaperone activity, ATP-binding subunit [Posttranslational modification, protein turnover, chaperones]. Length = 786 Score = 46.5 bits (110), Expect = 3e-05 Identities = 89/434 (20%), Positives = 155/434 (35%), Gaps = 118/434 (27%) Query: 184 DVIAANLSIKVAERQKILEAVSVKERLEMLLVFMESEISVLQVEKRIRSRVKRQMEKTQR 243 D++ + E K E ++ L L E E L+ E+ + + + Sbjct: 384 DLLDEAGARVRLEIDKPEELDELERELAQL----EIEKEALEREQDEKEKKLIDEIIKLK 439 Query: 244 EYYLHEQMKAIQKELDNGEEGRDEISDFEARISKI---RLSKEAREKALSELQKLR---- 296 E + E K ++ E+D D+I++ AR + I +L ++ +EK L+ ++L+ Sbjct: 440 EGRIPELEKELEAEVD-----EDDIAEVVARWTGIPVAKLLEDEKEKLLNLERRLKKRVI 494 Query: 297 -QMNPLSAESSVVRNYLDWLLGVPWDKKSKTKKNLDFAIRILDQDHFGLEKVKERIIEYL 355 Q + A S +R + GL I +L Sbjct: 495 GQDEAVEAVSDAIR-----------------------------RARAGLGDPNRPIGSFL 525 Query: 356 AVQMRVIKNKGLILCFVGPPGVGKTSLAQSIAKA---TGRQYVRMSLGGVYDEADIRGHR 412 F+GP GVGKT LA+++A+A + +R+ + ++ + Sbjct: 526 ---------------FLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSVSR-- 568 Query: 413 RTYIGSMPGRI----IQSLKRAKRSNP--LLLLDEIDKMGSDLRGDPSAALLEVLDPAQN 466 IG+ PG + L A R P ++LLDEI+K D+ LL+VLD + Sbjct: 569 --LIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDV----FNLLLQVLD---D 619 Query: 467 SSFVDHYLEVEYDLSDVMFIMTAN---------TLNIPLPLMDRM--------------- 502 D D + + IMT+N + + Sbjct: 620 GRLTDGQ-GRTVDFRNTIIIMTSNAGSEEILRDADGDDFADKEALKEAVMEELKKHFRPE 678 Query: 503 ------EIIRIAGYTEEEKLQIAKNHL--VKKVLTEHALKQEECCISDGVLLDII-RLFT 553 EII ++E +I L + K L E + E +SD + + + Sbjct: 679 FLNRIDEIIPFNPLSKEVLERIVDLQLNRLAKRLAERGITLE---LSDEAKDFLAEKGYD 735 Query: 554 HEAGVRSFERALMK 567 E G R RA+ + Sbjct: 736 PEYGARPLRRAIQQ 749 Score = 35.7 bits (82), Expect = 0.048 Identities = 31/108 (28%), Positives = 48/108 (44%), Gaps = 12/108 (11%) Query: 343 GLEKVKERIIEYLAVQMRVIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGV 402 G ++ R I+ L R KN + VG PGVGKT++ + +A+ V SL Sbjct: 174 GRDEEIRRTIQIL---SRRTKNNPV---LVGEPGVGKTAIVEGLAQRIVNGDVPESLKDK 227 Query: 403 ----YDEADIRGHRRTYIGSMPGRIIQSLKRAKRS-NPLLLLDEIDKM 445 D + + Y G R+ LK ++S N +L +DEI + Sbjct: 228 RIYSLDLGSLVAGAK-YRGEFEERLKAVLKEVEKSKNVILFIDEIHTI 274 >gnl|CDD|34868 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]. Length = 4600 Score = 44.7 bits (105), Expect = 1e-04 Identities = 41/167 (24%), Positives = 69/167 (41%), Gaps = 35/167 (20%) Query: 373 GPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYI-GSMPGRII---QSLK 428 G PGVGKTSL ++A+ TG++ +R++L D D+ G + + G Sbjct: 1550 GSPGVGKTSLITALARKTGKKLIRINLSEQTDLCDLFG---SDLPVEEGGEFRWMDAPFL 1606 Query: 429 RAKRSNPLLLLDEIDKMGSDLRGDPSAALLEVLDPAQNSSFVDHYLEVEYDLSDVMFIMT 488 A R +LLDEI+ S ++LE L+ + +DH E D F + Sbjct: 1607 HAMRDGGWVLLDEINLA--------SQSVLEGLN-----ACLDHRREAYIPELDKTFDVH 1653 Query: 489 ANTL---------------NIPLPLMDRMEIIRIAGYTEEEKLQIAK 520 N +P ++R ++++ G T ++ IA Sbjct: 1654 PNFRVFAAQNPQDQGGGRKGLPKSFLNRFSVVKMDGLTTDDITHIAN 1700 Score = 31.2 bits (70), Expect = 1.1 Identities = 25/94 (26%), Positives = 45/94 (47%), Gaps = 6/94 (6%) Query: 359 MRVIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGS 418 MR L GP GKTS+ +A+ TG ++VR++ ++ D++ + TY+ Sbjct: 881 MRAASLSNFPLLIQGPTSSGKTSMILYLARETGHKFVRIN---NHEHTDLQEYIGTYVTD 937 Query: 419 MPGRII---QSLKRAKRSNPLLLLDEIDKMGSDL 449 G + L A R ++LDE++ +D+ Sbjct: 938 DDGSLSFKEGVLVEALRRGYWIVLDELNLAPTDV 971 Score = 28.1 bits (62), Expect = 9.0 Identities = 19/52 (36%), Positives = 25/52 (48%), Gaps = 1/52 (1%) Query: 359 MRVIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRG 410 MR I N L VG GVGKTSL + +A G++ + D D+ G Sbjct: 1844 MRCI-NMNWPLILVGDTGVGKTSLLRFLASIFGQEMTLFNCNSDTDVMDLLG 1894 >gnl|CDD|31415 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]. Length = 406 Score = 44.8 bits (106), Expect = 1e-04 Identities = 65/271 (23%), Positives = 109/271 (40%), Gaps = 52/271 (19%) Query: 343 GLEKVKERIIEY---------LAVQMRVIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQ 393 GL++ + I E L ++ + KG++L GPPG GKT LA+++A T Sbjct: 155 GLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLL--YGPPGTGKTLLAKAVANQTDAT 212 Query: 394 YVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLKRAKRSNP-LLLLDEIDKMGSDLRGD 452 ++R+ + + YIG + + + A+ P ++ +DEID +G+ R D Sbjct: 213 FIRVVGSELVQK---------YIGEGARLVRELFELAREKAPSIIFIDEIDAIGAK-RFD 262 Query: 453 PSAA--------LLEVLDPAQNSSFVDHYLEVEYDLSDVMFIMTANTLNIPLPLM----- 499 + +LE+L Q F +V IM N +I P + Sbjct: 263 SGTSGDREVQRTMLELL--NQLDGF--------DPRGNVKVIMATNRPDILDPALLRPGR 312 Query: 500 -DRMEIIRIAGYTEEEKLQIAKNHLVKKVLTEHALKQEECCISDGVLLDIIRLFTHEAGV 558 DR I EE + +I K H K L + + +++G ++ EAG+ Sbjct: 313 FDR--KIEFPLPDEEGRAEILKIHTRKMNLADDVDLELLARLTEGFSGADLKAICTEAGM 370 Query: 559 RSFER----ALMKIARKAVTKIVKNSDTTVS 585 + M+ KAV K+VK S Sbjct: 371 FAIRERRDEVTMEDFLKAVEKVVKKKKKLSS 401 >gnl|CDD|32437 COG2256, MGS1, ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]. Length = 436 Score = 44.8 bits (106), Expect = 1e-04 Identities = 23/89 (25%), Positives = 38/89 (42%), Gaps = 22/89 (24%) Query: 360 RVIKNKGLI-LCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGS 418 R ++ L + GPPG GKT+LA+ IA T + +S D+R Sbjct: 41 RAVEAGHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALS-AVTSGVKDLR--------- 90 Query: 419 MPGRIIQSLKRAKRSN-----PLLLLDEI 442 + ++ A+++ +L LDEI Sbjct: 91 ------EIIEEARKNRLLGRRTILFLDEI 113 >gnl|CDD|35953 KOG0734, KOG0734, KOG0734, AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]. Length = 752 Score = 44.6 bits (105), Expect = 1e-04 Identities = 29/84 (34%), Positives = 43/84 (51%), Gaps = 12/84 (14%) Query: 365 KGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRII 424 KG++L VGPPG GKT LA+++A G + S G +DE ++G R+ Sbjct: 338 KGVLL--VGPPGTGKTLLARAVAGEAGVPFFYAS-GSEFDE--------MFVGVGARRVR 386 Query: 425 QSLKRAKRSNP-LLLLDEIDKMGS 447 AK P ++ +DEID +G Sbjct: 387 DLFAAAKARAPCIIFIDEIDAVGG 410 >gnl|CDD|39857 KOG4658, KOG4658, KOG4658, Apoptotic ATPase [Signal transduction mechanisms]. Length = 889 Score = 43.8 bits (103), Expect = 2e-04 Identities = 35/186 (18%), Positives = 67/186 (36%), Gaps = 15/186 (8%) Query: 205 SVKERLEML---LVFMESEISVLQVEKRIRSRVKRQMEKTQREYYLHEQMKAIQKELDNG 261 + L L ++S + L ++ R E YL E + + + Sbjct: 25 GKDNYILELKENLKALQSALEDLDAKRDDLERRVNWEEDVGDLVYLAEDIIWLFLVEEIE 84 Query: 262 EEGRDEISDFEARISKIRLSKEAREKALSELQKLRQMNPLSAESSVVRNYL-DWLLGVPW 320 + D +S ++ L K +S+ K + +S V + + V Sbjct: 85 RKANDLLSTRSVERQRLCLCGFCS-KNVSDSYKYGKR--VSKVLREVESLGSKGVFEVVG 141 Query: 321 DKKSKTKKNLDFAIRILDQDHFGLEKVKERIIEYLAVQMRVIKNKGLILCFVGPPGVGKT 380 + +K I+ + GLE + E++ L +++ I+ G GVGKT Sbjct: 142 ESLDPREKVETRPIQ--SESDVGLETMLEKLWNRL------MEDDVGIVGIYGMGGVGKT 193 Query: 381 SLAQSI 386 +LA+ I Sbjct: 194 TLARQI 199 >gnl|CDD|35950 KOG0731, KOG0731, KOG0731, AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]. Length = 774 Score = 43.5 bits (102), Expect = 2e-04 Identities = 64/273 (23%), Positives = 112/273 (41%), Gaps = 47/273 (17%) Query: 323 KSKTKKNLDFAIRILDQDHFGLEKVKERIIEYLAVQMRVIKN------------KGLILC 370 KS K + + +D G+++ KE ++E+ ++ +KN KG++L Sbjct: 295 KSYKKFKNEGNTGVKFKDVAGVDEAKEELMEF----VKFLKNPEQYQELGAKIPKGVLL- 349 Query: 371 FVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLKRA 430 VGPPG GKT LA++IA G + +S G + E ++G R+ A Sbjct: 350 -VGPPGTGKTLLAKAIAGEAGVPFFSVS-GSEFVE--------MFVGVGASRVRDLFPLA 399 Query: 431 KRSNP-LLLLDEIDKMGSDLRGDPSAALLEVLDPAQNSSFVDHYLEVEYD----LSDVMF 485 +++ P ++ +DEID +G G + + + L VE D V+ Sbjct: 400 RKNAPSIIFIDEIDAVGRKRGG----KGTGGGQDEREQTL--NQLLVEMDGFETSKGVIV 453 Query: 486 IMTANTLNIPLPL------MDRMEIIRIAGYTEEEKLQIAKNHLVKKVLTEHALKQEECC 539 + N +I P DR I+I + + I K HL KK L + + + Sbjct: 454 LAATNRPDILDPALLRPGRFDR--QIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLA 511 Query: 540 I-SDGVLLDIIRLFTHEAGVRSFERALMKIARK 571 + G + +EA + + + L +I K Sbjct: 512 SLTPGFSGADLANLCNEAALLAARKGLREIGTK 544 >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 = 43.4 bits (102), Expect = 3e-04 Identities = 38/136 (27%), Positives = 54/136 (39%), Gaps = 17/136 (12%) Query: 364 NKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPG-- 421 G I+ VGP G GK++L ++IA + + G R IG +P Sbjct: 23 KAGEIVALVGPNGSGKSTLLRAIAGLLKPTSGEILIDGKDIAKLPLEELRRRIGYVPQLS 82 Query: 422 -----RIIQSLKRAKRSNP-LLLLDEIDKMGSDLRGDPSAALLEVLDPAQNSS----FVD 471 R+ +L RA NP LLLLDE S L LLE+L V Sbjct: 83 GGQRQRV--ALARALLLNPDLLLLDEPT---SGLDPASRERLLELLRELAEEGRTVIIVT 137 Query: 472 HYLEVEYDLSDVMFIM 487 H E+ +D + ++ Sbjct: 138 HDPELAELAADRVIVL 153 >gnl|CDD|110677 pfam01695, IstB, IstB-like ATP binding protein. This protein contains an ATP/GTP binding P-loop motif. It is found associated with IS21 family insertion sequences. The function of this protein is unknown, but it may perform a transposase function. Length = 178 Score = 42.6 bits (101), Expect = 4e-04 Identities = 30/108 (27%), Positives = 43/108 (39%), Gaps = 36/108 (33%) Query: 369 LCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLK 428 L +GPPGVGKT LA ++ G Q R G+ + P +++ LK Sbjct: 50 LLLLGPPGVGKTHLACAL----GHQACR------------AGYSVLFT-RTP-DLVEQLK 91 Query: 429 RAKRSN------------PLLLLDEIDKMGSDLRGDPSAA--LLEVLD 462 RA+ LL+LD+I L AA L E++ Sbjct: 92 RARGDGRLARTLQRLAKADLLILDDI----GYLPLSQEAAHLLFELIS 135 >gnl|CDD|37019 KOG1808, KOG1808, KOG1808, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]. Length = 1856 Score = 42.3 bits (99), Expect = 5e-04 Identities = 39/172 (22%), Positives = 74/172 (43%), Gaps = 17/172 (9%) Query: 339 QDHFGLEKVKERIIEYLAVQMRVIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMS 398 H+ + ++ LA R I + + GP GKTS+ + +A+ATG+ VR++ Sbjct: 416 ATHYIITPRVQK---NLADLARAISSGKFPILLQGPTSSGKTSIIKELARATGKNIVRIN 472 Query: 399 LGGVYDEADIRGHRRTYIGSMPGRIIQS---LKRAKRSNPLLLLDEIDKMGSDLRGDPSA 455 ++ D++ + TY+ G ++ L +A R+ ++LDE++ D+ Sbjct: 473 N---HEHTDLQEYIGTYVADDNGDLVFREGVLVQALRNGDWIVLDELNLAPHDVLE---- 525 Query: 456 ALLEVLDPAQNSSFVDHYLEVEYDLSDVMFIMTANTLNIPLPLMDRMEIIRI 507 AL +LD + + V+ ++F T N P R + R Sbjct: 526 ALNRLLDDNRELFIPETQRLVKAHPEFMLFA----TQNPPGTYGGRKILSRA 573 Score = 33.1 bits (75), Expect = 0.34 Identities = 15/39 (38%), Positives = 23/39 (58%) Query: 373 GPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGH 411 G G GKTSL ++ + TG+ +R++L D AD+ G Sbjct: 1053 GESGSGKTSLVLALGRLTGKWTIRLNLSDQTDLADLFGS 1091 >gnl|CDD|32436 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]. Length = 332 Score = 42.1 bits (99), Expect = 7e-04 Identities = 54/195 (27%), Positives = 83/195 (42%), Gaps = 42/195 (21%) Query: 340 DHFGLEKVKERIIEYLAVQMRVIKNKGLIL---CFVGPPGVGKTSLAQSIAKATGRQYVR 396 + G EKVKE+ L + ++ K +G L GPPG+GKT+LA IA G ++ Sbjct: 27 EFIGQEKVKEQ----LQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVN-LK 81 Query: 397 MSLGGVYDEA-DIRGHRRTYIGSMPGRIIQSLKRAKRSNPLLLLDEIDKMGSDLRGDPSA 455 ++ G ++ D+ I+ +L+ +L +DEI ++ Sbjct: 82 ITSGPALEKPGDLAA------------ILTNLEE----GDVLFIDEIHRLSP-------- 117 Query: 456 ALLEVLDPAQNSSFVDHYL-------EVEYDLSDVMFI-MTANTLNIPLPLMDRMEII-R 506 A+ EVL PA +D + + DL I T + PL DR II R Sbjct: 118 AVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATTRAGMLTNPLRDRFGIIQR 177 Query: 507 IAGYTEEEKLQIAKN 521 + YT EE +I K Sbjct: 178 LEFYTVEELEEIVKR 192 >gnl|CDD|30813 COG0465, HflB, ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]. Length = 596 Score = 39.5 bits (92), Expect = 0.004 Identities = 39/135 (28%), Positives = 67/135 (49%), Gaps = 24/135 (17%) Query: 323 KSKTKKNLDFAIRILDQDHFGLEKVKERIIE----------YLAVQMRVIKNKGLILCFV 372 KSK K L+ +++ D G+++ KE + E Y A+ ++ K L V Sbjct: 134 KSKAKLYLEDQVKVTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLL----V 189 Query: 373 GPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLKRAKR 432 GPPG GKT LA+++A G + +S G + E ++G R+ ++AK+ Sbjct: 190 GPPGTGKTLLAKAVAGEAGVPFFSIS-GSDFVEM--------FVGVGASRVRDLFEQAKK 240 Query: 433 SNP-LLLLDEIDKMG 446 + P ++ +DEID +G Sbjct: 241 NAPCIIFIDEIDAVG 255 >gnl|CDD|35945 KOG0726, KOG0726, KOG0726, 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]. Length = 440 Score = 39.5 bits (92), Expect = 0.004 Identities = 26/91 (28%), Positives = 47/91 (51%), Gaps = 12/91 (13%) Query: 358 QMRVIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIG 417 +M + KG+IL G PG GKT LA+++A T ++R+ + + Y+G Sbjct: 213 EMGIKPPKGVILY--GEPGTGKTLLAKAVANQTSATFLRVVGSELIQK---------YLG 261 Query: 418 SMPGRIIQSLKRAKRSNP-LLLLDEIDKMGS 447 P + + + A+ P ++ +DEID +G+ Sbjct: 262 DGPKLVRELFRVAEEHAPSIVFIDEIDAIGT 292 >gnl|CDD|177083 CHL00181, cbbX, CbbX; Provisional. Length = 287 Score = 38.9 bits (91), Expect = 0.006 Identities = 27/75 (36%), Positives = 41/75 (54%), Gaps = 13/75 (17%) Query: 322 KKSKTKKNLDFAIRILDQDHFGLEKVKERIIEYLAV----QMR-----VIKNKGLILCFV 372 +K++ ++ LD ILD++ GL VK RI E A+ ++R N GL + F Sbjct: 10 EKTQIQEVLD----ILDEELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFT 65 Query: 373 GPPGVGKTSLAQSIA 387 G PG GKT++A +A Sbjct: 66 GSPGTGKTTVALKMA 80 Score = 28.1 bits (63), Expect = 9.7 Identities = 35/113 (30%), Positives = 53/113 (46%), Gaps = 17/113 (15%) Query: 208 ERLEMLLVFMESEISVLQVEKRIRSRVKRQMEKTQREYYLHEQMKAIQKELDNGEEGRDE 267 E +E+LL ME++ L V I + K +M+K +E + + N + D Sbjct: 146 EAIEILLQVMENQRDDLVV---IFAGYKDRMDK------FYESNPGLSSRIANHVDFPDY 196 Query: 268 ISDFEARISKI-------RLSKEAREKALSELQKLRQMNPLSAESSVVRNYLD 313 + +I+KI +L+ EA EKAL + K R PL A + VRN LD Sbjct: 197 TPEELLQIAKIMLEEQQYQLTPEA-EKALLDYIKKRMEQPLFANARSVRNALD 248 >gnl|CDD|177080 CHL00176, ftsH, cell division protein; Validated. Length = 638 Score = 38.9 bits (91), Expect = 0.006 Identities = 29/91 (31%), Positives = 47/91 (51%), Gaps = 28/91 (30%) Query: 365 KGLILCFVGPPGVGKTSLAQSIA--------KATGRQYVRMSLGGVYDEADIRGHRRTYI 416 KG++ VGPPG GKT LA++IA +G ++V M +G + Sbjct: 217 KGVL--LVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVG---------------V 259 Query: 417 GSMPGRIIQSLKRAKRSNP-LLLLDEIDKMG 446 G+ R+ K+AK ++P ++ +DEID +G Sbjct: 260 GA--ARVRDLFKKAKENSPCIVFIDEIDAVG 288 >gnl|CDD|35955 KOG0736, KOG0736, KOG0736, Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]. Length = 953 Score = 37.7 bits (87), Expect = 0.012 Identities = 68/316 (21%), Positives = 121/316 (38%), Gaps = 70/316 (22%) Query: 147 LSRSVIAEFSNYIKLNKKISPEVIGITSQIEGFSKLADVIAANL-SIKV-----AERQKI 200 L + + SN V+ TS IE AD+ + L I+V +R +I Sbjct: 514 LLKVIRHLLSNEDFKFSCPPVIVVATTSSIEDLP--ADIQSLFLHEIEVPALSEEQRLEI 571 Query: 201 LEAVSVKERLEMLLVFMESEISVLQVEKRIRSRVKRQMEKTQREYYLHEQMKAIQKELDN 260 L+ L ++++ Q+ ++ +E L + + K L Sbjct: 572 LQWYLNHLPLN-------QDVNLKQLARKTSGFSFGDLEALVAHSSLAAKTRIKNKGLAG 624 Query: 261 GEEGRDEISDFEARISKIRLSKEAREKALSELQKLRQMNPLSAESSVVRNYLDWLLGVPW 320 G + DE + L++E +KALS LQK + + A + N V W Sbjct: 625 GLQEEDEGEL---CAAGFLLTEEDFDKALSRLQK-EFSDAIGAPK--IPN-------VSW 671 Query: 321 DKKSKTKKNLDFAIRILDQDHFGLEKVKERIIEYLAVQM--------RVIKNKGLILCFV 372 D D GLE+VK I++ + + + + K G++L Sbjct: 672 D------------------DVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILL--Y 711 Query: 373 GPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHR--RTYIGSMPGRIIQSLKRA 430 GPPG GKT LA+++A ++ ++G Y+G + + +RA Sbjct: 712 GPPGTGKTLLAKAVATECSLNFL-----------SVKGPELLNMYVGQSEENVREVFERA 760 Query: 431 KRSNP-LLLLDEIDKM 445 + + P ++ DE+D + Sbjct: 761 RSAAPCVIFFDELDSL 776 Score = 35.4 bits (81), Expect = 0.059 Identities = 62/294 (21%), Positives = 116/294 (39%), Gaps = 47/294 (15%) Query: 373 GPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLKRAKR 432 GPPG GKT++ +++A G + + + E+ H T ++ RA+R Sbjct: 438 GPPGSGKTTVVRAVASELGLHLLEVDCYELVAES--ASHTET-------KLQAIFSRARR 488 Query: 433 SNPL-LLLDEIDKMGSDLRGDPSAALLEVLDPAQNSSFVDHYLEVEYDLSD---VMFIMT 488 +P L L +D +G D G A LL+V+ H L E V+ + T Sbjct: 489 CSPAVLFLRNLDVLGIDQDGGEDARLLKVI---------RHLLSNEDFKFSCPPVIVVAT 539 Query: 489 ANTL-NIPLPLMDRM-EIIRIAGYTEEEKLQIAKNHLVKKVLTEHALKQEECCISDGVLL 546 +++ ++P + I + +EE++L+I + +L L + ++ + G Sbjct: 540 TSSIEDLPADIQSLFLHEIEVPALSEEQRLEILQWYLNHLPLNQDVNLKQLARKTSGFSF 599 Query: 547 -DIIRLFTH----------EAGVRSFERALMKIARKAVTKIVKNSDTTVSIN--ENNLQD 593 D+ L H G+ + + A ++ D +++ + D Sbjct: 600 GDLEALVAHSSLAAKTRIKNKGLAGGLQEEDEGELCAAGFLLTEEDFDKALSRLQKEFSD 659 Query: 594 YLGVPRYKYGKIEGEDQVGIVTGLAWTEVGGEILTVEGVIMPGKGEITITGNLK 647 +G P K + +D V GL EV EIL + + +P K + L+ Sbjct: 660 AIGAP--KIPNVSWDD----VGGLE--EVKTEIL--DTIQLPLKHPELFSSGLR 703 >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 = 37.6 bits (88), Expect = 0.014 Identities = 12/35 (34%), Positives = 18/35 (51%) Query: 369 LCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVY 403 + GPPG GK++LA+ +A+A VY Sbjct: 1 IWLYGPPGCGKSTLAKYLARALLDHLGLPKKDSVY 35 >gnl|CDD|31673 COG1484, DnaC, DNA replication protein [DNA replication, recombination, and repair]. Length = 254 Score = 36.9 bits (85), Expect = 0.024 Identities = 22/80 (27%), Positives = 36/80 (45%), Gaps = 7/80 (8%) Query: 364 NKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEA-DIRGHRRTYIGSMPGR 422 +G L +GPPGVGKT LA +I + + + D ++ GR Sbjct: 103 ERGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSKLKAAFDE------GR 156 Query: 423 IIQSLKRAKRSNPLLLLDEI 442 + + L R + LL++D+I Sbjct: 157 LEEKLLRELKKVDLLIIDDI 176 >gnl|CDD|73174 COG0470, HolB, ATPase involved in DNA replication [DNA replication, recombination, and repair]. Length = 325 Score = 36.9 bits (84), Expect = 0.026 Identities = 36/187 (19%), Positives = 72/187 (38%), Gaps = 14/187 (7%) Query: 349 ERIIEYLAVQMRVIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADI 408 + ++ L VQ L F GPPGVGKT+ A ++AK + G+ Sbjct: 7 QEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPT----GLLPCGHC 62 Query: 409 RGHRRTYIGSMPGRIIQSLKRAKRSNPLLLLDEIDKMGSDLRGDPSAALLEV--LDPAQN 466 R + G+ P L + ++++++ ++ L P +V +D A Sbjct: 63 RSCKLIPAGNHPD--FLELNPSDLRKIDIIVEQVRELAEFLSESPLEGGYKVVIIDEADK 120 Query: 467 SSFVDHY----LEVEYDLSDVMFIMTANTLN-IPLPLMDRMEIIRIAGYTEEEKLQIAKN 521 + D +E + FI+ N + I + R + IR + E + ++ Sbjct: 121 LT-EDAANALLKTLEEPPKNTRFILITNDPSKILPTIRSRCQRIRFKPPSRLEAIAWLED 179 Query: 522 HLVKKVL 528 ++++ Sbjct: 180 QGLEEIA 186 >gnl|CDD|35956 KOG0737, KOG0737, KOG0737, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 386 Score = 36.8 bits (85), Expect = 0.027 Identities = 26/82 (31%), Positives = 44/82 (53%), Gaps = 12/82 (14%) Query: 334 IRILDQDHFGLEKVKERIIEYLAVQMR----------VIKNKGLILCFVGPPGVGKTSLA 383 I + D GLE+VK+ + E + + +R + KG++L GPPG GKT LA Sbjct: 87 IGVSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILL--YGPPGTGKTMLA 144 Query: 384 QSIAKATGRQYVRMSLGGVYDE 405 ++IAK G ++ +S+ + + Sbjct: 145 KAIAKEAGANFINVSVSNLTSK 166 >gnl|CDD|39361 KOG4159, KOG4159, KOG4159, Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]. Length = 398 Score = 36.5 bits (84), Expect = 0.030 Identities = 38/224 (16%), Positives = 71/224 (31%), Gaps = 41/224 (18%) Query: 14 EDESKDRCGADGIIYPLLPLRDIVVFPYMIVPLFVGREKSVRALDEAMNSHKKIILVTQM 73 E+ES C + PL P+ + FP + PL V + + + + K + Sbjct: 168 EEESSRECES-----PLFPVCT-LAFPEVPCPLQVFEPRYRLMIRRLLETGDKRFGICL- 220 Query: 74 NSNDENPIASSVYRIGTIVDIVQILRLPDGTVKILVEGSVRARIVEYIEREDFLEAITQV 133 S+ + IG I++I ++ L DG + G R R++ + + + + A + Sbjct: 221 -SDSSKGSGQA-AEIGCILEIRKVESLGDGRSVVDSIGKSRFRVLLFSQTDGYPVADVEY 278 Query: 134 LPDPTEDPVELE------------------ALSRSVIAEFSNYIKLNKKISPEVIGITSQ 175 L D VE SV + ++ P + Sbjct: 279 LEDRPAVKVEGHDEPETLVELMKEVVKKECLWFESVADPMKGRLLVHFGCMPFLEINFEC 338 Query: 176 IEGFSKLADVIAANLSIKVAERQKILEAVSVKERLEMLLVFMES 219 +E A + + RL+ + M S Sbjct: 339 LESGP--------------AWCWWKTALLPSEARLKSEFLAMRS 368 >gnl|CDD|35949 KOG0730, KOG0730, KOG0730, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 693 Score = 36.5 bits (84), Expect = 0.031 Identities = 24/92 (26%), Positives = 42/92 (45%), Gaps = 10/92 (10%) Query: 371 FVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLKRA 430 GPPG GKT LA+++A G ++ + ++ + Y+G I + ++A Sbjct: 473 LYGPPGCGKTLLAKALANEAGMNFLSVKGPELFSK---------YVGESERAIREVFRKA 523 Query: 431 KRSNP-LLLLDEIDKMGSDLRGDPSAALLEVL 461 ++ P ++ DEID + G S VL Sbjct: 524 RQVAPCIIFFDEIDALAGSRGGSSSGVTDRVL 555 Score = 31.8 bits (72), Expect = 0.84 Identities = 20/78 (25%), Positives = 33/78 (42%), Gaps = 19/78 (24%) Query: 372 VGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLKRA- 430 GPPG GKT L +++A G ++ + I PG +L++A Sbjct: 224 YGPPGTGKTFLVRAVANEYGAFLFLINGPEL-------------ISKFPGETESNLRKAF 270 Query: 431 ----KRSNP-LLLLDEID 443 K P ++ +DE+D Sbjct: 271 AEALKFQVPSIIFIDELD 288 >gnl|CDD|35870 KOG0651, KOG0651, KOG0651, 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]. Length = 388 Score = 36.5 bits (84), Expect = 0.033 Identities = 26/82 (31%), Positives = 42/82 (51%), Gaps = 12/82 (14%) Query: 367 LILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQS 426 L GPPG GKT LA+++A G ++++ + D+ YIG R+I+ Sbjct: 167 KGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDK---------YIGE-SARLIRD 216 Query: 427 LKR-AKRSNPL-LLLDEIDKMG 446 + R A+ P + +DEID +G Sbjct: 217 MFRYAREVIPCIIFMDEIDAIG 238 >gnl|CDD|144201 pfam00521, DNA_topoisoIV, DNA gyrase/topoisomerase IV, subunit A. Length = 428 Score = 36.3 bits (85), Expect = 0.036 Identities = 24/151 (15%), Positives = 60/151 (39%), Gaps = 20/151 (13%) Query: 159 IKLNKKISPEVIGITSQIEGFSKLADVIAANLSIKVAERQKILEAVSVKERLEMLLVFME 218 I+L + PEV+ +++ +KL + N + + + + E+L F+E Sbjct: 265 IELKRGADPEVV--LNKLYKKTKLQSSFSTNN-LVLFDGGPKYLNLK-----EILKEFLE 316 Query: 219 SEISVLQVEKRIR-SRVKRQMEKTQREYYLHEQMKAIQKELDNGEEGRDEISDFEARISK 277 + V + K +++ ++ + ++ + + + + + +S+ Sbjct: 317 HRLEVYKRRKEYLLEKLEERLHILEGLLKALNKIDFVIEVIRGSIDLNKAKKELIEELSE 376 Query: 278 I-----------RLSKEAREKALSELQKLRQ 297 I RL+KE EK E+++L + Sbjct: 377 IQADYLLDMRLRRLTKEEIEKLEKEIEELEK 407 >gnl|CDD|37239 KOG2028, KOG2028, KOG2028, ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]. Length = 554 Score = 36.2 bits (83), Expect = 0.037 Identities = 49/288 (17%), Positives = 90/288 (31%), Gaps = 75/288 (26%) Query: 323 KSKTKKNLDFAIRILDQDHFGLEKVKERIIEYLAVQMRVIKNKGLI-----------LCF 371 + + IR + Q E+++ + ++ Q ++ GL+ + Sbjct: 108 RPHKRALAAEEIRQMLQHKPLAERMRPKTLDDYVGQSHLVGQDGLLRSLIEQNRIPSMIL 167 Query: 372 VGPPGVGKTSLAQSIAK-ATGRQYVRMSLGGVYDE-ADIRGHRRTYIGSMPGRIIQSLKR 429 GPPG GKT+LA+ IA + Y + L + D+R I + + Sbjct: 168 WGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVRD------------IFEQAQN 215 Query: 430 AK---RSNPLLLLDEIDKMGSDLRGDPSAALLEVLDPAQNSSFVDHYLEVEYDLSDVMFI 486 K + +L +DEI + + +Q +F Sbjct: 216 EKSLTKRKTILFIDEIHR----------------FNKSQQDTF----------------- 242 Query: 487 MTANTLNIPLPLMDRMEIIRIAGYTEEEKLQIAKNHLVK-KVLTEHALKQEECCISDGVL 545 LP ++ +I I TE Q+ L + +V L +L Sbjct: 243 ---------LPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVT---IL 290 Query: 546 LDII-RLFTHEAGVRSFERALMKIARKAVTKIVKNSDTTVSINENNLQ 592 + I L E + M + + + SD N L+ Sbjct: 291 MRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDARAALNALE 338 >gnl|CDD|30835 COG0489, Mrp, ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]. Length = 265 Score = 35.8 bits (82), Expect = 0.044 Identities = 28/137 (20%), Positives = 51/137 (37%), Gaps = 5/137 (3%) Query: 345 EKVKERIIEYLAVQMRVIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYD 404 E ++ ++ K +I G GVGK+++A ++A A + R+ + D Sbjct: 37 EALRALRTNLKFAKVLRKGVKNVIAVTSGKGGVGKSTVAVNLAAALAQLGKRV---LLLD 93 Query: 405 EADIRGHRRTYI-GSMPGRIIQSLKRAKRSNPLLLLDEIDKMGSDLRGDPSAALLEVLDP 463 AD+RG + G + L + P++ D I + G +L Sbjct: 94 -ADLRGPSIPRMLGLENLPGLTELLAGEALEPVIQHDGIKVLSILPLGPVPVIPRGLLGS 152 Query: 464 AQNSSFVDHYLEVEYDL 480 ++ L EYD Sbjct: 153 KAMLQLLEDVLWGEYDY 169 >gnl|CDD|35383 KOG0161, KOG0161, KOG0161, Myosin class II heavy chain [Cytoskeleton]. Length = 1930 Score = 36.0 bits (83), Expect = 0.045 Identities = 30/139 (21%), Positives = 63/139 (45%), Gaps = 11/139 (7%) Query: 163 KKISPEVIGITSQIEGFSKLADVIAANLSIKVAERQKILEAVSVKE-RLEMLLVFMESEI 221 KK EV+ ++E K L ++ E ++ +EA + K LE ++ E+ Sbjct: 1364 KKFEEEVLQRLEELEELKK-------KLQQRLQELEEQIEAANAKNASLEKAKNRLQQEL 1416 Query: 222 SVLQVEKRIRSRVKRQMEKTQREYYLHEQMKAIQKELDNGEEGRD-EISDFEARISKIRL 280 LQ++ +EK Q+ + + + +K+L+ + D + ++++ Sbjct: 1417 EDLQLDLERSRAAVAALEKKQKRFE--KLLAEWKKKLEKLQAELDAAQRELRQLSTELQK 1474 Query: 281 SKEAREKALSELQKLRQMN 299 K A E+ L +L++LR+ N Sbjct: 1475 LKNALEELLEQLEELRREN 1493 Score = 30.2 bits (68), Expect = 2.3 Identities = 22/100 (22%), Positives = 42/100 (42%), Gaps = 12/100 (12%) Query: 195 AERQKILEAVSVKERLEMLLVFMESEISVLQVEKRIRSRVKRQMEKTQREYYLHEQMKAI 254 AE++ + EA + ERL +E E+ L+ ++E+ ++ K Sbjct: 884 AEKENLAEAEELLERLRAEKQELEKELKELKERLEEEEEKNAELER--------KKRKLE 935 Query: 255 QKELDNGEEGRDEISDFEARISKIRLSKEAREKALSELQK 294 Q+ + E+ + E + K+ L K A E L L++ Sbjct: 936 QEVQELKEQLEEL----ELTLQKLELEKNAAENKLKNLEE 971 Score = 30.2 bits (68), Expect = 2.6 Identities = 29/150 (19%), Positives = 64/150 (42%), Gaps = 13/150 (8%) Query: 160 KLNKKISPEVIGITSQIEGFSKLADVIAANLSIKVAERQKILEAV----SVKERLEMLLV 215 K +K+ E+ + IE K + + L K +E ++ + + +L+ + Sbjct: 1041 KAKRKLEGELKDLQESIEELKKQKEELDNQLKKKESELSQLQSKLEDEQAEVAQLQKQIK 1100 Query: 216 FMESEISVLQ----VEKRIRSRVKRQMEKTQREYYLHEQMKAIQKELDNGEEGRDEI-SD 270 +E+ I L+ E+ R++ +RQ E E++K +E + E+ Sbjct: 1101 ELEARIKELEEELEAERASRAKAERQRRDLSEEL---EELKEELEEQGGTTAAQLELNKK 1157 Query: 271 FEARISKIRLSKEAREKAL-SELQKLRQMN 299 EA + K+R E +++++LR+ + Sbjct: 1158 REAEVQKLRRDLEEETLDHEAQIEELRKKH 1187 Score = 28.3 bits (63), Expect = 9.5 Identities = 28/137 (20%), Positives = 61/137 (44%), Gaps = 5/137 (3%) Query: 157 NYIKLNKKISPEVIGITSQIEGFSKLADVIAANLSIKVAERQKILEAVSVKERLEMLLVF 216 +KL ++ + + ++ E ++ +++ + K +++ E E E Sbjct: 867 KLVKLLEEKNDLQEQLQAEKENLAEAEELLERLRAEKQELEKELKELKERLEEEEEKNAE 926 Query: 217 MESEISVLQVEKRIRSRVKRQMEKTQREYYLHEQMKAIQKELDNGEEGRDEISDFEARIS 276 +E + L+ E + ++E T ++ L + A + +L N EE EI+ + IS Sbjct: 927 LERKKRKLEQEVQELKEQLEELELTLQK--LELEKNAAENKLKNLEE---EINSLDENIS 981 Query: 277 KIRLSKEAREKALSELQ 293 K+ K+ E+ + ELQ Sbjct: 982 KLSKEKKELEERIRELQ 998 >gnl|CDD|37181 KOG1970, KOG1970, KOG1970, Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Energy production and conversion, Replication, recombination and repair]. Length = 634 Score = 35.8 bits (82), Expect = 0.047 Identities = 43/198 (21%), Positives = 63/198 (31%), Gaps = 25/198 (12%) Query: 301 LSAESSVVRNYLDWLLGVPWDKKSKTKKNLDFAIRILDQDHFGLEKVKERIIEYLAVQMR 360 E SV N W +K K + + A+ +K+ E V Sbjct: 53 FDDEESVHLNNEKEDEFELWVEKYKPRTLEELAVH--------KKKISEVKQWLKQVAEF 104 Query: 361 VIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGH----RRTYI 416 K IL GP G GK++ + ++K G Q + S E + + Sbjct: 105 TPKLGSRILLLTGPSGCGKSTTVKVLSKELGYQLIEWSNPINLKEPENLHNETSFLMFPY 164 Query: 417 GSMPGRIIQSLKRAKRSNPLLLLDEIDKMGSDLRGDPSAALLEVLDPAQNSSFVDHYLE- 475 S L RA + L + G DLR D L+E L P Q Sbjct: 165 QSQLAVFESFLLRATKYGSLQMS------GDDLRTDKKLILVEDL-PNQFYRDDSETFRE 217 Query: 476 -----VEYDLSDVMFIMT 488 V ++FI+T Sbjct: 218 VLRLYVSIGRCPLIFIIT 235 >gnl|CDD|35952 KOG0733, KOG0733, KOG0733, Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]. Length = 802 Score = 35.7 bits (82), Expect = 0.047 Identities = 26/83 (31%), Positives = 42/83 (50%), Gaps = 16/83 (19%) Query: 366 GLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHR--RTYIGSMPGRI 423 G++LC GPPG GKT LA+++A G ++ ++G Y+G + Sbjct: 547 GVLLC--GPPGCGKTLLAKAVANEAGANFI-----------SVKGPELLNKYVGESERAV 593 Query: 424 IQSLKRAKRSNP-LLLLDEIDKM 445 Q +RA+ S P ++ DEID + Sbjct: 594 RQVFQRARASAPCVIFFDEIDAL 616 Score = 35.4 bits (81), Expect = 0.065 Identities = 24/76 (31%), Positives = 38/76 (50%), Gaps = 10/76 (13%) Query: 373 GPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLKRAKR 432 GPPG GKTSLA +IA G ++ +S + + G G +I + +AK Sbjct: 230 GPPGCGKTSLANAIAGELGVPFLSISAPEI-----VSG----VSGESEKKIRELFDQAKS 280 Query: 433 SNP-LLLLDEIDKMGS 447 + P ++ +DEID + Sbjct: 281 NAPCIVFIDEIDAITP 296 >gnl|CDD|35961 KOG0742, KOG0742, KOG0742, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 630 Score = 35.8 bits (82), Expect = 0.049 Identities = 21/57 (36%), Positives = 31/57 (54%), Gaps = 3/57 (5%) Query: 349 ERIIEYLAVQMRVIK-NKGLI--LCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGV 402 E+ IE LA+ K ++ + F GPPG GKT A+ +A+ +G Y M+ G V Sbjct: 364 EKRIEDLAIATANTKKHQAPFRNILFYGPPGTGKTMFARELARHSGLDYAIMTGGDV 420 >gnl|CDD|35957 KOG0738, KOG0738, KOG0738, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 491 Score = 35.3 bits (81), Expect = 0.060 Identities = 40/159 (25%), Positives = 69/159 (43%), Gaps = 27/159 (16%) Query: 365 KGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRII 424 KG+++ VGPPG GKT LA+++A G + +S + + RG + R++ Sbjct: 246 KGVLM--VGPPGTGKTLLAKAVATECGTTFFNVSSSTL--TSKWRGESEKLV-----RLL 296 Query: 425 QSLKRAKRSNPLLLLDEIDKMGSDLRGDPS---------AALLEVLDPAQNSS------F 469 + R + + +DEID + S RG S + LL +D Q + Sbjct: 297 FEMAR-FYAPSTIFIDEIDSLCSQ-RGGSSEHEASRRVKSELLVQMDGVQGTLENSKVVM 354 Query: 470 VDHYLEVEYDLSDVMFIMTANTLNIPLPLMD-RMEIIRI 507 V +D+ + + + IPLP + R +I+I Sbjct: 355 VLAATNFPWDIDEALRRRLEKRIYIPLPDAEARSALIKI 393 >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 = 35.4 bits (82), Expect = 0.068 Identities = 26/107 (24%), Positives = 41/107 (38%), Gaps = 16/107 (14%) Query: 369 LCFVGPPGVGKTSLAQSIAK--ATGR-----QYV------RMSLGGVYDEAD-IRGHRRT 414 + G G GKT+L Q +A A G+ +V +S G AD + Sbjct: 3 VILQGEAGSGKTTLLQKLALLWAQGKLPQDFDFVFFLPCRELSRSGEASLADLLFSQWPE 62 Query: 415 YIGSMPGRIIQSLKRAKRSNPLLLLDEIDKMGSDLRGDPSAALLEVL 461 + L+ +R LL+LD +D++ SDL + L Sbjct: 63 PAAPVSEVWAVILELPERV--LLILDGLDELASDLGQLDGPLPVLTL 107 >gnl|CDD|35946 KOG0727, KOG0727, KOG0727, 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]. Length = 408 Score = 35.4 bits (81), Expect = 0.070 Identities = 23/76 (30%), Positives = 41/76 (53%), Gaps = 10/76 (13%) Query: 373 GPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLKRAKR 432 GPPG GKT LA+++A T ++R+ +G + + Y+G P + + AK Sbjct: 196 GPPGTGKTMLAKAVANHTTAAFIRV-VGSEFVQ--------KYLGEGPRMVRDVFRLAKE 246 Query: 433 SNP-LLLLDEIDKMGS 447 + P ++ +DEID + + Sbjct: 247 NAPSIIFIDEIDAIAT 262 >gnl|CDD|35832 KOG0612, KOG0612, KOG0612, Rho-associated, coiled-coil containing protein kinase [Signal transduction mechanisms]. Length = 1317 Score = 34.6 bits (79), Expect = 0.11 Identities = 52/242 (21%), Positives = 93/242 (38%), Gaps = 16/242 (6%) Query: 142 VELEALSRSVIAEFSNYIKLNKKISPEVIGITSQIE-GFSKLADVIAANLSIKVAERQKI 200 E R E S I+ + + ++ S +E SKL+ S ER++ Sbjct: 559 SEDAGKLRKHSKELSKQIQQELEENRDLEDKLSLLEESKSKLSKENKKLRSELEKERRQR 618 Query: 201 LEAVSVKERLEMLLVFMESEISVLQVEKRIRSRVKR-------QMEKTQREYYLHEQMKA 253 E + L+ + +E + + E +KR EK E L ++K Sbjct: 619 TEISEIIAELKEEISSLEETLKAGKKELLKVEELKRENQERISDSEKEALEIKLERKLKM 678 Query: 254 IQKELD--NGEEGRDEISDFEAR----ISKIRLSKEAREKALSELQKL-RQMNPLSAESS 306 +Q EL+ N E R + D EA+ SK+ K AREKA + L ++ ++ LS + Sbjct: 679 LQNELEQENAEHHRLRLQDKEAQMKEIESKLSEEKSAREKAENLLLEIEAELEYLSNDYK 738 Query: 307 VVRNYLDWLLGVPWDKKSKTKKNLDFAIRILDQDHFGLEKVKERIIEYLAVQMRVIKNKG 366 + L+ L D+ L + L++ + + + +M + K Sbjct: 739 QSQEKLNELRRSK-DQLITEVLKLQSMLEQEISKRLSLQRELKSQEQEVNTKMLEKQLKK 797 Query: 367 LI 368 L+ Sbjct: 798 LL 799 >gnl|CDD|143799 pfam00006, ATP-synt_ab, ATP synthase alpha/beta family, nucleotide-binding domain. This family includes the ATP synthase alpha and beta subunits, the ATP synthase associated with flagella and the termination factor Rho. Length = 213 Score = 34.7 bits (81), Expect = 0.11 Identities = 9/32 (28%), Positives = 13/32 (40%) Query: 369 LCFVGPPGVGKTSLAQSIAKATGRQYVRMSLG 400 + G G GKT L IA+ V + + Sbjct: 18 IGIFGGSGTGKTVLLGMIARNAKADVVEVYVL 49 >gnl|CDD|37180 KOG1969, KOG1969, KOG1969, DNA replication checkpoint protein CHL12/CTF18 [Energy production and conversion, Replication, recombination and repair]. Length = 877 Score = 34.6 bits (79), Expect = 0.11 Identities = 18/35 (51%), Positives = 22/35 (62%), Gaps = 2/35 (5%) Query: 363 KNKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRM 397 K L+LC GPPG+GKT+LA IAK G V + Sbjct: 325 PKKILLLC--GPPGLGKTTLAHVIAKQAGYSVVEI 357 >gnl|CDD|35960 KOG0741, KOG0741, KOG0741, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 744 Score = 34.6 bits (79), Expect = 0.11 Identities = 15/46 (32%), Positives = 27/46 (58%), Gaps = 1/46 (2%) Query: 353 EYLAVQMRVIKNKGLILCFV-GPPGVGKTSLAQSIAKATGRQYVRM 397 + L Q++ + L+ + GPPG GKT+LA IA ++ +V++ Sbjct: 524 KLLVQQVKNSERSPLVSVLLEGPPGSGKTALAAKIALSSDFPFVKI 569 Score = 29.5 bits (66), Expect = 3.8 Identities = 14/31 (45%), Positives = 20/31 (64%), Gaps = 2/31 (6%) Query: 358 QMRVIKNKGLILCFVGPPGVGKTSLAQSIAK 388 Q+ + KG++L GPPG GKT +A+ I K Sbjct: 250 QLGIKHVKGILL--YGPPGTGKTLIARQIGK 278 >gnl|CDD|32629 COG2766, PrkA, Putative Ser protein kinase [Signal transduction mechanisms]. Length = 649 Score = 34.5 bits (79), Expect = 0.12 Identities = 26/126 (20%), Positives = 52/126 (41%), Gaps = 5/126 (3%) Query: 269 SDFEARISKIRLSKEAREKALSELQKLRQMNPLSAESSVVRNYLDWLLGVPWDKKSKTKK 328 D + + + E E + +P ++ R D + + Sbjct: 1 MDIFDHVEERYEEAKKEEGTFQEYLAACKEDPTVYANAHERLADAIGDPEMVDTEHDGRL 60 Query: 329 NLDFAIRILD-----QDHFGLEKVKERIIEYLAVQMRVIKNKGLILCFVGPPGVGKTSLA 383 + F+ R++D D FG+E+ E+I+ Y + ++ + IL +GP G GK+SLA Sbjct: 61 SRIFSNRVIDRYPAFNDFFGMEESIEQIVGYFKHAAQGLEERKQILYLLGPVGGGKSSLA 120 Query: 384 QSIAKA 389 + + + Sbjct: 121 ERLKRL 126 >gnl|CDD|35947 KOG0728, KOG0728, KOG0728, 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]. Length = 404 Score = 34.2 bits (78), Expect = 0.13 Identities = 49/178 (27%), Positives = 77/178 (43%), Gaps = 35/178 (19%) Query: 365 KGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRII 424 KG++L GPPG GKT LA+++A T ++R+S + + YIG + Sbjct: 182 KGVLL--YGPPGTGKTLLARAVAHHTDCTFIRVSGSELVQK---------YIGEGSRMVR 230 Query: 425 QSLKRAKRSNP-LLLLDEIDKMGSDLRGDPSAA--------LLEVLDPAQNSSFVDHYLE 475 + A+ P ++ +DEID +GS R + + +LE+L+ Q F Sbjct: 231 ELFVMAREHAPSIIFMDEIDSIGSS-RVESGSGGDSEVQRTMLELLN--QLDGFEAT--- 284 Query: 476 VEYDLSDVMFIMTANTLNIPLPLMDRM----EIIRIAGYTEEEKLQIAKNHLVKKVLT 529 ++ IM N ++I P + R I EE +L I K H K LT Sbjct: 285 -----KNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKMNLT 337 >gnl|CDD|177094 CHL00195, ycf46, Ycf46; Provisional. Length = 489 Score = 34.2 bits (79), Expect = 0.13 Identities = 52/173 (30%), Positives = 84/173 (48%), Gaps = 37/173 (21%) Query: 365 KGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRII 424 +GL+L VG G GK+ A++IA +R+ +G ++ I +G R+ Sbjct: 260 RGLLL--VGIQGTGKSLTAKAIANDWQLPLLRLDVGKLF--GGI-------VGESESRMR 308 Query: 425 QSLKRAKRSNPLLL-LDEIDKM--GSDLRGDPSAALLEVLDPAQNSSFVDHYLEVEYDLS 481 Q ++ A+ +P +L +DEIDK S+ +GD S VL ++F+ E + S Sbjct: 309 QMIRIAEALSPCILWIDEIDKAFSNSESKGD-SGTTNRVL-----ATFITWLSEKK---S 359 Query: 482 DVMFIMTANTLNIPLPLMDRMEIIRIAGYTE---------EEKLQIAKNHLVK 525 V + TAN +++ LPL EI+R + E EE+ +I K HL K Sbjct: 360 PVFVVATANNIDL-LPL----EILRKGRFDEIFFLDLPSLEEREKIFKIHLQK 407 >gnl|CDD|35948 KOG0729, KOG0729, KOG0729, 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]. Length = 435 Score = 34.2 bits (78), Expect = 0.15 Identities = 22/81 (27%), Positives = 40/81 (49%), Gaps = 13/81 (16%) Query: 368 ILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSL 427 +L + GPPG GKT A+++A T ++R+ + + Y+G R+++ L Sbjct: 214 VLLY-GPPGTGKTLCARAVANRTDACFIRVIGSELVQK---------YVGE-GARMVREL 262 Query: 428 KRAKRSNP--LLLLDEIDKMG 446 R+ ++ DEID +G Sbjct: 263 FEMARTKKACIIFFDEIDAIG 283 >gnl|CDD|30759 COG0410, LivF, ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]. Length = 237 Score = 34.3 bits (79), Expect = 0.16 Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 7/57 (12%) Query: 364 NKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRG---HRRTYIG 417 +G I+ +G G GKT+L ++I + R+ G DI G H R +G Sbjct: 27 ERGEIVALLGRNGAGKTTLLKTIMGLVRPRSGRIIFDG----EDITGLPPHERARLG 79 >gnl|CDD|147593 pfam05496, RuvB_N, Holliday junction DNA helicase ruvB N-terminus. The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein. Length = 234 Score = 34.0 bits (79), Expect = 0.18 Identities = 12/21 (57%), Positives = 14/21 (66%) Query: 371 FVGPPGVGKTSLAQSIAKATG 391 GPPG+GKT+LA IA G Sbjct: 55 LYGPPGLGKTTLANIIANEMG 75 >gnl|CDD|32099 COG1915, COG1915, Uncharacterized conserved protein [Function unknown]. Length = 415 Score = 33.7 bits (77), Expect = 0.20 Identities = 20/57 (35%), Positives = 29/57 (50%) Query: 345 EKVKERIIEYLAVQMRVIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGG 401 E+ E +IE +A ++R I++KG + V P V T AQ +A YV L G Sbjct: 179 ERPVETLIEQIAWEIREIRDKGGKIVVVAGPAVIHTGAAQHLAHLIREGYVDALLAG 235 >gnl|CDD|109812 pfam00769, ERM, Ezrin/radixin/moesin family. This family of proteins contain a band 4.1 domain (pfam00373), at their amino terminus. This family represents the rest of these proteins. Length = 244 Score = 33.6 bits (77), Expect = 0.22 Identities = 17/89 (19%), Positives = 42/89 (47%), Gaps = 6/89 (6%) Query: 211 EMLLVFMESEISVLQVEKRIRSRVKRQMEKT-QREYYLHEQMKAIQKELDNGEEGR---- 265 E E + L++E++ + + + + ++ L E+ + +++E EE R Sbjct: 23 RAQKELEEYEETALELEEK-LKQEEEEAQLLEKKADELEEENRRLEEEAAASEEERERLE 81 Query: 266 DEISDFEARISKIRLSKEAREKALSELQK 294 E+ + A ++K+ +E +E +LQ+ Sbjct: 82 AEVDEATAEVAKLEEEREKKEAETRQLQQ 110 >gnl|CDD|35871 KOG0652, KOG0652, KOG0652, 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]. Length = 424 Score = 33.5 bits (76), Expect = 0.22 Identities = 32/137 (23%), Positives = 64/137 (46%), Gaps = 28/137 (20%) Query: 343 GLEKVKERIIEYLAVQMR---------VIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQ 393 GL+K + ++E + + M + KG+++ GPPG GKT +A++ A T Sbjct: 175 GLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLM--YGPPGTGKTLMARACAAQTNAT 232 Query: 394 YVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLKRAKRSNP-LLLLDEIDKMG-----S 447 +++++ + + +IG + + AK P ++ +DE+D +G S Sbjct: 233 FLKLAGPQLV---------QMFIGDGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDS 283 Query: 448 DLRGDPSA--ALLEVLD 462 + GD +LE+L+ Sbjct: 284 EKAGDREVQRTMLELLN 300 >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 = 33.0 bits (76), Expect = 0.33 Identities = 26/81 (32%), Positives = 39/81 (48%), Gaps = 18/81 (22%) Query: 367 LILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRG--------HRRTYIGS 418 L++ VGPPGVGKT+L +S+ K Y + ++ DI+G RR Sbjct: 40 LVVAVVGPPGVGKTTLIKSLVK----NYTKQNIS------DIKGPITVVTGKKRRLTFIE 89 Query: 419 MPGRIIQSLKRAKRSNPLLLL 439 P I + AK ++ +LLL Sbjct: 90 CPNDINAMIDIAKVADLVLLL 110 >gnl|CDD|35963 KOG0744, KOG0744, KOG0744, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 423 Score = 33.0 bits (75), Expect = 0.33 Identities = 19/51 (37%), Positives = 28/51 (54%), Gaps = 10/51 (19%) Query: 347 VKERIIEYLAVQMR---------VIKNKGLILCFVGPPGVGKTSLAQSIAK 388 +KER++ Y A + +I LIL GPPG GKTSL +++A+ Sbjct: 150 LKERLLSYAASALLFSEKKVNTNLITWNRLIL-LHGPPGTGKTSLCKALAQ 199 >gnl|CDD|110446 pfam01443, Viral_helicase1, Viral (Superfamily 1) RNA helicase. Helicase activity for this family has been demonstrated and NTPase activity. This helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis. Length = 226 Score = 33.1 bits (76), Expect = 0.35 Identities = 22/120 (18%), Positives = 44/120 (36%), Gaps = 21/120 (17%) Query: 373 GPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQS--LKRA 430 G PG GK++L + + + A++R + + ++ R + + + Sbjct: 5 GVPGCGKSTLIRKLLRTDLTVIRPT--------AELRTEGKPDLPNLNVRTVDTFLMALL 56 Query: 431 KRSNPLLLLDEIDKMGS----DLRGDPSAALLEVL-DPAQ------NSSFVDHYLEVEYD 479 K + +L+LDE + L A L+ + DP Q SF+ + Sbjct: 57 KPTGKILILDEYTLLPPGYILLLAAISGAKLVILFGDPLQIPYHSRAPSFLIAHFPSSLS 116 >gnl|CDD|31805 COG1618, COG1618, Predicted nucleotide kinase [Nucleotide transport and metabolism]. Length = 179 Score = 32.9 bits (75), Expect = 0.36 Identities = 22/103 (21%), Positives = 35/103 (33%), Gaps = 32/103 (31%) Query: 373 GPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRT------------------ 414 G PGVGKT+L IA+ + +GG G +R Sbjct: 12 GRPGVGKTTLVLKIAEKLREK--GYKVGGFITPEVREGGKRIGFKIVDLATGEEGILARV 69 Query: 415 ------------YIGSMPGRIIQSLKRAKRSNPLLLLDEIDKM 445 + + I +L+RA ++++DEI M Sbjct: 70 GFSRPRVGKYGVNVEGLEEIAIPALRRALEEADVIIIDEIGPM 112 >gnl|CDD|31417 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein [Transcription]. Length = 450 Score = 32.5 bits (74), Expect = 0.42 Identities = 21/56 (37%), Positives = 30/56 (53%), Gaps = 5/56 (8%) Query: 353 EYLAVQMRVIKNK---GLILCFVGPPGVGKTSLAQSIAKATGRQ--YVRMSLGGVY 403 E V +++IK G + VGPPG GKT+LA IA+ G +V +S +Y Sbjct: 49 EAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEIY 104 >gnl|CDD|30768 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]. Length = 908 Score = 32.7 bits (74), Expect = 0.42 Identities = 24/120 (20%), Positives = 48/120 (40%), Gaps = 7/120 (5%) Query: 186 IAANLSIKVAERQKILEAVSVKERLEMLLVFM-------ESEISVLQVEKRIRSRVKRQM 238 A L K ER++IL+ + E+ E L + +++I L+ + + Sbjct: 145 FDAFLKSKPKERKEILDELFGLEKYEKLSELLKEVIKEAKAKIEELEGQLSELLEDIEDL 204 Query: 239 EKTQREYYLHEQMKAIQKELDNGEEGRDEISDFEARISKIRLSKEAREKALSELQKLRQM 298 + E + +E EE EI E R++++ KE E+ + L ++ + Sbjct: 205 LEALEEELKELKKLEEIQEEQEEEELEQEIEALEERLAELEEEKERLEELKARLLEIESL 264 >gnl|CDD|38557 KOG3347, KOG3347, KOG3347, Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]. Length = 176 Score = 32.5 bits (74), Expect = 0.44 Identities = 12/26 (46%), Positives = 20/26 (76%) Query: 373 GPPGVGKTSLAQSIAKATGRQYVRMS 398 G PG GK++LA+ +A+ TG +Y+ +S Sbjct: 14 GTPGTGKSTLAERLAEKTGLEYIEIS 39 >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 = 32.6 bits (74), Expect = 0.45 Identities = 19/62 (30%), Positives = 27/62 (43%), Gaps = 6/62 (9%) Query: 364 NKGLILCFVGPPGVGKTSLAQSIA----KATGRQYVRMSLGGVYDEADIRGHRRTYIGSM 419 G L GP G GKT+L + +A GR V ++ G + + D Y+G Sbjct: 24 AAGEALQVTGPNGSGKTTLLRILAGLSPPLAGR--VLLNGGPLDFQRDSIARGLLYLGHA 81 Query: 420 PG 421 PG Sbjct: 82 PG 83 >gnl|CDD|30834 COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]. Length = 530 Score = 32.5 bits (74), Expect = 0.46 Identities = 32/157 (20%), Positives = 58/157 (36%), Gaps = 24/157 (15%) Query: 235 KRQMEKTQREYYLHEQMKAIQKELDNGEEGRDEISDFEARISKIRLSKEAREKALSELQK 294 ++ Q +Q K + KE + I +A SK + +K +R K L +L+ Sbjct: 241 QKAERLRQEAAAYEKQQKELAKEQEW-------IRRGKAAASKAKKAK-SRIKRLEKLEA 292 Query: 295 LRQMNPLSAESSVVRNYLDWLLGVPWDKKSKTKKNLDFAIRILDQDHFGLEKVKERIIEY 354 E + P K K L+F ++ R++ Sbjct: 293 RLAEERPVEEGKPLA------FRFPPPGKRLGKLVLEF-------ENVSKGYDGGRLL-L 338 Query: 355 LAVQMRVIKNKGLILCFVGPPGVGKTSLAQSIAKATG 391 + R+ ++G + VGP G GK++L + +A G Sbjct: 339 KDLSFRI--DRGDRIAIVGPNGAGKSTLLKLLAGELG 373 >gnl|CDD|144592 pfam01057, Parvo_NS1, Parvovirus non-structural protein NS1. This family also contains the NS2 protein. Parvoviruses encode two non-structural proteins, NS1 and NS2. The mRNA for NS2 contains the coding sequence for the first 87 amino acids of NS1, then by an alternative splicing mechanism mRNA from a different reading frame, encoding the last 78 amino acids, makes up the full length of the NS2 mRNA. NS1, is the major non-structural protein. It is essential for DNA replication. It is an 83-kDa nuclear phosphoprotein. It has DNA helicase and ATPase activity. Length = 271 Score = 32.7 bits (75), Expect = 0.48 Identities = 12/24 (50%), Positives = 15/24 (62%) Query: 369 LCFVGPPGVGKTSLAQSIAKATGR 392 + F GP GKT+LAQ+IA A Sbjct: 116 VWFYGPASTGKTNLAQAIAHAVPL 139 >gnl|CDD|144508 pfam00931, NB-ARC, NB-ARC domain. Length = 285 Score = 32.3 bits (74), Expect = 0.55 Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 6/52 (11%) Query: 345 EKVKERIIEYLAVQMRVIKNKGLILCFVGPPGVGKTSLAQSIAK--ATGRQY 394 E + E +IE L + + +N G ++ VG GVGKT+LA+ I + G + Sbjct: 2 EDMIEALIEKL---LEMSENLG-VVGIVGMGGVGKTTLAKQIYNDDSVGGHF 49 >gnl|CDD|35962 KOG0743, KOG0743, KOG0743, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 457 Score = 32.2 bits (73), Expect = 0.60 Identities = 29/111 (26%), Positives = 44/111 (39%), Gaps = 33/111 (29%) Query: 345 EKVKERIIEYLAVQMRVIKNK------------GLILCFVGPPGVGKTSLAQSIAKATGR 392 +KERII+ L IK K G +L GPPG GK+S ++A Sbjct: 207 PDLKERIIDDLD---DFIKGKDFYKRVGKAWKRGYLL--YGPPGTGKSSFIAAMANYLNY 261 Query: 393 QYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLKRAKRSNPLLLLDEID 443 + L V ++D+R L A + +LL+++ID Sbjct: 262 DIYDLELTEVKLDSDLR----------------HLLLATPNKSILLIEDID 296 >gnl|CDD|177027 CHL00095, clpC, Clp protease ATP binding subunit. Length = 821 Score = 32.3 bits (74), Expect = 0.61 Identities = 35/130 (26%), Positives = 53/130 (40%), Gaps = 30/130 (23%) Query: 323 KSKTKKNLDFAIRILDQDHFGLEKVKERIIEYLAVQMRVIKNKGLILCFVGPPGVGKTS- 381 K NLD I G EK ER+I+ L R KN +++ G PGVGKT+ Sbjct: 171 KEAIDGNLDPVI--------GREKEIERVIQILG---RRTKNNPILI---GEPGVGKTAI 216 Query: 382 ---LAQSIAKAT------GRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLKRAKR 432 LAQ I + + + +G + RG + RI ++ Sbjct: 217 AEGLAQRIVNRDVPDILEDKLVITLDIGLLLAGTKYRGEFEERL----KRIFDEIQENN- 271 Query: 433 SNPLLLLDEI 442 N +L++DE+ Sbjct: 272 -NIILVIDEV 280 Score = 29.6 bits (67), Expect = 3.8 Identities = 41/134 (30%), Positives = 59/134 (44%), Gaps = 31/134 (23%) Query: 371 FVGPPGVGKTSLAQSIAK---ATGRQYVR--MSLGGVYDEADIRGHRRT---YIGSMPGR 422 F GP GVGKT L +++A + +R MS Y E + T IGS PG Sbjct: 544 FSGPTGVGKTELTKALASYFFGSEDAMIRLDMS---EYME------KHTVSKLIGSPPGY 594 Query: 423 IIQS----LKRAKRSNP--LLLLDEIDKMGSDLRGDPSAALLEVLDPAQNSSFVDHYLEV 476 + + L A R P ++L DEI+K D+ LL++LD + D Sbjct: 595 VGYNEGGQLTEAVRKKPYTVVLFDEIEKAHPDIFN----LLLQILD---DGRLTDSKGRT 647 Query: 477 EYDLSDVMFIMTAN 490 D + + IMT+N Sbjct: 648 -IDFKNTLIIMTSN 660 >gnl|CDD|36195 KOG0977, KOG0977, KOG0977, Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning, Nuclear structure]. Length = 546 Score = 31.8 bits (72), Expect = 0.72 Identities = 44/245 (17%), Positives = 95/245 (38%), Gaps = 18/245 (7%) Query: 123 REDFLEAITQVLPDPTEDPVELEALSRSVIAEFSNYIKLNKKISPEVIGITSQIEGFSKL 182 R+ +A + + L LS + AE + + K + E+ + ++ + Sbjct: 126 RKKLEKAEKERRGAREKLDDYLSRLS-ELEAEINTLKRRIKALEDELKRLKAENSRLREE 184 Query: 183 ADVIAANLSIKVAERQKILEAV-SVKERLEMLLVFMESEISVLQVEKRIRSRVKRQMEKT 241 L + R + V ++ E L L + EI + R + +R Sbjct: 185 LARARKQLDDETLLRVDLQNRVQTLLEELAFLKRIHKQEI------EEERRKARRDTTAD 238 Query: 242 QREYYLHEQMKAIQ----KELDNGEEGRDEISD-FEARISKIRLSKE----AREKALSEL 292 REY+ +E AI+ + + R +I ++ +I +IR S E + A EL Sbjct: 239 NREYFKNELALAIREIRAQYEAISRQNRKDIESWYKRKIQEIRTSAERANVEQNYAREEL 298 Query: 293 QKLR-QMNPLSAESSVVRNYLDWLLGVPWDKKSKTKKNLDFAIRILDQDHFGLEKVKERI 351 +++R +++ L A+ S + + L D + + ++ + L+ + K++E Sbjct: 299 RRIRSRISGLRAKLSELESRNSALEKRIEDLEYQLDEDQRSFEQALNDKDAEIAKMREEC 358 Query: 352 IEYLA 356 + Sbjct: 359 QQLSV 363 Score = 29.9 bits (67), Expect = 2.7 Identities = 40/214 (18%), Positives = 80/214 (37%), Gaps = 31/214 (14%) Query: 116 RIVEYIEREDFLEAITQVLPDPTEDPVELEALSRSVIAEFSNY-IKLNKKISPEVIGITS 174 R+ YIE+ FLEA + L ++ L V E S K +++ + Sbjct: 50 RLAVYIEKVRFLEAQNRKL------EHDINLLRGVVGRETSGIKAKYEAELATARKLLDE 103 Query: 175 QIEGFSKLADVIA------ANLSIKVAERQKILEAVSVKERLEM-LLVFMESEISVLQVE 227 +KL I L K+ + +K K + L +E+EI+ L+ Sbjct: 104 TARERAKLEIEITKLREELKELRKKLEKAEKERRGAREKLDDYLSRLSELEAEINTLKRR 163 Query: 228 KRI----RSRVKRQMEKTQREYYLHEQMKAIQKELDNGEEGRDEISDFEARIS----KIR 279 + R+K + + L E++ +K+LD+ R D + R+ ++ Sbjct: 164 IKALEDELKRLKAENSR------LREELARARKQLDDETLLR---VDLQNRVQTLLEELA 214 Query: 280 LSKEAREKALSELQKLRQMNPLSAESSVVRNYLD 313 K ++ + E ++ + + + +N L Sbjct: 215 FLKRIHKQEIEEERRKARRDTTADNREYFKNELA 248 >gnl|CDD|35954 KOG0735, KOG0735, KOG0735, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 952 Score = 31.9 bits (72), Expect = 0.79 Identities = 31/123 (25%), Positives = 52/123 (42%), Gaps = 25/123 (20%) Query: 343 GLEKVKERIIEYLA---------VQMRVIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQ 393 GL + K+ + E + + G++L GPPG GKT LA +IA + + Sbjct: 671 GLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILL--YGPPGCGKTLLASAIASNSNLR 728 Query: 394 YVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLKRAKRSNP-LLLLDEID----KMGSD 448 ++ + + + YIG+ + +RA+ + P +L DE D K G D Sbjct: 729 FISVKGPELLSK---------YIGASEQNVRDLFERAQSAKPCILFFDEFDSIAPKRGHD 779 Query: 449 LRG 451 G Sbjct: 780 STG 782 >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 = 31.7 bits (72), Expect = 0.85 Identities = 32/119 (26%), Positives = 50/119 (42%), Gaps = 30/119 (25%) Query: 366 GLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGV----YDEADIRGHRRTYIGSMP- 420 G L +GP G GK++LA+ I R+ L G +D ++ H +G +P Sbjct: 28 GESLAIIGPSGSGKSTLARLILGLLRPTSGRVRLDGADISQWDPNELGDH----VGYLPQ 83 Query: 421 ------GRIIQS-----------LKRAKRSNP-LLLLDEIDKMGSDLRGDPSAALLEVL 461 G I ++ L RA NP +L+LDE + S L + AL + + Sbjct: 84 DDELFSGSIAENILSGGQRQRLGLARALYGNPRILVLDEPN---SHLDVEGERALNQAI 139 >gnl|CDD|36919 KOG1707, KOG1707, KOG1707, Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]. Length = 625 Score = 31.5 bits (71), Expect = 0.88 Identities = 21/89 (23%), Positives = 27/89 (30%), Gaps = 21/89 (23%) Query: 369 LCFV-GPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSL 427 CFV GP GK++L QS R G+ R + Sbjct: 427 QCFVVGPKNCGKSALLQSFLG--------------------RSMSDNNTGTTKPRYAVNS 466 Query: 428 KRAKRSNPLLLLDEIDKMGSDLRGDPSAA 456 K L+L EI + D AA Sbjct: 467 VEVKGQQKYLILREIGEDDQDFLTSKEAA 495 >gnl|CDD|30188 cd00464, SK, Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.. Length = 154 Score = 31.7 bits (72), Expect = 0.89 Identities = 10/25 (40%), Positives = 16/25 (64%) Query: 371 FVGPPGVGKTSLAQSIAKATGRQYV 395 +G G GKT++ + +AKA G +V Sbjct: 4 LIGMMGAGKTTVGRLLAKALGLPFV 28 >gnl|CDD|36703 KOG1490, KOG1490, KOG1490, GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]. Length = 620 Score = 31.5 bits (71), Expect = 0.98 Identities = 37/164 (22%), Positives = 70/164 (42%), Gaps = 15/164 (9%) Query: 228 KRIRSRVKRQMEKTQREYYLHEQMKAIQKELDNGEEGRDEISDFEARISKIRLSKEAREK 287 RIR R+++ TQ L E++ I +E ++I F A + I ++ + Sbjct: 41 SRIRQFYARKVKFTQTT--LTEKLDDILQEFPK----LNDIHPFYADLLNILYDRDHYKI 94 Query: 288 ALSELQKLRQMNPLSAESSVVRNYLDWLLGVPWDKKSKTKKN--LDFAIRILDQDHFGLE 345 AL ++ + + +V R+Y+ L + K K L I+ + LE Sbjct: 95 ALGQVSTAKHL-----VENVARDYVRLLKYGDSLYRCKQLKRAALGRMATIIKRQKSSLE 149 Query: 346 KVKERIIEYLAVQMRVIKNKGLILCFVGPPGVGKTSLAQSIAKA 389 + E++ ++L+ ++ I L G P VGK+S + +A Sbjct: 150 YL-EQVRQHLS-RLPAIDPNTRTLLVCGYPNVGKSSFNNKVTRA 191 >gnl|CDD|39860 KOG4661, KOG4661, KOG4661, Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]. Length = 940 Score = 31.3 bits (70), Expect = 0.99 Identities = 25/114 (21%), Positives = 46/114 (40%) Query: 196 ERQKILEAVSVKERLEMLLVFMESEISVLQVEKRIRSRVKRQMEKTQREYYLHEQMKAIQ 255 ERQ+I E ++R + + E E + + R R + + E+ +RE E+MK + Sbjct: 625 ERQRIREEREREQRRKAAVEREELERLKAERLRLERQRQRLERERMERERLERERMKVEE 684 Query: 256 KELDNGEEGRDEISDFEARISKIRLSKEAREKALSELQKLRQMNPLSAESSVVR 309 + D E E + + +R +E R + R+ + ES Sbjct: 685 ERRDEQERIHREREELRRQQETLRYEQERRPRFRRPYDLDRRDDAYWPESKRKA 738 Score = 30.9 bits (69), Expect = 1.4 Identities = 15/77 (19%), Positives = 32/77 (41%) Query: 222 SVLQVEKRIRSRVKRQMEKTQREYYLHEQMKAIQKELDNGEEGRDEISDFEARISKIRLS 281 +KR R +R+ E+ QR E+ + + ++ E R + + RL Sbjct: 607 RERSFDKRKEERRRREAEERQRIREEREREQRRKAAVEREELERLKAERLRLERQRQRLE 666 Query: 282 KEAREKALSELQKLRQM 298 +E E+ E ++++ Sbjct: 667 RERMERERLERERMKVE 683 >gnl|CDD|35883 KOG0664, KOG0664, KOG0664, Nemo-like MAPK-related serine/threonine protein kinase [Signal transduction mechanisms]. Length = 449 Score = 31.2 bits (70), Expect = 1.0 Identities = 30/92 (32%), Positives = 45/92 (48%), Gaps = 7/92 (7%) Query: 398 SLGGVYDEADIRGHRRTYIGSMPGRIIQSLKRAKRSNPLLLLDEIDKMGSDLRGDPSAAL 457 + G V+ D R +R + MP + Q+L KR + EI KM S R D +L Sbjct: 65 AFGVVWSVTDPRSGKRVALKKMP-NVFQNLASCKR-----VFREI-KMLSSFRHDNVLSL 117 Query: 458 LEVLDPAQNSSFVDHYLEVEYDLSDVMFIMTA 489 L++L PA S F + Y+ E SD+ I+ + Sbjct: 118 LDILQPANPSFFQELYVLTELMQSDLHKIIVS 149 >gnl|CDD|37179 KOG1968, KOG1968, KOG1968, Replication factor C, subunit RFC1 (large subunit) [Replication, recombination and repair]. Length = 871 Score = 31.6 bits (71), Expect = 1.0 Identities = 47/271 (17%), Positives = 91/271 (33%), Gaps = 26/271 (9%) Query: 199 KILEAVSVKERLEMLLVFMESEISVLQVEKRIRSRVKRQMEKTQREYYLHEQMKAIQKEL 258 + S + L+ F S+ L +K + S + + + E ++ + +E Sbjct: 186 DDIGTGSAEPSLK---EFGASKTESLS-DKTVESCLGDEAIAKKLEKIKELEIPVLLEER 241 Query: 259 DNGEEGRDEISDFEARISKIRLSKEAREKALS---ELQKLRQMNPLSAESSVVRNYLDWL 315 + E ++ K R E E + S E R+ +S+ V + + Sbjct: 242 KELFAPLLALQKDEPKVKKARRKSEEGETSSSKKAEKPTARK-----RKSNKVIQFSEPR 296 Query: 316 LGVPWDKKSKTKKNLDFAIRILDQDHFGLEKVKERIIEYLAVQMRVIKN----------K 365 K S+ + + G ++ ++LA K+ K Sbjct: 297 KAYSPAKSSEGAGWTEKYQPTSSKALEGNASSSKKASKWLAKSKDKEKSSYKENEPDSSK 356 Query: 366 GLILCFVGPPGVGKTSLAQSIAKATGRQYVR----MSLGGVYDEADIRGHRRTYIGSMPG 421 L GPPG+GKT+ A AK G + V + ++ Sbjct: 357 KKALLLSGPPGIGKTTAAHKAAKELGFKVVEKNASDVRSKKELLNKLGNATSSHSIKGSK 416 Query: 422 RIIQSLKRAKRSNPLLLLDEIDKMGSDLRGD 452 + + + + L+L+DE+D M + RG Sbjct: 417 KKKGNRQSLNSDHFLILMDEVDGMFGEDRGG 447 >gnl|CDD|144817 pfam01365, RYDR_ITPR, RIH domain. The RIH (RyR and IP3R Homology) domain is an extracellular domain from two types of calcium channels. This region is found in the ryanodine receptor and the inositol-1,4,5- trisphosphate receptor. This domain may form a binding site for IP3. Length = 203 Score = 31.1 bits (71), Expect = 1.1 Identities = 18/70 (25%), Positives = 32/70 (45%), Gaps = 4/70 (5%) Query: 205 SVKERLEMLL-VFMESEISVLQVEKRIRSRVKRQMEKTQREYYLHEQ-MKAIQKELD--N 260 V E LE L+ + E L K+ + RQ ++ RE +H+ ++ +Q D Sbjct: 1 EVLELLEDLIKFCAQPEEEGLHELKQNNLKPLRQRQRLLREEGVHKVVLELLQNPYDEKA 60 Query: 261 GEEGRDEISD 270 G + +E+ D Sbjct: 61 GGDFAEELGD 70 >gnl|CDD|146543 pfam03962, Mnd1, Mnd1 family. This family of proteins includes MND1 from S. cerevisiae. The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair. Length = 188 Score = 31.1 bits (71), Expect = 1.2 Identities = 12/73 (16%), Positives = 39/73 (53%), Gaps = 6/73 (8%) Query: 228 KRIRSRVKRQMEKTQREYYLHEQMKAIQKELDNGEEGRDEISDFEARISKIRLSKEAREK 287 K ++K+++E+ ++ + +Q +++ + GR+E + + +++ ++ +K Sbjct: 68 KTRLEKLKKELEELKQR------IAELQAQIEKLKVGREETEERTELLEELKQLEKELKK 121 Query: 288 ALSELQKLRQMNP 300 +EL+K + +P Sbjct: 122 LKAELEKYEKNDP 134 >gnl|CDD|30909 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide transport and metabolism]. Length = 178 Score = 31.0 bits (70), Expect = 1.3 Identities = 11/23 (47%), Positives = 17/23 (73%) Query: 369 LCFVGPPGVGKTSLAQSIAKATG 391 + +GPPG GK++LA+ +AK G Sbjct: 3 ILILGPPGAGKSTLAKKLAKKLG 25 >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 = 31.0 bits (70), Expect = 1.3 Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 2/39 (5%) Query: 368 ILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEA 406 + +GPPG GK + A+ +AK G +S G + E Sbjct: 1 RILLLGPPGSGKGTQAERLAKKYG--LPHISTGDLLREE 37 >gnl|CDD|35958 KOG0739, KOG0739, KOG0739, AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]. Length = 439 Score = 31.1 bits (70), Expect = 1.3 Identities = 21/90 (23%), Positives = 41/90 (45%), Gaps = 11/90 (12%) Query: 368 ILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSL 427 IL + GPPG GK+ LA+++A + +S + + ++G + Sbjct: 169 ILLY-GPPGTGKSYLAKAVATEANSTFFSVSSSDLVSK---------WMGESEKLVKNLF 218 Query: 428 KRAKRSNP-LLLLDEIDKMGSDLRGDPSAA 456 + A+ + P ++ +DEID + + S A Sbjct: 219 EMARENKPSIIFIDEIDSLCGSRSENESEA 248 >gnl|CDD|146043 pfam03215, Rad17, Rad17 cell cycle checkpoint protein. Length = 490 Score = 31.2 bits (70), Expect = 1.3 Identities = 19/64 (29%), Positives = 29/64 (45%), Gaps = 13/64 (20%) Query: 345 EKVKERIIEYLAVQMRVIK-------------NKGLILCFVGPPGVGKTSLAQSIAKATG 391 EK K R + LA+ + I NK LIL GP G GK++ + ++K G Sbjct: 11 EKYKPRRRDELAIHKKKIAEVDHWLKAVFLESNKQLILLLTGPSGCGKSTTVKVLSKELG 70 Query: 392 RQYV 395 + + Sbjct: 71 IEII 74 >gnl|CDD|57927 cd01856, YlqF, YlqF. Proteins of the YlqF 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. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.. Length = 171 Score = 31.0 bits (70), Expect = 1.4 Identities = 20/97 (20%), Positives = 41/97 (42%), Gaps = 23/97 (23%) Query: 344 LEKVKERIIEYLAVQMRVIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVY 403 L+ K+ + + ++ + + +G+ VG P VGK++L Sbjct: 93 LKAAKKLLKDIEKLKAKGLLPRGIRAMVVGIPNVGKSTLINR------------------ 134 Query: 404 DEADIRGHRRTYIGSMPGRIIQSLKRAKRSNPLLLLD 440 +RG + +G+ PG + + ++ K S + LLD Sbjct: 135 ----LRGKKVAKVGNKPG-VTKGIQWIKISPGIYLLD 166 >gnl|CDD|35964 KOG0745, KOG0745, KOG0745, Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]. Length = 564 Score = 30.7 bits (69), Expect = 1.4 Identities = 35/161 (21%), Positives = 69/161 (42%), Gaps = 44/161 (27%) Query: 372 VGPPGVGKTSLAQSIAKATGRQYV-----RMSLGGVYDEADIRGHRRTYIGSMPGRIIQS 426 +GP G GKT LAQ++A+ + ++ G Y+G +IQ Sbjct: 232 LGPTGSGKTLLAQTLARVLDVPFAICDCTTLTQAG-------------YVGEDVESVIQK 278 Query: 427 L--------KRAKRSNPLLLLDEIDKMGS---------DLRGDP-SAALLEVLD------ 462 L ++A++ ++ LDE+DK+ D+ G+ ALL++L+ Sbjct: 279 LLQEAEYNVEKAQQG--IVFLDEVDKITKKAESIHTSRDVSGEGVQQALLKLLEGTVVNV 336 Query: 463 PAQNSSFVDHYLEVEYDLSDVMFIMTANTLNIPLPLMDRME 503 P + S V+ D ++++FI + + + + R++ Sbjct: 337 PEKGSRRKPRGDTVQIDTTNILFIASGAFVGLDKIISRRLD 377 >gnl|CDD|36207 KOG0989, KOG0989, KOG0989, Replication factor C, subunit RFC4 [Replication, recombination and repair]. Length = 346 Score = 30.7 bits (69), Expect = 1.6 Identities = 28/130 (21%), Positives = 47/130 (36%), Gaps = 38/130 (29%) Query: 361 VIKNKGLILCFVGPPGVGKTSLAQSIAKA-------------------TGRQYVRMSLGG 401 +++ F GPPG GKTS A + A+A G VR Sbjct: 52 LLRRILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVR---EK 108 Query: 402 VYDEADIRGHRRTYIGSMPGRIIQSLKRAKRSNPLLLLDEIDKMGSDLRGDPSAALLEVL 461 + + A + + K +++LDE D M SD + AAL + Sbjct: 109 IKNFAKLT-------VLLKRSDGYPCPPFK----IIILDECDSMTSDAQ----AALRRTM 153 Query: 462 D-PAQNSSFV 470 + ++ + F+ Sbjct: 154 EDFSRTTRFI 163 >gnl|CDD|37623 KOG2412, KOG2412, KOG2412, Nuclear-export-signal (NES)-containing protein/polyadenylated-RNA export factor [RNA processing and modification]. Length = 591 Score = 30.8 bits (69), Expect = 1.7 Identities = 31/184 (16%), Positives = 64/184 (34%), Gaps = 32/184 (17%) Query: 161 LNKKISPEVIGITSQIEGFSKLADVIAANLSIKVAERQKILEAV---SVKERLEMLLVFM 217 + + E+ I KL++ + E+ ++L+++ + E Sbjct: 152 PLPEANQEIETNAENIRLVEKLSETRKEVKRRLLEEQNQVLQSLDTELQAIQREKQRKEQ 211 Query: 218 ESEISVLQVEKRIRSR--------VKRQMEKTQREYYLHEQMKAIQKELDNGEEGRDEIS 269 E EKR + RQ E + E E+++A +++ + + +E + Sbjct: 212 IRERKERSEEKREEAERKRRAHQEELRQKEDEEAELQEQEKIRAEEEKQEEERKEAEEQA 271 Query: 270 DFEARISKIRLSKEAREKALSE-----LQKLRQM----------------NPLSAESSVV 308 + E + K K A +KA+ E QM NP+ + + Sbjct: 272 EKEVQDPKAHEEKLAEQKAVIEKVTTSSASDSQMFWNSQDAIAQSKLDLVNPILKKDEEL 331 Query: 309 RNYL 312 +NY Sbjct: 332 KNYN 335 >gnl|CDD|31047 COG0703, AroK, Shikimate kinase [Amino acid transport and metabolism]. Length = 172 Score = 30.6 bits (69), Expect = 1.7 Identities = 7/25 (28%), Positives = 16/25 (64%) Query: 371 FVGPPGVGKTSLAQSIAKATGRQYV 395 +G G GK+++ +++AKA ++ Sbjct: 7 LIGFMGAGKSTIGRALAKALNLPFI 31 >gnl|CDD|33633 COG3842, PotA, ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]. Length = 352 Score = 30.7 bits (69), Expect = 1.8 Identities = 11/24 (45%), Positives = 15/24 (62%) Query: 364 NKGLILCFVGPPGVGKTSLAQSIA 387 KG + +GP G GKT+L + IA Sbjct: 29 KKGEFVTLLGPSGCGKTTLLRMIA 52 >gnl|CDD|144608 pfam01078, Mg_chelatase, Magnesium chelatase, subunit ChlI. Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. Due to this, it is thought that Mg-chelatase has an important role in channelling inter- mediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weight between 38-42 kDa. Length = 207 Score = 30.6 bits (70), Expect = 1.8 Identities = 10/16 (62%), Positives = 12/16 (75%) Query: 369 LCFVGPPGVGKTSLAQ 384 L +GPPG GKT LA+ Sbjct: 25 LLMIGPPGSGKTMLAK 40 >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 = 30.4 bits (69), Expect = 1.9 Identities = 14/54 (25%), Positives = 23/54 (42%), Gaps = 1/54 (1%) Query: 364 NKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIG 417 +G I+ +G G GKT+L ++I + + G D + H R G Sbjct: 24 PEGEIVALLGRNGAGKTTLLKTIMGLLPPRSGSIRFDGR-DITGLPPHERARAG 76 >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 = 30.3 bits (68), Expect = 2.2 Identities = 31/126 (24%), Positives = 46/126 (36%), Gaps = 14/126 (11%) Query: 364 NKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGV--------YDEADIRGHRRTY 415 +G + GP G GK+++ +I A G A++ R Sbjct: 19 GEGSLTIITGPNGSGKSTILDAIGLALGGAQSATRRRSGVKAGCIVAAVSAELIFTRLQL 78 Query: 416 IGSMPGRIIQSLKRAKRSN---PLLLLDEIDKMGSDLRGDPSAA--LLEVLDPAQNSSFV 470 G +L A S PL +LDEID+ G D R + A +LE L + Sbjct: 79 SGGEKELSALALILALASLKPRPLYILDEIDR-GLDPRDGQALAEAILEHLVKGAQVIVI 137 Query: 471 DHYLEV 476 H E+ Sbjct: 138 THLPEL 143 >gnl|CDD|36122 KOG0904, KOG0904, KOG0904, Phosphatidylinositol 3-kinase catalytic subunit (p110) [Signal transduction mechanisms]. Length = 1076 Score = 30.3 bits (68), Expect = 2.2 Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 2/73 (2%) Query: 236 RQMEKTQREYYLHEQMKA-IQKELDNGEEGRD-EISDFEARISKIRLSKEAREKALSELQ 293 Q + E L+ Q+ A I LD + +D E++DF ++ + ALS Sbjct: 120 VQRHGDREEKLLNSQISALIGYGLDEFDSVKDPELNDFRRKMVQFCKEAVLSRDALSWTS 179 Query: 294 KLRQMNPLSAESS 306 +L M+PL E S Sbjct: 180 RLYYMHPLYLEPS 192 >gnl|CDD|30833 COG0486, ThdF, Predicted GTPase [General function prediction only]. Length = 454 Score = 30.2 bits (68), Expect = 2.3 Identities = 19/60 (31%), Positives = 31/60 (51%), Gaps = 6/60 (10%) Query: 329 NLDFA-----IRILDQDHFGLEKVKERIIEYLA-VQMRVIKNKGLILCFVGPPGVGKTSL 382 N+DF +L++ LE++ + E LA + I +GL + +G P VGK+SL Sbjct: 174 NIDFPEEDIEELVLEKIREKLEELIAELDELLATAKQGKILREGLKVVIIGRPNVGKSSL 233 >gnl|CDD|34791 COG5192, BMS1, GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]. Length = 1077 Score = 30.1 bits (67), Expect = 2.4 Identities = 21/73 (28%), Positives = 36/73 (49%), Gaps = 2/73 (2%) Query: 367 LILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQS 426 I+ VGPPG GK++L +S+ + +Q + G + + RR P + Q Sbjct: 70 FIVAVVGPPGTGKSTLIRSLVRRFTKQTIDEIRGPITVVSG--KTRRITFLECPSDLHQM 127 Query: 427 LKRAKRSNPLLLL 439 + AK ++ +LLL Sbjct: 128 IDVAKIADLVLLL 140 >gnl|CDD|30543 COG0194, Gmk, Guanylate kinase [Nucleotide transport and metabolism]. Length = 191 Score = 30.1 bits (68), Expect = 2.5 Identities = 10/30 (33%), Positives = 20/30 (66%) Query: 365 KGLILCFVGPPGVGKTSLAQSIAKATGRQY 394 KGL++ GP GVGK++L +++ + ++ Sbjct: 3 KGLLIVLSGPSGVGKSTLVKALLEDDKLRF 32 >gnl|CDD|35277 KOG0054, KOG0054, KOG0054, Multidrug resistance-associated protein/mitoxantrone resistance protein, ABC superfamily [Secondary metabolites biosynthesis, transport and catabolism]. Length = 1381 Score = 30.2 bits (68), Expect = 2.5 Identities = 11/22 (50%), Positives = 15/22 (68%) Query: 365 KGLILCFVGPPGVGKTSLAQSI 386 KG ++ VGP G GK+SL +I Sbjct: 546 KGQLVAVVGPVGSGKSSLLSAI 567 >gnl|CDD|133292 cd01892, Miro2, Miro2 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature. Length = 169 Score = 30.3 bits (69), Expect = 2.6 Identities = 9/20 (45%), Positives = 14/20 (70%), Gaps = 1/20 (5%) Query: 367 LILCFV-GPPGVGKTSLAQS 385 + LCFV G G GK++L ++ Sbjct: 4 VFLCFVLGAKGSGKSALLRA 23 >gnl|CDD|31281 COG1084, COG1084, Predicted GTPase [General function prediction only]. Length = 346 Score = 29.8 bits (67), Expect = 2.9 Identities = 37/215 (17%), Positives = 78/215 (36%), Gaps = 30/215 (13%) Query: 178 GFSKLADVIAANLSIKVAER--QKILEAVSVKERLEMLLVFMESEISVLQVEKRIRSRVK 235 F K+ V A+ I A R ++ V + +++ V +R R+ Sbjct: 4 PFKKIPTVPTADELIDKAFRRAERAESTVRPDKGPKIVKAREFEIRRVKTASNIVRDRLD 63 Query: 236 RQMEKTQREYYLHEQMKAIQKELDNGEEGRDEISDFEARISKIRLSKEAREKALSE-LQK 294 + +E+ LH +EL + D + +S + + + EK E ++ Sbjct: 64 KIVERFPSLDDLHP----FYRELIDVLVDID---HLKISLSAVSWASKIIEKLAREYIRL 116 Query: 295 LRQMNPLSAESSVVRNYLDWLLGVPWDKKSKTKKNLDFAIRILDQDHFGLEKVKERIIEY 354 L+ + + R + + I+ +D D L K ++ + + Sbjct: 117 LKAAKDPKEANQLRRQAFGRVASI---------------IKKIDDDLEFLRKARDHLKKL 161 Query: 355 LAVQMRVIKNKGLILCFVGPPGVGKTSLAQSIAKA 389 A+ + +++ G P VGK+SL + + A Sbjct: 162 PAIDPDL---PTIVVA--GYPNVGKSSLVRKLTTA 191 >gnl|CDD|30672 COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]. Length = 308 Score = 29.8 bits (67), Expect = 2.9 Identities = 14/41 (34%), Positives = 22/41 (53%) Query: 368 ILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADI 408 ++ GP GKT+LA ++AK G + + + VY DI Sbjct: 5 LIVIAGPTASGKTALAIALAKRLGGEIISLDSMQVYRGLDI 45 >gnl|CDD|32040 COG1855, COG1855, ATPase (PilT family) [General function prediction only]. Length = 604 Score = 29.9 bits (67), Expect = 3.1 Identities = 17/53 (32%), Positives = 32/53 (60%), Gaps = 12/53 (22%) Query: 337 LDQDHFGL-EKVKERIIEYLAVQMRVIKNKGLILCFVGPPGVGKTSLAQSIAK 388 L + +GL +K+KER+ E + +G+++ G PG GK++ AQ++A+ Sbjct: 244 LSLEDYGLSDKLKERLEE---------RAEGILI--AGAPGAGKSTFAQALAE 285 >gnl|CDD|31145 COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]. Length = 149 Score = 29.8 bits (67), Expect = 3.2 Identities = 11/28 (39%), Positives = 15/28 (53%) Query: 364 NKGLILCFVGPPGVGKTSLAQSIAKATG 391 G ++ G G GKT+L + IAK G Sbjct: 23 KAGDVVLLSGDLGAGKTTLVRGIAKGLG 50 >gnl|CDD|73296 cd02020, CMPK, Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.. Length = 147 Score = 29.7 bits (67), Expect = 3.3 Identities = 10/23 (43%), Positives = 16/23 (69%) Query: 373 GPPGVGKTSLAQSIAKATGRQYV 395 GP G GK+++A+ +AK G Y+ Sbjct: 6 GPAGSGKSTVAKLLAKKLGLPYL 28 >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 = 29.5 bits (66), Expect = 3.7 Identities = 19/120 (15%), Positives = 51/120 (42%), Gaps = 13/120 (10%) Query: 190 LSIKVAERQKILEAVSVKERLEMLLVFMESEISVLQVEKRIRSRVKRQMEKTQREYYLHE 249 S+K + E LE ++ + L+ + +K+++E+ Q + Sbjct: 827 ASVKRLAELIEYLESQIAE-LEAAVLKKVVDKKRLKELEEQIEELKKEVEELQEKAAKKA 885 Query: 250 QMKAIQKELDN------------GEEGRDEISDFEARISKIRLSKEAREKALSELQKLRQ 297 ++K +Q ++D E+ +++ EA I+K+ ++ + ++ +++ QK Sbjct: 886 RIKELQNKIDEIGGEKVQAQKDKVEKINEQLDKLEADIAKLTVAIKTSDRNIAKAQKKLS 945 >gnl|CDD|31326 COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]. Length = 293 Score = 29.6 bits (66), Expect = 3.8 Identities = 16/57 (28%), Positives = 24/57 (42%), Gaps = 1/57 (1%) Query: 364 NKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMP 420 G I +GP G GKT+L + +A + + G + RR IG +P Sbjct: 29 EPGEIFGLLGPNGAGKTTLLKILAGLLKPTSGEILVLGYDVVKEPAKVRRR-IGYVP 84 >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 = 29.4 bits (66), Expect = 4.0 Identities = 9/28 (32%), Positives = 17/28 (60%) Query: 368 ILCFVGPPGVGKTSLAQSIAKATGRQYV 395 ++ G G GK++LA+ +A+ G + V Sbjct: 1 VIVVEGNIGAGKSTLAKELAEHLGYEVV 28 >gnl|CDD|30004 cd01394, radB, RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.. Length = 218 Score = 29.5 bits (66), Expect = 4.0 Identities = 12/29 (41%), Positives = 17/29 (58%) Query: 365 KGLILCFVGPPGVGKTSLAQSIAKATGRQ 393 +G + GPPG GKT++A +A T Q Sbjct: 18 RGTVTQVYGPPGTGKTNIAIQLAVETAGQ 46 >gnl|CDD|39873 KOG4674, KOG4674, KOG4674, Uncharacterized conserved coiled-coil protein [Function unknown]. Length = 1822 Score = 29.6 bits (66), Expect = 4.1 Identities = 33/194 (17%), Positives = 73/194 (37%), Gaps = 26/194 (13%) Query: 122 EREDFLEAITQVLPDPTEDPV-ELEALSRSVIAEFSNYIKLNKKISPEVIGITSQIEGFS 180 E E+ A ++ EL+ L + + + S+ +L + ++ + ++ Sbjct: 791 ELEESEMATKDKCESRIKELERELQKLKKKLQEKSSDLRELTNSLEKQLENAQNLVDELE 850 Query: 181 KLADVIAANLSIKVAERQKILEAVS-VKERLEML---LVFMESEISVLQVEKRIRS---- 232 + +L K+ +S +++RL+ L+ ++S+ S + Sbjct: 851 SELKSLLTSLDSVSTNIAKLEIKLSELEKRLKSAKTQLLNLDSKSSNEDATILEDTLRKE 910 Query: 233 ------------RVKRQMEKTQREYYLHEQMKAIQKELDNGEEGRDEISDFEARISKIRL 280 Q+ + Q EY EQ +++ +E R + EA+I + Sbjct: 911 LEEITDLKEELTDALSQIREYQEEYSSLEQ--SLESVKSELDETR---LELEAKIESLHK 965 Query: 281 SKEAREKALSELQK 294 + E+ LSEL+K Sbjct: 966 KITSLEEELSELEK 979 >gnl|CDD|31609 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and secretion]. Length = 407 Score = 29.5 bits (66), Expect = 4.2 Identities = 28/198 (14%), Positives = 71/198 (35%), Gaps = 6/198 (3%) Query: 198 QKILEAVSVKERLEMLLVFMESEISVLQVEKRIRSRVKRQMEKTQREYYLHEQMKAIQKE 257 ++I + + V + +V ++ ++R +++ + + K ++ Sbjct: 32 RRIKKGGFLGLLFSKTAVEVTKLAAVDSELRKFQTREAAKVKDAEAQLLKDPAEKKREER 91 Query: 258 LDNGEEGRDEISDFEARISKIRLSKEAR-EKALSELQKLRQMNPLSAESSVVRNYLDW-- 314 + R S E + +++ S E E E +R++ + E + Sbjct: 92 KAAKKIERSTPSLIERKTQEVKDSGEEIAEMMRDEKVPIRELEEIPPEFVALYKQEIQSP 151 Query: 315 LLGVPWDKKSKTKKNLDFAIRILDQDHFGLEKVKERIIEYLAVQMRVIKNKGLILCFVGP 374 ++ + L+ + ++ L++ +I + ++ VGP Sbjct: 152 TRLNLINELLRAGLELEILDMKDESYEDLRYFSEKLRKLLLSLIENLIVEQKRVIALVGP 211 Query: 375 PGVGKTSLAQSIAKATGR 392 GVGKT+ ++AK R Sbjct: 212 TGVGKTT---TLAKLAAR 226 >gnl|CDD|31663 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]. Length = 366 Score = 29.6 bits (66), Expect = 4.2 Identities = 45/234 (19%), Positives = 71/234 (30%), Gaps = 41/234 (17%) Query: 371 FVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLKRA 430 GP G GKT+ + + + S + R Y +++ + Sbjct: 47 IYGPTGTGKTATVKFVM----EELEESSANVEVVYINCLELRTPY------QVLSKILNK 96 Query: 431 KRSNPLLLL--DEIDKMGSDLRGDPSAALLEVLDPAQNSSFVDHYLEVEYDLSD------ 482 PL EI K D ++ +LD VD EV Y L Sbjct: 97 LGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDA--LVDKDGEVLYSLLRAPGENK 154 Query: 483 --VMFIMTANTLNIPLPLMDRM------EIIRIAGYTEEEKLQIAKNHLVKKVLTEHALK 534 V I +N L R+ I YT EE I + + Sbjct: 155 VKVSIIAVSNDDKFLDYLDPRVKSSLGPSEIVFPPYTAEELYDILRE------------R 202 Query: 535 QEECCISDGVLLDIIRLFTHEAGVRSFE-RALMKIARKAVTKIVKNSDTTVSIN 587 EE + + D+++L S + R + I R+A + VS + Sbjct: 203 VEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSED 256 >gnl|CDD|146027 pfam03193, DUF258, Protein of unknown function, DUF258. Length = 161 Score = 29.5 bits (67), Expect = 4.3 Identities = 11/44 (25%), Positives = 18/44 (40%), Gaps = 13/44 (29%) Query: 339 QDHFGLEKVKERIIEYLAVQMRVIKNKGLILCFVGPPGVGKTSL 382 + G+E++K + KG G GVGK++L Sbjct: 21 KTGEGIEELKPLL-------------KGKTSVLAGQSGVGKSTL 51 >gnl|CDD|144046 pfam00308, Bac_DnaA, Bacterial dnaA protein. Length = 219 Score = 29.2 bits (66), Expect = 4.4 Identities = 19/74 (25%), Positives = 37/74 (50%), Gaps = 4/74 (5%) Query: 369 LCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLK 428 L G G+GKT L +I R + + + VY ++ ++ ++ I++ K Sbjct: 37 LFIYGGVGLGKTHLLHAIGNYALRNFPNLRV--VYLTSEEFL--NDFVDALRDNKIEAFK 92 Query: 429 RAKRSNPLLLLDEI 442 ++ R+ LLL+D+I Sbjct: 93 KSYRNVDLLLIDDI 106 >gnl|CDD|31438 COG1245, COG1245, Predicted ATPase, RNase L inhibitor (RLI) homolog [General function prediction only]. Length = 591 Score = 29.4 bits (66), Expect = 4.6 Identities = 19/94 (20%), Positives = 39/94 (41%), Gaps = 6/94 (6%) Query: 364 NKGLILCFVGPPGVGKTSLAQSIAKAT-----GRQYVRMSLGGVYDEADIRGHRRTYI-G 417 G ++ +GP G+GKT+ + +A + +++S Y D G + Sbjct: 365 YDGEVIGILGPNGIGKTTFVKLLAGVIKPDEGSEEDLKVSYKPQYISPDYDGTVEDLLRS 424 Query: 418 SMPGRIIQSLKRAKRSNPLLLLDEIDKMGSDLRG 451 ++ S + + PL L D +++ +L G Sbjct: 425 AIRSAFGSSYFKTEIVKPLNLEDLLERPVDELSG 458 >gnl|CDD|31317 COG1120, FepC, ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]. Length = 258 Score = 29.4 bits (66), Expect = 4.6 Identities = 10/24 (41%), Positives = 15/24 (62%) Query: 364 NKGLILCFVGPPGVGKTSLAQSIA 387 KG I +GP G GK++L + +A Sbjct: 26 PKGEITGILGPNGSGKSTLLKCLA 49 >gnl|CDD|110723 pfam01745, IPT, Isopentenyl transferase. Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid. Length = 232 Score = 29.3 bits (66), Expect = 5.0 Identities = 18/76 (23%), Positives = 36/76 (47%), Gaps = 12/76 (15%) Query: 372 VGPPGVGKTSLAQSIAKATG---------RQYVRMSLG-GVYDEADIRGHRRTYIGSMPG 421 G GKT+ A ++AK TG + +++ G G A+++G RR Y+ + Sbjct: 7 WGATCTGKTAEAIALAKETGWPVIVLDRVQCCSQLATGSGRPLPAELQGTRRIYLDN--R 64 Query: 422 RIIQSLKRAKRSNPLL 437 + + + A+ ++ L Sbjct: 65 PLSEGIIDAEEAHDRL 80 >gnl|CDD|39872 KOG4673, KOG4673, KOG4673, Transcription factor TMF, TATA element modulatory factor [Transcription]. Length = 961 Score = 29.0 bits (64), Expect = 5.1 Identities = 27/151 (17%), Positives = 60/151 (39%), Gaps = 25/151 (16%) Query: 189 NLSIKVAERQKILEAVSVKERLEML--------LVFMESEISVLQVEKRIRSRVKRQMEK 240 +L+ ++++ Q +L ++E+ E L ++S+L+ E+ ++ + +EK Sbjct: 666 SLNERLSDSQTLLRINVLEEQGEKQELLSLNFSLPSSPIQLSLLRAEQ---GQLSKSLEK 722 Query: 241 T-QREYYLHEQMKAIQKELDNGE--------EGRDEISDFEARISKIRLSKEAREKALSE 291 R ++ A Q+E D E E R+ + + ++ L E + E Sbjct: 723 ERNRAAENRQEYLAAQEEADTLEGRANQLEVEIRELKRKHKQELQEVLLHVEL-IQKDLE 781 Query: 292 LQKLRQMN----PLSAESSVVRNYLDWLLGV 318 +K +++ SS V + L Sbjct: 782 REKASRLDLERSTARINSSPVSSQLPSGSNE 812 >gnl|CDD|32641 COG2812, DnaX, DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]. Length = 515 Score = 28.9 bits (64), Expect = 5.2 Identities = 12/19 (63%), Positives = 16/19 (84%) Query: 371 FVGPPGVGKTSLAQSIAKA 389 F GP GVGKT++A+ +AKA Sbjct: 43 FSGPRGVGKTTIARILAKA 61 >gnl|CDD|133258 cd00882, Ras_like_GTPase, Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulate initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Members of the Ras superfamily are identified by the GTP binding site, which is made up of five characteristic sequence motifs, and the switch I and switch II regions. Length = 157 Score = 29.0 bits (65), Expect = 5.6 Identities = 9/18 (50%), Positives = 10/18 (55%) Query: 371 FVGPPGVGKTSLAQSIAK 388 VG GVGKTSL + Sbjct: 1 VVGDSGVGKTSLLNRLLG 18 >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 = 5.8 Identities = 11/23 (47%), Positives = 16/23 (69%) Query: 369 LCFVGPPGVGKTSLAQSIAKATG 391 + VG G GKT+LA+++ ATG Sbjct: 2 IALVGHSGSGKTTLAEALLYATG 24 >gnl|CDD|37696 KOG2485, KOG2485, KOG2485, Conserved ATP/GTP binding protein [General function prediction only]. Length = 335 Score = 28.7 bits (64), Expect = 6.0 Identities = 37/195 (18%), Positives = 68/195 (34%), Gaps = 29/195 (14%) Query: 217 MESEISVLQVEKRIRSRVKRQMEKTQREYYLHEQMKAIQKELDNGEEGRDEISDF--EAR 274 S+ + K M + ++ + ++AIQ L D E R Sbjct: 3 TRKTWSIAREAGDAVIFAKYNMPRRWFPGHMAKALRAIQNRLPL--------VDCIIEVR 54 Query: 275 ISKIRLSKE--------AREKALSELQKLRQMNPLSAESSVVRNYLDWLLGVPWDKKSKT 326 ++I LS + + L K+ +P E + YL+W + K Sbjct: 55 DARIPLSSRNELFQDFLPPKPRIIVLNKMDLADPK--EQKKIIQYLEWQNLESYIKLDCN 112 Query: 327 KKNLDFAIRILDQDHFGLEKVKERIIEYLAVQMRVIKNKGLILCFVGPPGVGKTSLAQSI 386 K +L K+ + E L +R + ++ ++ VG P VGK+SL ++ Sbjct: 113 KDCNKQVSPLL--------KILTILSEELVRFIRTLNSEYNVM-VVGVPNVGKSSLINAL 163 Query: 387 AKATGRQYVRMSLGG 401 R+ +G Sbjct: 164 RNVHLRKKKAARVGA 178 >gnl|CDD|37891 KOG2680, KOG2680, KOG2680, DNA helicase TIP49, TBP-interacting protein [Transcription]. Length = 454 Score = 28.8 bits (64), Expect = 6.2 Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 11/66 (16%) Query: 494 IPLPLMDRMEIIRIAGYTEEEKLQIAKNHLVKKVLTEHALKQEECCISDGVLLDIIRLFT 553 IP+ L+DRM II YTEE+ +KK+L ++E+ ++ LD++ Sbjct: 342 IPIDLLDRMLIISTQPYTEED---------IKKIL-RIRCQEEDVEMNPDA-LDLLTKIG 390 Query: 554 HEAGVR 559 +R Sbjct: 391 EATSLR 396 >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 = 28.9 bits (65), Expect = 6.5 Identities = 10/23 (43%), Positives = 15/23 (65%) Query: 365 KGLILCFVGPPGVGKTSLAQSIA 387 +G + VGP G GK++L + IA Sbjct: 29 EGEFVALVGPSGCGKSTLLRIIA 51 >gnl|CDD|31412 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]. Length = 408 Score = 28.6 bits (64), Expect = 6.6 Identities = 11/20 (55%), Positives = 15/20 (75%) Query: 369 LCFVGPPGVGKTSLAQSIAK 388 + +GP G GKT LAQ++AK Sbjct: 100 ILLIGPTGSGKTLLAQTLAK 119 >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 = 28.9 bits (65), Expect = 6.6 Identities = 9/25 (36%), Positives = 16/25 (64%) Query: 364 NKGLILCFVGPPGVGKTSLAQSIAK 388 G I+ +GP G GK++L +++A Sbjct: 23 EAGEIVGILGPNGAGKSTLLKTLAG 47 >gnl|CDD|36247 KOG1029, KOG1029, KOG1029, Endocytic adaptor protein intersectin [Signal transduction mechanisms, Intracellular trafficking, secretion, and vesicular transport]. Length = 1118 Score = 28.5 bits (63), Expect = 6.7 Identities = 24/78 (30%), Positives = 39/78 (50%), Gaps = 4/78 (5%) Query: 223 VLQVEKRIRSRV--KRQMEKTQREYYLHEQMKAIQKELDNGEEGRDEISDFEARISKIRL 280 + + ++R R V K + E+ ++E EQ + Q EL+ E + EI R + + Sbjct: 336 LEEQQQREREEVEQKEREEEEKKERERQEQERKAQLELEKQLERQREIE--RQREEERKK 393 Query: 281 SKEAREKALSELQKLRQM 298 E RE A EL+K RQ+ Sbjct: 394 EIERREAAREELEKQRQL 411 >gnl|CDD|31564 COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General function prediction only]. Length = 398 Score = 28.8 bits (64), Expect = 6.8 Identities = 20/92 (21%), Positives = 39/92 (42%), Gaps = 10/92 (10%) Query: 353 EYLAVQMRVIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHR 412 + L ++ + + I+ +GP VGKT+L + + K + + + D+R R Sbjct: 24 KLLPRLIKKLDLRPFIILILGPRQVGKTTLLKLLIKGLLEEIIY------INFDDLRLDR 77 Query: 413 RTYIGSMPGRIIQSLKRAKRSNPLLLLDEIDK 444 + + R LK ++ + LDEI Sbjct: 78 IELLDLL--RAYIELKEREK--SYIFLDEIQN 105 >gnl|CDD|34241 COG4618, ArpD, ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]. Length = 580 Score = 28.7 bits (64), Expect = 6.8 Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 8/66 (12%) Query: 364 NKGLILCFVGPPGVGKTSLAQSIAKA--TGRQYVRMSLGGVYDEADIRGHRRTYIGSMPG 421 G L +GP G GK++LA+ + VR+ D AD+R R +G G Sbjct: 360 QAGEALGIIGPSGSGKSTLARLLVGIWPPTSGSVRL------DGADLRQWDREQLGRHIG 413 Query: 422 RIIQSL 427 + Q + Sbjct: 414 YLPQDV 419 >gnl|CDD|30003 cd01393, recA_like, RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.. Length = 226 Score = 28.6 bits (64), Expect = 6.8 Identities = 19/80 (23%), Positives = 26/80 (32%), Gaps = 11/80 (13%) Query: 365 KGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGG--VYDEADIRGHRRTYIGSMPGR 422 G I G G GKT L +A L G VY + + G+ Sbjct: 18 TGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTE---------GAFRPE 68 Query: 423 IIQSLKRAKRSNPLLLLDEI 442 + L +P +LD I Sbjct: 69 RLVQLAVRFGLDPEEVLDNI 88 >gnl|CDD|34291 COG4674, COG4674, Uncharacterized ABC-type transport system, ATPase component [General function prediction only]. Length = 249 Score = 28.7 bits (64), Expect = 6.8 Identities = 16/54 (29%), Positives = 22/54 (40%) Query: 364 NKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIG 417 + G + +GP G GKT+L I T Q + G D + HR G Sbjct: 29 DPGELRVLIGPNGAGKTTLMDVITGKTRPQEGEVLFDGDTDLTKLPEHRIARAG 82 >gnl|CDD|33687 COG3899, COG3899, Predicted ATPase [General function prediction only]. Length = 849 Score = 28.4 bits (63), Expect = 7.3 Identities = 11/34 (32%), Positives = 19/34 (55%) Query: 360 RVIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQ 393 RV K +G ++ G G+GK++L + K +Q Sbjct: 18 RVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQ 51 >gnl|CDD|34269 COG4650, RtcR, Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]. Length = 531 Score = 28.5 bits (63), Expect = 7.3 Identities = 31/111 (27%), Positives = 53/111 (47%), Gaps = 20/111 (18%) Query: 350 RIIEYLAVQMRVIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDE---A 406 R+IE ++ I+++ IL GP G GK+ LA+ I + + R G + E A Sbjct: 195 RMIE--QIERVAIRSRAPIL-LNGPTGAGKSFLARRIYEL---KQARHQFSGAFVEVNCA 248 Query: 407 DIRGHRRTYIGSMPGRIIQSLKRAKRSNP---------LLLLDEIDKMGSD 448 +RG T + ++ G + + A+ S +L LDEI ++G+D Sbjct: 249 TLRGD--TAMSALFGHVKGAFTGARESREGLLRSADGGMLFLDEIGELGAD 297 >gnl|CDD|30898 COG0552, FtsY, Signal recognition particle GTPase [Intracellular trafficking and secretion]. Length = 340 Score = 28.7 bits (64), Expect = 7.5 Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 10/51 (19%) Query: 345 EKVKERIIEYLAVQMRVI-------KNKGLILCFVGPPGVGKTSLAQSIAK 388 E ++E +IE L +V + K ++ FVG GVGKT+ +IAK Sbjct: 111 EALREALIEILRPVDKVDLPLEIPKEKKPFVILFVGVNGVGKTT---TIAK 158 >gnl|CDD|37153 KOG1942, KOG1942, KOG1942, DNA helicase, TBP-interacting protein [Replication, recombination and repair]. Length = 456 Score = 28.4 bits (63), Expect = 7.6 Identities = 13/33 (39%), Positives = 20/33 (60%) Query: 359 MRVIKNKGLILCFVGPPGVGKTSLAQSIAKATG 391 ++ K G + GPPG GKT+LA +I++ G Sbjct: 57 IKSKKMAGRAVLLAGPPGTGKTALALAISQELG 89 >gnl|CDD|37400 KOG2189, KOG2189, KOG2189, Vacuolar H+-ATPase V0 sector, subunit a [Energy production and conversion]. Length = 829 Score = 28.3 bits (63), Expect = 7.8 Identities = 14/76 (18%), Positives = 37/76 (48%), Gaps = 13/76 (17%) Query: 236 RQMEKTQREY-YLHEQMKAIQKELDNGEE------GRD------EISDFEARISKIRLSK 282 R+ ++ +R+ +L ++K L + +E R+ ++ E+ + ++ +K Sbjct: 56 RRCDEMERKLRFLESEIKKAGIPLPDLDESPPAPPPREIIDLEEQLEKLESELRELNANK 115 Query: 283 EAREKALSELQKLRQM 298 EA + +EL +L+ + Sbjct: 116 EALKANYNELLELKYV 131 >gnl|CDD|147709 pfam05704, Caps_synth, Capsular polysaccharide synthesis protein. This family consists of several capsular polysaccharide proteins. Capsular polysaccharide (CPS) is a major virulence factor in Streptococcus pneumoniae. Length = 279 Score = 28.4 bits (64), Expect = 7.8 Identities = 11/42 (26%), Positives = 23/42 (54%), Gaps = 2/42 (4%) Query: 750 VLIPEENIKDLMDIPENVKNGLE--IIPVSFMGEVLKHALLR 789 +L+ ++NI + +DIP+ + E I + ++L+ LL Sbjct: 82 ILLTKDNISEYVDIPDFIIEKFESGKISRAHFSDILRLNLLA 123 >gnl|CDD|33644 COG3854, SpoIIIAA, ncharacterized protein conserved in bacteria [Function unknown]. Length = 308 Score = 28.4 bits (63), Expect = 8.4 Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 2/47 (4%) Query: 361 VIKNKGLILCFVGPPGVGKTSLAQSIAK--ATGRQYVRMSLGGVYDE 405 + +N L +GPP VGKT+L + IA+ + G G+ DE Sbjct: 132 LYQNGWLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDE 178 >gnl|CDD|36601 KOG1387, KOG1387, KOG1387, Glycosyltransferase [Cell wall/membrane/envelope biogenesis]. Length = 465 Score = 28.4 bits (63), Expect = 8.7 Identities = 17/94 (18%), Positives = 43/94 (45%), Gaps = 6/94 (6%) Query: 272 EARISKIRLSKEAREKALSELQKLRQMNPLSAESSVVRNYLDWLLGVPWDKKSKTKKNLD 331 EA +S I+L + + ++++ + L+ E + ++ + VP++K + Sbjct: 300 EASVSPIKLIIVGSCRNEEDEERVKSLKDLAEELKI-PKHVQFEKNVPYEKLVELLGKAT 358 Query: 332 FAIRILDQDHFGLEKVKERIIEYLAVQMRVIKNK 365 + + +HFG+ ++EY+A + I + Sbjct: 359 IGVHTMWNEHFGIS-----VVEYMAAGLIPIVHN 387 >gnl|CDD|31319 COG1122, CbiO, ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]. Length = 235 Score = 28.3 bits (63), Expect = 8.7 Identities = 8/25 (32%), Positives = 14/25 (56%) Query: 363 KNKGLILCFVGPPGVGKTSLAQSIA 387 KG + +GP G GK++L + + Sbjct: 27 IEKGERVLLIGPNGSGKSTLLKLLN 51 >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 = 28.2 bits (63), Expect = 8.8 Identities = 9/18 (50%), Positives = 11/18 (61%) Query: 365 KGLILCFVGPPGVGKTSL 382 KG VG GVGK++L Sbjct: 160 KGKTSVLVGQSGVGKSTL 177 >gnl|CDD|147094 pfam04762, IKI3, IKI3 family. Members of this family are components of the elongator multi-subunit component of a novel RNA polymerase II holoenzyme for transcriptional elongation. This region contains WD40 like repeats. Length = 918 Score = 28.4 bits (64), Expect = 8.9 Identities = 10/33 (30%), Positives = 19/33 (57%), Gaps = 2/33 (6%) Query: 286 EKALSELQKLRQMNPLSAESSVVRNYLDWLLGV 318 E AL + +LR+ + AE ++ +L +L+ V Sbjct: 821 EDALQLIAELREEDSEQAEEALK--HLCFLVDV 851 >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 = 28.2 bits (63), Expect = 9.1 Identities = 13/54 (24%), Positives = 21/54 (38%) Query: 364 NKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIG 417 KG + VGP G GK++L + + G + + G R +G Sbjct: 25 KKGEFVLIVGPNGSGKSTLLRLLNGLLGPTSGEVLVDGKDLTKLSLKELRRKVG 78 >gnl|CDD|31354 COG1160, COG1160, Predicted GTPases [General function prediction only]. Length = 444 Score = 28.2 bits (63), Expect = 9.3 Identities = 11/49 (22%), Positives = 22/49 (44%), Gaps = 3/49 (6%) Query: 343 GLEKVKERIIEYLAVQMRVIK---NKGLILCFVGPPGVGKTSLAQSIAK 388 G+ + + ++E L + + + +G P VGK+SL +I Sbjct: 152 GIGDLLDAVLELLPPDEEEEEEEETDPIKIAIIGRPNVGKSSLINAILG 200 >gnl|CDD|30875 COG0529, CysC, Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]. Length = 197 Score = 28.3 bits (63), Expect = 9.5 Identities = 8/27 (29%), Positives = 16/27 (59%) Query: 363 KNKGLILCFVGPPGVGKTSLAQSIAKA 389 KG ++ F G G GK+++A ++ + Sbjct: 20 GQKGAVIWFTGLSGSGKSTIANALEEK 46 >gnl|CDD|144972 pfam01576, Myosin_tail_1, Myosin tail. The myosin molecule is a multi-subunit complex made up of two heavy chains and four light chains it is a fundamental contractile protein found in all eukaryote cell types. This family consists of the coiled-coil myosin heavy chain tail region. The coiled-coil is composed of the tail from two molecules of myosin. These can then assemble into the macromolecular thick filament. The coiled-coil region provides the structural backbone the thick filament. Length = 859 Score = 28.1 bits (63), Expect = 9.5 Identities = 49/211 (23%), Positives = 96/211 (45%), Gaps = 41/211 (19%) Query: 168 EVIGITSQIEGFSKL----------ADVIAANLSIKVAERQKIL-EAVSVKERL-----E 211 EV + +Q++ +K + + L +K+ E Q+ L + S K RL + Sbjct: 160 EVDDLLAQLDQIAKAKLNAEKKAKQLESQLSELQVKLDELQRQLNDLTSQKSRLQSENSD 219 Query: 212 MLLVFMESEISVLQVEKRIRSRVKRQMEKTQR--------EYYLHEQMKAIQKELDNGEE 263 + E+E V + K ++S+++ Q+E+ +R L Q++ ++ +LD+ E Sbjct: 220 LTRQLEEAEAQVSNLSK-LKSQLESQLEEAKRSLEEESRERANLQAQLRQLEHDLDSLRE 278 Query: 264 GRDEISDFEARISKIRLSKEAREKALSELQKLRQMNPLSAESSVVRNYLDWLLGVPWDKK 323 +E S+ +A + + +LS KA +E+Q+ R + +E ++ L+ L KK Sbjct: 279 QLEEESEAKAELER-QLS-----KANAEIQQWR--SKFESEGALRAEELEEL------KK 324 Query: 324 SKTKK--NLDFAIRILDQDHFGLEKVKERII 352 +K L+ A + LEK K R+ Sbjct: 325 KLNQKISELEEAAEAANAKCDSLEKTKSRLQ 355 >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 = 28.1 bits (63), Expect = 9.9 Identities = 23/84 (27%), Positives = 32/84 (38%), Gaps = 17/84 (20%) Query: 364 NKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPG-- 421 N G + VG G GK++L + IA DE + IG Sbjct: 24 NPGDRIGLVGRNGAGKSTLLKLIAGELEP-----------DEGIVTWGSTVKIGYFEQLS 72 Query: 422 ---RIIQSLKRAKRSNP-LLLLDE 441 ++ +L + NP LLLLDE Sbjct: 73 GGEKMRLALAKLLLENPNLLLLDE 96 >gnl|CDD|146702 pfam04201, TPD52, Tumour protein D52 family. The hD52 gene was originally identified through its elevated expression level in human breast carcinoma. Cloning of D52 homologues from other species has indicated that D52 may play roles in calcium-mediated signal transduction and cell proliferation. Two human homologues of hD52, hD53 and hD54, have also been identified, demonstrating the existence of a novel gene/protein family. These proteins have an amino terminal coiled-coil that allows members to form homo- and heterodimers with each other. Length = 162 Score = 28.0 bits (62), Expect = 10.0 Identities = 17/41 (41%), Positives = 25/41 (60%) Query: 262 EEGRDEISDFEARISKIRLSKEAREKALSELQKLRQMNPLS 302 EE R E++ E IS +R A+EK L+EL++ + PLS Sbjct: 32 EELRTELAKLEEEISTLRQVLAAKEKHLAELKRKLGLTPLS 72 Database: CddA Posted date: Feb 4, 2011 9:38 PM Number of letters in database: 6,263,737 Number of sequences in database: 21,609 Lambda K H 0.317 0.136 0.374 Gapped Lambda K H 0.267 0.0724 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 9,611,597 Number of extensions: 534133 Number of successful extensions: 2162 Number of sequences better than 10.0: 1 Number of HSP's gapped: 2116 Number of HSP's successfully gapped: 280 Length of query: 820 Length of database: 6,263,737 Length adjustment: 102 Effective length of query: 718 Effective length of database: 4,059,619 Effective search space: 2914806442 Effective search space used: 2914806442 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 62 (27.7 bits)