RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254781101|ref|YP_003065514.1| UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate/D-alanyl-D-alanyl ligase [Candidatus Liberibacter asiaticus str. psy62] (472 letters) >gnl|CDD|184501 PRK14093, PRK14093, UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional. Length = 479 Score = 436 bits (1122), Expect = e-123 Identities = 203/468 (43%), Positives = 267/468 (57%), Gaps = 2/468 (0%) Query: 3 PLWTFHDLLQAIQGHSIGIVPQGFVNGISIDSRSIAPQEAFFAIKGPHYDGHDFILHAVQ 62 PLWT + +A+ G +P+ V GISIDSR++AP +A+FAIKG +DGH F+ A++ Sbjct: 5 PLWTSDAMAEAMGATRSGALPRD-VTGISIDSRTLAPGDAYFAIKGDVHDGHAFVAAALK 63 Query: 63 KGAGLVVVNTDMVASIGSLSIPVFGVDDVLGALNKLAVAARLRSKATIIAITGSVGKTTT 122 GA L VV + P+ VDDVL AL L AAR R +A +IA+TGSVGKT+T Sbjct: 64 AGAALAVVERAQRDKF-AADAPLLVVDDVLAALRDLGRAARARLEAKVIAVTGSVGKTST 122 Query: 123 KEMLTIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDFGIFELGMSHLGEIRFLTHLV 182 KE L L + +T+A + S+NNH GVPL+LAR P D F +FE+GM+H GEI L +V Sbjct: 123 KEALRGVLGAQGETHASVASFNNHWGVPLSLARCPADARFAVFEIGMNHAGEIEPLVKMV 182 Query: 183 RPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKSHAL 242 RPH+A+ITT+ P HL FSGIE IA AKAEIF GLE G LN D+ F+ L A + A Sbjct: 183 RPHVAIITTVEPVHLEFFSGIEAIADAKAEIFTGLEPGGAAVLNRDNPQFDRLAASARAA 242 Query: 243 GIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVVHHGIGYHMAQNMLMTLGI 302 GI I SFG + AD +L ++ S + + G + G H+A N L L Sbjct: 243 GIARIVSFGADEKADARLLDVALHADCSAVHADILGHDVTYKLGMPGRHIAMNSLAVLAA 302 Query: 303 VSILTADVDTAIKALSVFHPKEGRGKRYRCALNQGFFTLIDESYNANPASMKAAISVLSQ 362 + AD+ A ALS P GRG R+ + G TLIDESYNANPASM AA+ VL + Sbjct: 303 AELAGADLALAALALSQVQPAAGRGVRHTLEVGGGEATLIDESYNANPASMAAALGVLGR 362 Query: 363 ISPHGEGRRIAVLGDMCEMGELSQSFHIDLAEVLSLYNISHVWLSGFHVLALKDALPRSI 422 +GRRIAVLGDM E+G H LAE + I V+ G + L DAL Sbjct: 363 APVGPQGRRIAVLGDMLELGPRGPELHRGLAEAIRANAIDLVFCCGPLMRNLWDALSSGK 422 Query: 423 HVHYSETMDGLFLFIQSSLVDGDVVVVKSSNSCGFYRLINLLLEEFPA 470 Y+E L + +++ GDV++VK S ++ L + FP Sbjct: 423 RGGYAEDAAALESQVVAAIRAGDVIMVKGSLGSRMKTIVTALEKRFPG 470 >gnl|CDD|162224 TIGR01143, murF, UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase. This family consists of the strictly bacterial MurF gene of peptidoglycan biosynthesis. This enzyme is almost always UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanyl ligase, but in a few species, MurE adds lysine rather than diaminopimelate. This enzyme acts on the product from MurE activity, and so is also subfamily rather than equivalog. Staphylococcus aureus is an example of species in this MurF protein would differ. Length = 417 Score = 353 bits (908), Expect = 5e-98 Identities = 162/435 (37%), Positives = 227/435 (52%), Gaps = 20/435 (4%) Query: 32 IDSRSIAPQEAFFAIKGPHYDGHDFILHAVQKGAGLVVVNTDMVASIGSLSIPVFGVDDV 91 DSR+I P + F A+KG +DGHDF+ A+ GA V+V+ ++ G +P VDD Sbjct: 1 TDSRAIKPGDLFIALKGERFDGHDFVEQALAAGAVAVLVDREVGPDNG---LPQILVDDT 57 Query: 92 LGALNKLAVAARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVPL 151 L AL LA A R + +I ITGS GKTTTKEML LS K +A G++NN IG+PL Sbjct: 58 LEALQALASAKRAKFSGKVIGITGSSGKTTTKEMLAAILSHKYKVFATPGNFNNEIGLPL 117 Query: 152 TLARMPVDVDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKA 211 TL R P D D+ + E+G SH GEI +L + +P IAVIT I PAHL F +E IA AK Sbjct: 118 TLLRAPGDHDYAVLEMGASHPGEIAYLAEIAKPDIAVITNIGPAHLEGFGSLEGIAEAKG 177 Query: 212 EIFEGLEKTGTIFLNYDDSFFELLKAKSHALGIKTIYSFGKSKNADFQLRKWKQCSEQSW 271 EI +GL++ G +N DD F + K I SFG + DF S Sbjct: 178 EILQGLKENGIAVINADDPAFAKFAKRLPN---KAILSFGF-EGGDFSAADISY-SALGS 232 Query: 272 MEVQLQ--GKSMEVVHHGIGYHMAQNMLMTLGIVSILTADVDTAIKALSVFHPKEGRGKR 329 L G EV +G H N L + L ++ + L+ +GR + Sbjct: 233 TGFTLVAPGGEFEVSLPLLGRHNVMNALAAAALALELGIPLEEIAEGLAELKLVKGRFE- 291 Query: 330 YRCALNQGFFTLIDESYNANPASMKAAISVLSQISPHGEGRRIAVLGDMCEMGELSQSFH 389 + TLID++YNANP SM+AA+ L++ G++I VLGDM E+GE S+ H Sbjct: 292 ---IQTKNGLTLIDDTYNANPDSMRAALDALARFP----GKKILVLGDMAELGEYSEELH 344 Query: 390 IDLAEVLSLYNISHVWLSGFHVLALKDALPRSIHVHYSETMDGLFLFIQSSLVDGDVVVV 449 ++ + I V+L G + D+L H+++ D L F++ L +GDVV+V Sbjct: 345 AEVGRYANSLGIDLVFLVGEEAAVIYDSLGCKGF-HFAD-KDELLAFLKLELGEGDVVLV 402 Query: 450 KSSNSCGFYRLINLL 464 K S S +++ L Sbjct: 403 KGSRSVKLEKVVEAL 417 >gnl|CDD|183385 PRK11929, PRK11929, putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D- alanine ligase; Provisional. Length = 958 Score = 292 bits (749), Expect = 1e-79 Identities = 139/447 (31%), Positives = 209/447 (46%), Gaps = 22/447 (4%) Query: 27 VNGISIDSRSIAPQEAFFAIKGPHYDGHDFILHAVQKGAGLVVVNTDMVASIGSLSIPVF 86 +S DSRS+ E F A++G ++DGHD++ A GA VV + + +P Sbjct: 526 AGAVSTDSRSVGRGELFVALRGENFDGHDYLPQAFAAGACAAVVER----QVADVDLPQI 581 Query: 87 GVDDVLGALNKLAVAARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTY---ACIGSY 143 VDD AL +LA A R R ++AITGS GKTTTKEM+ L++ + A G++ Sbjct: 582 VVDDTRAALGRLATAWRARFSLPVVAITGSNGKTTTKEMIAAILAAWQGEDRVLATEGNF 641 Query: 144 NNHIGVPLTLARMPVDVDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGI 203 NN IGVPLTL R+ +FELGM+H GEI +L + P +A++T H + Sbjct: 642 NNEIGVPLTLLRLRAQHRAAVFELGMNHPGEIAYLAAIAAPTVALVTNAQREHQEFMHSV 701 Query: 204 EEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKSHALGIKTIYSFGKSKNADFQLRKW 263 E +A AK EI L + G +N DD + + G + + FG AD K Sbjct: 702 EAVARAKGEIIAALPEDGVAVVNGDDPYTAIWAK---LAGARRVLRFGLQPGADVYAEKI 758 Query: 264 KQCSE-----QSWMEVQLQGKSMEVVHHGIGYHMAQNMLMTLGIVSILTADVDTAIKALS 318 + + +V S EV IG H +N L + A + L Sbjct: 759 AKDISVGEAGGTRCQVVTPAGSAEVYLPLIGEHNLRNALAAIACALAAGASLKQIRAGLE 818 Query: 319 VFHPKEGRGKRYRCALNQGFFTLIDESYNANPASMKAAISVLSQISPHGEGRRIAVLGDM 378 F P GR +R R + +ID++YNANP SM+AAI VL+++ G R VLGDM Sbjct: 819 RFQPVAGRMQRRRLSCG---TRIIDDTYNANPDSMRAAIDVLAELP---NGPRALVLGDM 872 Query: 379 CEMGELSQSFHIDLAEVLSLYNISHVWLSGFHVLALKDALPRSIHVHYSETMDGLFLFIQ 438 E+G+ + H ++ + I + G A ++D + ++ Sbjct: 873 LELGDNGPAMHREVGKYARQLGIDALITLGEAARDAAAAFGAGARGVC-ASVDEIIAALR 931 Query: 439 SSLVDGDVVVVKSSNSCGFYRLINLLL 465 +L +GD V++K S R+++ L Sbjct: 932 GALPEGDSVLIKGSRFMRLERVVDALS 958 Score = 122 bits (309), Expect = 1e-28 Identities = 98/391 (25%), Positives = 157/391 (40%), Gaps = 38/391 (9%) Query: 10 LLQAIQGHSIGIVPQGFVNGISIDSRSIAPQEAFFAIKGPHYDGHDFILHAVQKGAGLVV 69 LLQA+ + + +DSR + P + F A +G DG FI A+ +GA V+ Sbjct: 15 LLQALAWLRGCVAA---TADLRLDSREVQPGDLFVACRGAASDGRAFIDQALARGAAAVL 71 Query: 70 VNTDMVASIGSLSIPVFGVDDVLGALNKLAVA--ARLRSKATIIAITGSVGKTTTKEMLT 127 V + + + V V D+ AL +LA R + +++A+TG+ GKT+ ++L Sbjct: 72 VEAEGEDQVAAADALVLPVADLRKALGELAARWYGRPSEQLSLVAVTGTNGKTSCAQLLA 131 Query: 128 IALSSIKKTYACIGSYNNH-----IGVPLT----------LARMPVD-VDFGIFE----- 166 L+ + K IG+ I LT LARM D E Sbjct: 132 QLLTRLGKPCGSIGTLGARLDGRLIPGSLTTPDAIILHRILARMRAAGADAVAMEASSHG 191 Query: 167 LGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLN 226 L L +R +A T + HL +++ AKA +F L G +N Sbjct: 192 LEQGRLDGLRI-------AVAGFTNLTRDHLDYHGTMQDYEEAKAALFSKLPGLGAAVIN 244 Query: 227 YDDSFFELLKAKSHALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVVHH 286 DD L A G+K YS + AD Q R + + + S ++V Sbjct: 245 ADDPAAARLLAA-LPRGLKVGYSPQNAG-ADVQARDLRATAHGQVFTLATPDGSYQLVTR 302 Query: 287 GIGYHMAQNMLMTLGIVSILTADVDTAIKALSVFHPKEGRGKR-YRCALNQGFFTLIDES 345 +G N+L+ + L + +AL+ P GR +R A QG ++D Sbjct: 303 LLGRFNVSNLLLVAAALKKLGLPLAQIARALAAVSPVPGRMERVGPTAGAQGPLVVVD-- 360 Query: 346 YNANPASMKAAISVLSQISPHGEGRRIAVLG 376 Y P ++ A++ L ++ GR + V G Sbjct: 361 YAHTPDALAKALTALRPVAQARNGRLVCVFG 391 >gnl|CDD|182718 PRK10773, murF, UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed. Length = 453 Score = 213 bits (544), Expect = 9e-56 Identities = 127/416 (30%), Positives = 188/416 (45%), Gaps = 49/416 (11%) Query: 6 TFHDLLQAIQGHSIGIVPQGFVNGISIDSRSIAPQEAFFAIKGPHYDGHDFILHAVQKGA 65 T L + G G ++ ++ D+R + P F A+KG +D HDF A GA Sbjct: 5 TLSQLADILNGELQGADIT--IDAVTTDTRKVTPGCLFVALKGERFDAHDFADDAKAAGA 62 Query: 66 GLVVVNTDMVASIGSLSIPVFGVDDVLGALNKLAVAARLRSKATIIAITGSVGKTTTKEM 125 G ++V+ + + +P V D A +LA R + A ++A+TGS GKT+ KEM Sbjct: 63 GALLVSRPL-----DIDLPQLVVKDTRLAFGQLAAWVRQQVPARVVALTGSSGKTSVKEM 117 Query: 126 LTIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDFGIFELGMSHLGEIRFLTHLVRPH 185 L T G+ NN IGVPLTL R+ + D+ + ELG +H GEI + L RP Sbjct: 118 TAAILRQCGNTLYTAGNLNNDIGVPLTLLRLTPEHDYAVIELGANHQGEIAYTVSLTRPE 177 Query: 186 IAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKSHALGIK 245 A++ +A AHL F + +A AK EIF GL + G +N D + + + +G K Sbjct: 178 AALVNNLAAAHLEGFGSLAGVAKAKGEIFSGLPENGIAIMNADSNDWLNWQ---SVIGSK 234 Query: 246 TIYSF--GKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVVHHG-----------IGYHM 292 T++ F + + DF + + + E H G H Sbjct: 235 TVWRFSPNAANSVDF-----------TATNIHVTSHGTEFTLHTPTGSVDVLLPLPGRHN 283 Query: 293 AQNMLMTLGIVSILTADVD---TAIKA-LSVFHPKEGRGKRYRCALNQGFFTLIDESYNA 348 N L + L V A+KA L+ GR + A Q L+D+SYNA Sbjct: 284 IANALAA----AALAMSVGATLDAVKAGLANLKAVPGRLFPIQLAEGQ---LLLDDSYNA 336 Query: 349 NPASMKAAISVLSQISPHGEGRRIAVLGDMCEMGELSQSFHIDLAEVLSLYNISHV 404 N SM AA VL+++ G R+ V+GDM E+G S++ H + E I V Sbjct: 337 NVGSMTAAAQVLAEMP----GYRVMVVGDMAELGAESEACHRQVGEAAKAAGIDKV 388 >gnl|CDD|183386 PRK11930, PRK11930, putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional. Length = 822 Score = 180 bits (459), Expect = 6e-46 Identities = 110/467 (23%), Positives = 198/467 (42%), Gaps = 25/467 (5%) Query: 6 TFHDLLQAIQGHSIGIVPQGFVNGISIDSRSI--APQEAFFAIKGPHYDGHDFILHAVQK 63 T + + +G ++ I DSRS+ FFA+KG DGH +I +K Sbjct: 4 TLESISGILGAEGLGDKDA-IIDQILTDSRSLSFPENTLFFALKGERNDGHRYIQELYEK 62 Query: 64 GAGLVVVNTDMVASIGSLSIPVF-GVDDVLGALNKLAVAARLRSKATIIAITGSVGKTTT 122 G VV+ + S F V D L AL +LA R + +I ITGS GKT Sbjct: 63 GVRNFVVS-EEKHPEESYPDANFLKVKDPLKALQELAAYHRSQFDIPVIGITGSNGKTIV 121 Query: 123 KEMLTIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDFGIFELGMSHLGEIRFLTHLV 182 KE L LS SYN+ IGVPL++ ++ + + GIFE G+S GE+ L ++ Sbjct: 122 KEWLYQLLSPDYNIVRSPRSYNSQIGVPLSVWQLNEEHELGIFEAGISQPGEMEALQKII 181 Query: 183 RPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKSHAL 242 +P I ++T I AH NF I++ K ++F+ + + + + L Sbjct: 182 KPTIGILTNIGGAHQENFRSIKQKIMEKLKLFKDCDVIIYN-GDNELISSCI---TKSNL 237 Query: 243 GIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVVHHGIGYHMAQNMLMTLGI 302 +K I K A + ++ + + + +G+ I +N++ + + Sbjct: 238 TLKLISWSRKDPEAPLYIPFVEKKEDHTVISYTYKGEDFHFEIPFIDDASIENLIHCIAV 297 Query: 303 VSILTADVDTAIKALSVFHPKEGR-----GKRYRCALNQGFFTLIDESYNANPASMKAAI 357 + L D + ++ P R G C TLI++SYN++ S+ A+ Sbjct: 298 LLYLGYSADQIQERMARLEPVAMRLEVKEGIN-NC-------TLINDSYNSDLQSLDIAL 349 Query: 358 SVLSQISPHGEGRRIAVLGDMCEMGELSQSFHIDLAEVLSLYNISHVWLSGFHVLALKDA 417 L++ S ++ +L D+ + G+ + + +A+++S I + G + + Sbjct: 350 DFLNRRSQS--KKKTLILSDILQSGQSPEELYRKVAQLISKRGIDRLIGIGEEISSEASK 407 Query: 418 LPRSIHVHYSETMDGLFLFIQSSLVDGDVVVVKSSNSCGFYRLINLL 464 + + T L F + ++++VK + F ++ LL Sbjct: 408 FEGTEKEFFKTTEAFLKSFAFLKFRN-ELILVKGARKFEFEQITELL 453 >gnl|CDD|149357 pfam08245, Mur_ligase_M, Mur ligase middle domain. Length = 188 Score = 149 bits (379), Expect = 1e-36 Identities = 72/193 (37%), Positives = 93/193 (48%), Gaps = 7/193 (3%) Query: 113 ITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVPLTLARMP-VDVDFGIFELGMSH 171 ITG+ GKTTT E++ LS+ G+ NN IG+PL LA M D+ + EL Sbjct: 1 ITGTNGKTTTTELIAALLSAAGGVVGTGGNTNNAIGLPLLLALMERKGADYAVLELSSFG 60 Query: 172 LGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDDSF 231 LGE R L L +P IAVIT I+P HL +E A+AKAEIFEGL + G +N DD Sbjct: 61 LGEGR-LEGLAKPDIAVITNISPDHLDYHGTMENYAAAKAEIFEGLPEDGIAVINADD-- 117 Query: 232 FELLKAKSHALGIKTIYSFGKSKNADFQLRKWKQCSEQSW-MEVQLQGKSMEVVHHGIGY 290 L + G K I +FG AD + SE + + G +E+ G Sbjct: 118 -PELAKRLKNAGAKVI-TFGLENEADDRAANIYVSSEGGKIVLFTVPGGELEISLPLPGR 175 Query: 291 HMAQNMLMTLGIV 303 H N L L Sbjct: 176 HNVYNALAALAAA 188 >gnl|CDD|162196 TIGR01085, murE, UDP-N-acetylmuramyl-tripeptide synthetase. A close homolog, scoring just below the trusted cutoff, is found (with introns) in Arabidopsis thaliana. Its role is unknown. Length = 464 Score = 105 bits (265), Expect = 2e-23 Identities = 99/380 (26%), Positives = 153/380 (40%), Gaps = 48/380 (12%) Query: 27 VNGISIDSRSIAPQEAFFAIKGPHYDGHDFILHAVQKGAGLVVVNTDMVASIGSLSIPVF 86 V G+++DSR + P + F AIKG H DGHDFI A+ GA VVV D +PV Sbjct: 4 VTGLTLDSREVKPGDLFVAIKGTHVDGHDFIHDAIANGAVAVVVERD--VDFYVAPVPVI 61 Query: 87 GVDDVLGALNKLA--VAARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGSYN 144 V D+ AL+ LA K +I +TG+ GKTTT ++ L + K IG+ Sbjct: 62 IVPDLRHALSSLAAAFYGHPSKKLKVIGVTGTNGKTTTTSLIAQLLRLLGKKTGLIGTIG 121 Query: 145 NHIG------------------VPLTLARMPVD-VDFGIFELGMSH------LGEIRFLT 179 +G + TLA M + + E+ SH + +RF Sbjct: 122 YRLGGNDLIKNPAALTTPEALTLQSTLAEMVEAGAQYAVMEVS-SHALAQGRVRGVRFD- 179 Query: 180 HLVRPHIAVITTIAPAHLSNFSG-IEEIASAKAEIFEGLEKTGTIFLNYDDSF-FELLKA 237 AV T ++ HL +F G +E +AKA +F L +N DD + + +K Sbjct: 180 ------AAVFTNLSRDHL-DFHGTMENYFAAKASLFTELGLKRFAVINLDDEYGAQFVKR 232 Query: 238 KSHALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVVHHGIGYHMAQNML 297 + + I + D ++ E + + IG N+L Sbjct: 233 LPKDITVSAITQPADGRAQDIKITDSGYSFEGQQFTFETPAGEGHLHTPLIGRFNVYNLL 292 Query: 298 MTLGIV-SILTADVDTAIKALSVFHPKEGRGKRYRCALNQGFFTLIDESYNANPASMKAA 356 L + + D++ + AL F GR + Q F ++D Y P +++ Sbjct: 293 AALATLLHLGGIDLEDIVAALEKFRGVPGRMELVD--GGQKFLVIVD--YAHTPDALE-- 346 Query: 357 ISVLSQISPHGEGRRIAVLG 376 L + H +GR I V G Sbjct: 347 -KALRTLRKHKDGRLIVVFG 365 >gnl|CDD|178894 PRK00139, murE, UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional. Length = 460 Score = 105 bits (264), Expect = 3e-23 Identities = 105/381 (27%), Positives = 154/381 (40%), Gaps = 70/381 (18%) Query: 27 VNGISIDSRSIAPQEAFFAIKGPHYDGHDFILHAVQKGAGLVVVNTDMVASIGSLSIPVF 86 + G++ DSR + P + F A+ G DG DFI A+ GA VV D A G I V Sbjct: 15 ITGLTYDSRKVKPGDLFVALPGHKVDGRDFIAQAIANGAAAVVAEADGEAGTGVPVIIVP 74 Query: 87 GVDDVLGALNKLAVAARL----RSKATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGS 142 + L L AA K +I +TG+ GKTTT +L L + + A IG+ Sbjct: 75 DLRKALALL-----AAAFYGHPSDKLKLIGVTGTNGKTTTAYLLAQILRLLGEKTALIGT 129 Query: 143 YNNHIG---VP--LT----------LARMPVD--VDFGIFELGMSH------LGEIRFLT 179 N IG +P LT LA + VD V + E+ SH + ++F Sbjct: 130 LGNGIGGELIPSGLTTPDALDLQRLLAEL-VDAGVTYAAMEVS-SHALDQGRVDGLKF-- 185 Query: 180 HLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKS 239 +AV T ++ HL +E+ +AKA +F L I N DD L A Sbjct: 186 -----DVAVFTNLSRDHLDYHGTMEDYLAAKARLFSELGLAAVI--NADDEVGRRLLALP 238 Query: 240 HALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVVHHG----IGYHMAQN 295 A + AD + +E G++ +V IG N Sbjct: 239 DAYAVSM-------AGADLRATD---------VEYTDSGQTFTLVTEVESPLIGRFNVSN 282 Query: 296 MLMTLGIVSILTADVDTAIKALSVFHPKEGRGKRYRCALNQGFFTLIDESYNANPASMKA 355 +L L + L ++ A+ AL+ GR +R QG ++D Y P +++ Sbjct: 283 LLAALAALLALGVPLEDALAALAKLQGVPGRMERVDAG--QGPLVIVD--YAHTPDALEK 338 Query: 356 AISVLSQISPHGEGRRIAVLG 376 VL + PH +GR I V G Sbjct: 339 ---VLEALRPHAKGRLICVFG 356 >gnl|CDD|162197 TIGR01087, murD, UDP-N-acetylmuramoylalanine--D-glutamate ligase. Length = 433 Score = 90.5 bits (225), Expect = 9e-19 Identities = 79/355 (22%), Positives = 131/355 (36%), Gaps = 45/355 (12%) Query: 98 LAVAARLRSKATIIAITGSVGKTTTKEMLTIALSSI-KKTYACIGSYNNHIGVP-LTLAR 155 + + RL ++AITG+ GKTTT +L L + K + +IG P L + Sbjct: 93 IELFLRL-VPLPVVAITGTNGKTTTTSLLYHLLKAAGLKAFLG-----GNIGTPALEVLD 146 Query: 156 MPVDVDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFE 215 + + EL L T +RP IA+I I+ HL E+ +AK +IF Sbjct: 147 QE-GAELYVLELSSFQL----ETTESLRPEIALILNISEDHLDWHGSFEDYVAAKLKIFA 201 Query: 216 GLEKTGTIFLNYDDSFFELLKAKSHALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQ 275 + LN DD F L KS A + F K+A+ L + Sbjct: 202 RQTEGDVAVLNADDPRFARLAQKSKA----QVIWFSVEKDAERGL---CIRDGGLY---- 250 Query: 276 LQGKSMEVVHHGIGYHMAQNMLMTLGIVSILTADVDTAIKALSVFHPKEGRGKRYRCALN 335 L+ +E G H A+N+L + + L +++ ++AL F R + Sbjct: 251 LKPNDLEGSLL--GLHNAENILAAIALAKSLGLNLEAILEALRSFKGLPHRLEYVGQKNG 308 Query: 336 QGFFTLIDESYNANPASMKAAISVLSQISPHGEGRRIAVL-GDMCEMGELSQSFHIDLAE 394 F ++S N + AA+S + ++ G + + S LA Sbjct: 309 VHF---YNDSKATNVHATLAALSAF--------DNPVILIVGGDDKGADFS-----PLAP 352 Query: 395 VLSLYNISHVWLSGFHVLALKDALPRSIHVHY-SETMDGLFLFIQSSLVDGDVVV 448 + V G + L + Y E+++ + GDVV+ Sbjct: 353 AAAGKVK-AVLAIGEDAAKIAPLLKEAGLSVYLVESLEEAVQAAREVASPGDVVL 406 >gnl|CDD|162195 TIGR01082, murC, UDP-N-acetylmuramate--alanine ligase. UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso- diaminopimelate ligase (murein tripeptide ligase) is described by TIGR01081. Length = 448 Score = 86.6 bits (215), Expect = 1e-17 Identities = 81/385 (21%), Positives = 145/385 (37%), Gaps = 53/385 (13%) Query: 83 IPVFGVDDVLGALNKLAVAARLRSKATIIAITGSVGKTTTKEMLTIALSSIKK-TYACIG 141 IPV ++L L + IA+ G+ GKTTT M+ + L +G Sbjct: 83 IPVIRRAEMLAELMR---------FRHSIAVAGTHGKTTTTAMIAVILKEAGLDPTVVVG 133 Query: 142 SY------NNHIGVPLTLARMPVDVDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPA 195 N +G ++ + E S HL +P++A++T I P Sbjct: 134 GLVKEAGTNARLGSG----------EYLVAEADESD----ASFLHL-QPNVAIVTNIEPD 178 Query: 196 HLSNF-SGIEEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKSHALGIKTIYSFGKSK 254 HL + S E + +A + L G + DD L K+ + I G + Sbjct: 179 HLDTYGSSFERLKAAFEKFIHNLPFYGLAVICADDPVLRELVPKAT---EQVITYGGSGE 235 Query: 255 NADFQLRKWKQCSEQSWMEVQLQGKSMEVVHHGI-GYHMAQNMLMTLGIVSILTADVDTA 313 +AD++ +Q + V+ +GK + G H N L + + L D + Sbjct: 236 DADYRAENIQQSGAEGKFSVRGKGKLYLEFTLNLPGRHNVLNALAAIAVALELGIDFEAI 295 Query: 314 IKALSVFHPKEGRGKRYRCALNQGFFTLIDESYNANPASMKAAISVLSQISPHGEGRRIA 373 ++AL+ F G +R+ G LID+ Y +P +KA + Q P +RI Sbjct: 296 LRALANFQ---GVKRRFEILGEFGGVLLIDD-YAHHPTEIKATLKAARQGYPD---KRIV 348 Query: 374 VL-------GDMCEMGELSQSFH-IDLAEVLSLYNISHVWLSGFHVLALKDAL--PRSIH 423 V+ + ++ D +L +Y ++G +L + I Sbjct: 349 VVFQPHRYSRTRDLFDDFAKVLSDADELILLDIYAAGEEPINGIDGKSLARKITQLGKIE 408 Query: 424 VHYSETMDGLFLFIQSSLVDGDVVV 448 ++ + L F+ + L GD+++ Sbjct: 409 PYFVPDLAELVEFLAAVLQSGDLIL 433 >gnl|CDD|179018 PRK00421, murC, UDP-N-acetylmuramate--L-alanine ligase; Provisional. Length = 461 Score = 81.3 bits (202), Expect = 4e-16 Identities = 101/419 (24%), Positives = 161/419 (38%), Gaps = 78/419 (18%) Query: 63 KGAGLVVV-------NTDMVASIGSLSIPVFGVDDVLGALNKLAVAARLRSKATIIAITG 115 K A +VV N ++VA+ L IPV ++L L +R + T IA+ G Sbjct: 65 KDADVVVYSSAIPDDNPELVAAR-ELGIPVVRRAEMLAEL--------MRFR-TSIAVAG 114 Query: 116 SVGKTTTKEMLTIALSSIKK--TYACIGSYNNHIGVPLTLARMPVDVDFGIFELGMS--H 171 + GKTTT +L L+ T+ IG N G T AR+ + D+ + E S Sbjct: 115 THGKTTTTSLLAHVLAEAGLDPTFL-IGGILNAAG---TNARLG-NSDYFVAEADESDRS 169 Query: 172 LGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDDSF 231 FL L P IA++T I HL + E++ A E L G + DD Sbjct: 170 -----FL-KL-HPDIAIVTNIDADHLDYYGDFEDLKDAFQEFAHNLPFYGALVACGDDPE 222 Query: 232 FELLKAKSHALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVVH-HGIGY 290 L + + + ++G S++ADF+ +Q + +V +G+ + G Sbjct: 223 LRELLPRVS----RPVITYGFSEDADFRAENIRQDGGGTHFDVLRRGEVLGDFTLPLPGR 278 Query: 291 HMAQNMLMTLGIVSILTADVDTAIKALSVFHPKEGRGKRYRCALNQGFFTLIDESYNANP 350 H N L + + L D + +AL+ F +G +R+ G LID+ Y +P Sbjct: 279 HNVLNALAAIAVALELGIDDEAIREALATF---KGVKRRFEEKGEVGGVVLIDD-YAHHP 334 Query: 351 ASMKAAISVLSQISPHGEGRRIAVLGDMCEMGELSQSF--H-----IDLAE--VLSLYNI 401 +KA + Q P R +AV F H DL + +L + Sbjct: 335 TEIKATLKAARQGYPD--KRIVAV-------------FQPHRYSRTRDLLDEFAEALSDA 379 Query: 402 SHVWLS-----------GFHVLALKDALPRS-IHVHYSETMDGLFLFIQSSLVDGDVVV 448 V L G L + R + ++ L + L GD+V+ Sbjct: 380 DEVILLDIYAAGEEPIGGVDSEDLARKIKRGHRDPIFVPDLEDLAELLAEVLKPGDLVL 438 >gnl|CDD|184511 PRK14106, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 450 Score = 66.5 bits (163), Expect = 1e-11 Identities = 59/189 (31%), Positives = 80/189 (42%), Gaps = 33/189 (17%) Query: 63 KGAGLVVVN------TDMVASIGSLSIPVFGVDDVLGALNKLAVAARLRSKATIIAITGS 116 +G LVVV+ + V I V G ++ +A R SKA I+AITG+ Sbjct: 67 EGVDLVVVSPGVPLDSPPVVQAHKKGIEVIG---------EVELAYRF-SKAPIVAITGT 116 Query: 117 VGKTTTKEML-TIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDFGIFELGMS--HLG 173 GKTTT +L I ++ +KT +IG PL A D I +S L Sbjct: 117 NGKTTTTTLLGEIFKNAGRKTLVA-----GNIGYPLIDAVEEYGED-DIIVAEVSSFQLE 170 Query: 174 EIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDD---- 229 I+ +P + I I P HL +E AKA IFE + LNYDD Sbjct: 171 TIKEF----KPKVGCILNITPDHLDRHKTMENYIKAKARIFENQRPSDYTVLNYDDPRTR 226 Query: 230 SFFELLKAK 238 S + KA+ Sbjct: 227 SLAKKAKAR 235 >gnl|CDD|179428 PRK02472, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 447 Score = 61.4 bits (150), Expect = 5e-10 Identities = 55/219 (25%), Positives = 85/219 (38%), Gaps = 24/219 (10%) Query: 106 SKATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVPLT-LARMPVDVDFGI 164 S+A II ITGS GKTTT ++ L + + +IG P + +A+ D + Sbjct: 106 SEAPIIGITGSNGKTTTTTLIGEMLKAGGQH----ALLAGNIGYPASEVAQKATADDTLV 161 Query: 165 FELGMSHL-GEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTI 223 EL L G RPHIAVIT I PAHL E +AK I + + + Sbjct: 162 MELSSFQLMG-----IETFRPHIAVITNIYPAHLDYHGTFENYVAAKWNIQKNQTEDDYL 216 Query: 224 FLNYDDSFFELLKAKSHALGIKTIY-SFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSME 282 +N+D E +K + + S + + + + + K M Sbjct: 217 VINFDQ---EEVKELAKQTKATVVPFSTTEKVEDGAYI-------KDGALYFK-GEKIMA 265 Query: 283 VVHHGI-GYHMAQNMLMTLGIVSILTADVDTAIKALSVF 320 + G H +N L + +L + + LS F Sbjct: 266 ADDIVLPGSHNLENALAAIAAAKLLGVSNEAIREVLSTF 304 >gnl|CDD|179297 PRK01438, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 480 Score = 60.1 bits (146), Expect = 1e-09 Identities = 56/176 (31%), Positives = 77/176 (43%), Gaps = 29/176 (16%) Query: 64 GAGLVVV------NTDMVASIGSLSIPVFGVDDVLGALNKLAVAARLRSK---ATIIAIT 114 LVV + ++A+ IPV+G +V +A RLR A +A+T Sbjct: 78 DTDLVVTSPGWRPDAPLLAAAADAGIPVWG--EV-------ELAWRLRDPDRPAPWLAVT 128 Query: 115 GSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVPLTLA-RMPVDVDFGIFELGMSHLG 173 G+ GKTTT +ML L + A +G+ IG P+ A R P D EL L Sbjct: 129 GTNGKTTTVQMLASMLRAAGLRAAAVGN----IGTPVLDAVRDPEGYDVLAVELSSFQL- 183 Query: 174 EIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDD 229 + V PH A + +AP HL +E A+AKA I+EG T N D Sbjct: 184 ---HWSPSVSPHSAAVLNLAPDHLDWHGSMEAYAAAKARIYEG--TTVACVYNVAD 234 >gnl|CDD|184459 PRK14022, PRK14022, UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional. Length = 481 Score = 55.4 bits (134), Expect = 3e-08 Identities = 34/127 (26%), Positives = 51/127 (40%), Gaps = 9/127 (7%) Query: 14 IQGHSIGIVPQGFVNGISIDSRSIAPQEAFFAIKGPHYDGHDFILHAVQKGAGLVVVNTD 73 Q H + IS DSR+ FFA Y H F+ +A+ +G L V D Sbjct: 21 DQDHYHYNYSGVQFDDISYDSRTADEGTLFFAKGA--YFKHKFLQNAITQGLKLYVSEKD 78 Query: 74 MVASIGSLSIPVFGVDDVLGALNKLAVA--ARLRSKATIIAITGSVGKTTTKEMLTIALS 131 + IP V D+ A++ +A+ + K ++A TG+ GKTT L Sbjct: 79 Y-----EVGIPQVIVPDIKKAMSLIAMEFYDNPQHKLKLLAFTGTKGKTTAAYFAYHILK 133 Query: 132 SIKKTYA 138 + K Sbjct: 134 QLHKPAM 140 >gnl|CDD|179323 PRK01710, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 458 Score = 54.7 bits (132), Expect = 5e-08 Identities = 39/128 (30%), Positives = 59/128 (46%), Gaps = 18/128 (14%) Query: 107 KATIIAITGSVGKTTTKEMLTIALSSIKKT--YAC-IGSYNNHIGVPL--TLARMPVDVD 161 A + +TGS GKTTT T + + K Y +G +IG PL + + + D Sbjct: 116 PAKVFGVTGSDGKTTT----TTLIYEMLKEEGYKTWVGG---NIGTPLFSNIEEIKEE-D 167 Query: 162 FGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTG 221 + EL L +T V P +AV+T ++P HL +EE AK IF+ + Sbjct: 168 KVVLELSSFQL-----MTMDVSPEVAVVTNLSPNHLDVHKDMEEYIDAKKNIFKYQSEND 222 Query: 222 TIFLNYDD 229 + LN D+ Sbjct: 223 LLVLNKDN 230 >gnl|CDD|184752 PRK14573, PRK14573, bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional. Length = 809 Score = 53.7 bits (129), Expect = 9e-08 Identities = 56/223 (25%), Positives = 87/223 (39%), Gaps = 24/223 (10%) Query: 102 ARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKT--YACIGSYNNHIGVPLTLARMPVD 159 A L + I ++GS GKTT ++T KK YA IG N L Sbjct: 98 AELMQEQISILVSGSHGKTTVSSLITAIFQEAKKDPSYA-IGGLNQ-----EGLNGYSGS 151 Query: 160 VDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSG-IEEIASAKAEIFEGLE 218 ++ + E S G ++ T P +VIT I HLSNF G E + ++ + ++ Sbjct: 152 SEYFVAEADESD-GSLKHYT----PEFSVITNIDNEHLSNFEGDRELLLASIQDFARKVQ 206 Query: 219 KTGTIFLNYDDSFFELLKAKSHALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQLQG 278 + F N D + K G S+G S + D + + Q +S+ + G Sbjct: 207 QINKCFYNGDCP-----RLKGCLQGH----SYGFSSSCDLHILSYYQEGWRSYFSAKFLG 257 Query: 279 KSMEVVH-HGIGYHMAQNMLMTLGIVSILTADVDTAIKALSVF 320 + + + +G H N +GI L D AL F Sbjct: 258 VVYQDIELNLVGMHNVANAAAAMGIALTLGIDEGAIRNALKGF 300 >gnl|CDD|167786 PRK04308, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 445 Score = 51.4 bits (123), Expect = 5e-07 Identities = 75/305 (24%), Positives = 115/305 (37%), Gaps = 45/305 (14%) Query: 90 DVLGALNKLAVA-ARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYACI-----GSY 143 VLG + LA R K +IAITGS GKTT ++ Y CI Sbjct: 93 RVLGDIELLADIVNRRGDK--VIAITGSNGKTTVTSLVG---------YLCIKCGLDTVI 141 Query: 144 NNHIGVPL---TLARMPVDVDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNF 200 +IG P+ L R D + EL L T +RP A + I+ HL + Sbjct: 142 AGNIGTPVLEAELQREGKKADVWVLELSSFQLEN----TESLRPTAATVLNISEDHLDRY 197 Query: 201 SGIEEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKSHALGIKTIYSFGKSKNADFQL 260 + + A KA+IF G G LN DD+F +K + F ADF L Sbjct: 198 DDLLDYAHTKAKIFRG---DGVQVLNADDAFCRAMKRAGR-----EVKWFSLEHEADFWL 249 Query: 261 RKWKQCSEQSWMEVQLQGKSMEVVHHGIGYHMAQNMLMTLGIVSILTADVDTAIKALSVF 320 + +Q E + + + + G H A N++ + + + + ++ + F Sbjct: 250 ERETGRLKQG-NEDLIATQDIPLQ----GLHNAANVMAAVALCEAVGLPREALLEHVKTF 304 Query: 321 HPKEGRGKRYRCALNQGFFTLIDESYNANPASMKAAISVLSQ-----ISPHGEGRRIAVL 375 +G R + ID+S N + AAI+ L + G+G+ L Sbjct: 305 ---QGLPHRVEKIGEKNGVVFIDDSKGTNVGATAAAIAGLQNPLFVILGGMGKGQDFTPL 361 Query: 376 GDMCE 380 D Sbjct: 362 RDALA 366 >gnl|CDD|179359 PRK02006, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 498 Score = 48.9 bits (117), Expect = 3e-06 Identities = 56/207 (27%), Positives = 80/207 (38%), Gaps = 31/207 (14%) Query: 35 RSIAPQEAFFAIKGPH----YDGHDFILHAVQKGAGLVVVNT-DMVASIGSLSIPVFGVD 89 R+ P F GP DG D + A+ G + +VA+ IPV+G Sbjct: 49 RAELPDAEFVG--GPFDPALLDGVDLV--ALSPGLSPLEAALAPLVAAARERGIPVWGEI 104 Query: 90 DVLG-ALNKLAVAARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIG 148 ++ AL L + ++AITG+ GKTTT + + K A G+ I Sbjct: 105 ELFAQALAALGASGY---APKVLAITGTNGKTTTTALTGLLCERAGKKVAVAGN----IS 157 Query: 149 VPLTLARMPVDVDFG------IFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSG 202 P L ++ +D G + EL L TH + P A + I HL Sbjct: 158 -PAALDKLMEAIDAGALPDVWVLELSSFQLET----THTLAPDAATVLNITQDHLDWHGS 212 Query: 203 IEEIASAKAEIFEGLEKTGTIFLNYDD 229 + A+AKA IF LN DD Sbjct: 213 MAAYAAAKARIFGP---RTVRVLNRDD 236 >gnl|CDD|179286 PRK01368, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 454 Score = 48.3 bits (115), Expect = 4e-06 Identities = 37/121 (30%), Positives = 60/121 (49%), Gaps = 10/121 (8%) Query: 111 IAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDFGIFELGMS 170 IAITG+ GK+TT +++ L+S Y G+ IGVP A+ D + EL Sbjct: 107 IAITGTNGKSTTTALISHILNSNGLDYPVAGN----IGVPALQAK--ASKDGYVLELSSF 160 Query: 171 HLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNYDDS 230 L ++ T IAV+ I P HL ++ +AK++IF+ ++K +N D+ Sbjct: 161 QLDLVKTFT----AKIAVLLNITPDHLDRHQDMDGYIAAKSKIFDRMDKDSYAVINIDND 216 Query: 231 F 231 + Sbjct: 217 Y 217 >gnl|CDD|179650 PRK03803, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 448 Score = 47.6 bits (114), Expect = 7e-06 Identities = 68/287 (23%), Positives = 106/287 (36%), Gaps = 58/287 (20%) Query: 107 KATIIAITGSVGKTTTK----EMLTIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDF 162 KA +IAITGS GK+T EM A K A G+ IG P L + D + Sbjct: 107 KAPVIAITGSNGKSTVTTLVGEMAKAA----GKRVAVGGN----IGTP-ALDLLSDDPEL 157 Query: 163 GIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGT 222 + EL L TH + +A + I+ H+ +S +E AK I+ G Sbjct: 158 YVLELSSFQLE----TTHSLNAEVATVLNISEDHMDRYSDLEAYHQAKHRIYRG---AKQ 210 Query: 223 IFLNYDDSFFELLKAKSHALGIKTIYSFGKSK--NADFQLR-----KWKQCSEQSWM--- 272 + N DD+ L + + SFG + ++ LR + + M Sbjct: 211 VVFNRDDALTRPLVPDN-----QPCLSFGLNAPDFDEWGLREGDGETYLAHGFERLMPVR 265 Query: 273 EVQLQGKSMEVVHHGIGYHMAQNMLMTLGIVSILTADVDTAIKALSVFHPKEGRGKRYRC 332 E++L+G H N L L + + ++ L F G +RC Sbjct: 266 ELKLRGS-----------HNLANALAALALGEAAGLPKEAMLEVLRTF-----TGLPHRC 309 Query: 333 ---ALNQGFFTLIDESYNANPASMKAAISVLSQISPHGEGRRIAVLG 376 G ++S N + AAI L H +G+ + + G Sbjct: 310 EWVREVAG-VDYYNDSKGTNVGATVAAIEGLGA---HIQGKLVLIAG 352 >gnl|CDD|179291 PRK01390, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 460 Score = 44.1 bits (105), Expect = 8e-05 Identities = 35/134 (26%), Positives = 55/134 (41%), Gaps = 17/134 (12%) Query: 102 ARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVP-LTLARMPVDV 160 A IAITG+ GK+TT ++ L + G+ IG LTL P Sbjct: 108 RAHAPDAPFIAITGTNGKSTTTALIAHILREAGRDVQMGGN----IGTAVLTLEPPPAG- 162 Query: 161 DFGIFELGMSHLGEIRF---LTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGL 217 ++ L +S + L + P + V+ + P HL +E A+AK +F G Sbjct: 163 --RVYVLELS-----SYQIDLAPSLDPDVGVLLNLTPDHLDRHGTMEGYAAAKERLFAGQ 215 Query: 218 EKTGTIFLNYDDSF 231 T + DD++ Sbjct: 216 GP-DTAVIGVDDAY 228 >gnl|CDD|179871 PRK04663, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 438 Score = 43.6 bits (103), Expect = 1e-04 Identities = 70/265 (26%), Positives = 106/265 (40%), Gaps = 47/265 (17%) Query: 108 ATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDFGIFEL 167 +IAITGS GK+T + LT ++ +G +IGVP L + D + + EL Sbjct: 108 KPVIAITGSNGKSTVTD-LTGVMAKAAGVKVAVGG---NIGVP-ALDLLEQDAELYVLEL 162 Query: 168 GMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGTIFLNY 227 L E L A ++ H+ + G+E+ AK IF+ E +N Sbjct: 163 SSFQL-ETTSSLKLK---AAAFLNLSEDHMDRYQGMEDYRQAKLRIFDHAE---LAVVNR 215 Query: 228 DDSFFELLKAKSHALGIKTIYSFGKSKNADFQL-----RKWKQCSEQSWM---EVQLQGK 279 DD K + +FG DF L R+W + Q + E++L G+ Sbjct: 216 DD------KQTYPDHAELQLVTFG-FDQQDFGLAQHQGREWLADNGQPVLASAELKLVGR 268 Query: 280 SMEVVHHGIGYHMAQNMLMTLGIVSILTADVDTAIKALSVFHPKEGRGKRYRC---ALNQ 336 H N+L+ L ++ D A+ AL K G +RC A N Sbjct: 269 -----------HNVANVLVVLALLDAAGVDYRKALDAL-----KSYTGLTHRCQVVADNH 312 Query: 337 GFFTLIDESYNANPASMKAAISVLS 361 G +++S N AS AA+S L Sbjct: 313 G-IKWVNDSKATNVASTLAALSGLE 336 >gnl|CDD|179651 PRK03806, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 438 Score = 42.6 bits (101), Expect = 2e-04 Identities = 64/261 (24%), Positives = 114/261 (43%), Gaps = 37/261 (14%) Query: 107 KATIIAITGSVGKTTTKEMLT-IALSSIKKTYACIGSYNNHIGVP-LTLARMPVDVDFGI 164 +A I+AITGS GK+T ++ +A K +G N IG+P L+L ++ + Sbjct: 104 QAPIVAITGSNGKSTVTTLVGEMA----KAAGWKVGVGGN-IGLPALSLLDQECEL--YV 156 Query: 165 FELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNF-SGIEEIASAKAEIFEGLEKTGTI 223 EL L T ++ A I + H+ + G+++ +AK I+E + Sbjct: 157 LELSSFQLET----TSSLKAAAATILNVTEDHMDRYPFGLQQYRAAKLRIYENAK---VC 209 Query: 224 FLNYDDSFFELLKAKSHALGIKTIYSFGKSKNADFQLRKWKQCSEQSWMEVQ----LQGK 279 +N DD+ L + + SFG + D+ L + + ++W+ V+ L K Sbjct: 210 VVNADDA----LTMPIRGADKRCV-SFGVN-MGDYHLNRQQ---GETWLRVKGEKVLNTK 260 Query: 280 SMEVVHHGIGYHMAQNMLMTLGIVSILTADVDTAIKALSVFHPKEGRGKRYRCALNQGFF 339 M++ G H N L L + + +++KAL+ F G R++ L Sbjct: 261 EMKLS----GQHNYTNALAALALADAVGIPRASSLKALTTFT---GLPHRFQLVLEHNGV 313 Query: 340 TLIDESYNANPASMKAAISVL 360 I++S N S +AA++ L Sbjct: 314 RWINDSKATNVGSTEAALNGL 334 >gnl|CDD|179652 PRK03815, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 401 Score = 40.0 bits (94), Expect = 0.001 Identities = 31/102 (30%), Positives = 43/102 (42%), Gaps = 12/102 (11%) Query: 109 TIIAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVPLTLARMPVDVDFGIFELG 168 I I+G+ GKTTT +M T L A G +IG P LA + + + E Sbjct: 90 FSIWISGTNGKTTTTQMTTHLLEDFG---AVSGG---NIGTP--LAELDKNAKIWVLETS 141 Query: 169 MSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAK 210 L T+ +P+I ++ I P HLS E AK Sbjct: 142 SFTL----HYTNKAKPNIYLLLPITPDHLSWHGSFENYVKAK 179 >gnl|CDD|179872 PRK04690, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 468 Score = 39.0 bits (91), Expect = 0.003 Identities = 31/99 (31%), Positives = 46/99 (46%), Gaps = 9/99 (9%) Query: 101 AARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVPL--TLARMPV 158 AAR + +TG+ GK+TT +L L + A +G+ IGVPL LA P Sbjct: 108 AARDGVVPGTVCVTGTKGKSTTTALLAHLLRAAGHRTALVGN----IGVPLLEVLAPQPA 163 Query: 159 DVDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHL 197 ++ EL G++ RP +AV+ + P HL Sbjct: 164 -PEYWAIELSSYQTGDVA--RSGARPELAVVLNLFPEHL 199 >gnl|CDD|162681 TIGR02068, cya_phycin_syn, cyanophycin synthetase. Cyanophycin synthesis is analogous to polyhydroxyalkanoic acid (PHA) biosynthesis, except that PHA polymers lack nitrogen and may be made under nitrogen-limiting conditions. Length = 864 Score = 37.8 bits (88), Expect = 0.006 Identities = 71/341 (20%), Positives = 114/341 (33%), Gaps = 54/341 (15%) Query: 84 PVFGVD-DVLGALNKLAVAARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYACIGS 142 P G +V A+ + A + I+++TG+ GKTTT + ++ I K + Sbjct: 454 PSQGKPRNVARAIVDMLFPAEDDGRIPIVSVTGTNGKTTTTRL----VAHILKQTGKVVG 509 Query: 143 YNNHIGVPL-------------TLARMPV---DVDFGIFELGMSHLGEIRFLTHLVRPHI 186 GV + AR + VD + E G +R R + Sbjct: 510 MTTTDGVYIGKYLVEKGDNTGPASARRILMDPTVDAAVLETARG--GILREGLAFDRCDV 567 Query: 187 AVITTIAPAHLSNF--SGIEEIASAKAEIFEGLEKTGTIFLNYDDSFFELLKAKSHALGI 244 V+T IA HL + IE++A K + E + G LN DD + K Sbjct: 568 GVVTNIAGDHLGIGDINTIEDLADVKRVVVEVVLPDGYAVLNADDPMVAAMAEKCKG--- 624 Query: 245 KTIYSFGKSKNADFQLRKWKQCSEQSWME----VQLQGKSMEVV---------HHGIGYH 291 K Y F N + E V +G + G Sbjct: 625 KIAY-FSMDPNNPTVAAHIADGGRAVYYENGYIVIARGGDEVAIARIAAIPLTMGGRVAF 683 Query: 292 MAQNMLMTLGIVSILTADVDTAIKALSVFHPKEGRGKRYRCALNQGFFTLIDESYNANPA 351 +N L + L ++ + F + N G ++ + Y NPA Sbjct: 684 QIENALAAVAAAWALGVPIELIRAGIRTFDADAAQAPGRFNLFNLGGAHVLVD-YGHNPA 742 Query: 352 SMKAAISVLSQISPHGEGRRIAVLG--------DMCEMGEL 384 +++A + + RRI V+G D+ E GEL Sbjct: 743 AIEAVGAAIRNWP---ARRRIGVIGGPGDRRDEDLVEQGEL 780 >gnl|CDD|178896 PRK00141, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 473 Score = 37.8 bits (88), Expect = 0.007 Identities = 38/138 (27%), Positives = 60/138 (43%), Gaps = 12/138 (8%) Query: 80 SLSIPVFGVDDVLGALNKLAVAARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYAC 139 S + V G DV A +L A T +A+TG+ GKTTT ML + Sbjct: 96 SQGLEVIG--DVELAW-RLDQAGVFGEPRTWLAVTGTNGKTTTTAMLAAMMQEGGFAAQA 152 Query: 140 IGSYNNHIGVPLTLA-RMPVDVDFGIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLS 198 +G+ IGVP++ A +D + EL L + L P + V+ +A H+ Sbjct: 153 VGN----IGVPVSAALVAQPRIDVLVAELSSFQL---HWSPTLT-PDVGVVLNLAEDHID 204 Query: 199 NFSGIEEIASAKAEIFEG 216 + + A+ KA++ G Sbjct: 205 WHGSMRDYAADKAKVLRG 222 >gnl|CDD|179461 PRK02705, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 459 Score = 36.8 bits (86), Expect = 0.012 Identities = 49/202 (24%), Positives = 80/202 (39%), Gaps = 39/202 (19%) Query: 111 IAITGSVGKTTTKEMLTIALSSIKKT---YACIGSYNNHIGVPLT-LARMPV----DVDF 162 + ITG+ GKTT T L+ I + A +IG LA + D+ Sbjct: 112 VGITGTNGKTTV----TALLAHILQAAGLNAPACG---NIGYAACELALLRSGKAQKPDW 164 Query: 163 GIFELGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEGLEKTGT 222 + EL S+ E + + P I + TT P HL +E + KA + LE++ Sbjct: 165 IVAELS-SYQIES---SPELAPKIGIWTTFTPDHLERHGTLENYFAIKASL---LERSEI 217 Query: 223 IFLNYDDSFFELLKAKSHALGIKTIYSFGKSKNADFQLRKWKQCS----EQSWMEVQLQG 278 LN DD + L+ + K ++ + K + Q E+ W V +G Sbjct: 218 RILNGDDPY---LRQHRSSWP-KGYWTSTQGKASLLG-----QADGWILEEGW--VVERG 266 Query: 279 KSMEVVHH--GIGYHMAQNMLM 298 + + + G H QN+L+ Sbjct: 267 EPLFPLSALKMPGAHNLQNLLL 288 >gnl|CDD|179571 PRK03369, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 488 Score = 36.3 bits (84), Expect = 0.018 Identities = 31/111 (27%), Positives = 44/111 (39%), Gaps = 23/111 (20%) Query: 113 ITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVP-LTLARMPVD---VDFGIFELG 168 +TG+ GKTTT ML L + + G+ IG P L + P + V+ F+L Sbjct: 122 VTGTNGKTTTTSMLHAMLIAAGRRSVLCGN----IGSPVLDVLDEPAELLAVELSSFQL- 176 Query: 169 MSHLGEIRFLTHL---VRPHIAVITTIAPAHLSNFSGIEEIASAKAEIFEG 216 H +RP + IA HL + A+AKA G Sbjct: 177 -----------HWAPSLRPEAGAVLNIAEDHLDWHGTMAAYAAAKARALTG 216 >gnl|CDD|184454 PRK14016, PRK14016, cyanophycin synthetase; Provisional. Length = 727 Score = 35.9 bits (84), Expect = 0.020 Identities = 39/149 (26%), Positives = 53/149 (35%), Gaps = 46/149 (30%) Query: 110 IIAITGSVGKTTTKEMLTIALSSIKKT--YACI-GSYNNHIGVPLTL---------ARM- 156 I+A+TG+ GKTTT ++ L K G Y I L AR Sbjct: 482 IVAVTGTNGKTTTTRLIAHILKLSGKRVGMTTTDGVY---IDGRLIDKGDCTGPKSARRV 538 Query: 157 ---PVDVDFGIFE----------LGMSHLGEIRFLTHLVRPHIAVITTIAPAHLSNFSGI 203 P DV+ + E L R + V+T I HL GI Sbjct: 539 LMNP-DVEAAVLETARGGILREGLAYD------------RCDVGVVTNIGEDHLGLG-GI 584 Query: 204 ---EEIASAKAEIFEGLEKTGTIFLNYDD 229 E++A K + E ++ G LN DD Sbjct: 585 NTLEDLAKVKRVVVEAVKPDGYAVLNADD 613 >gnl|CDD|162392 TIGR01499, folC, folylpolyglutamate synthase/dihydrofolate synthase. A mutation study of the FolC gene of E. coli suggests that both activitities belong to the same active site. Because some examples are monofunctional (and these cannot be separated phylogenetically), the model is treated as subfamily, not equivalog. Length = 397 Score = 34.2 bits (79), Expect = 0.068 Identities = 21/62 (33%), Positives = 33/62 (53%), Gaps = 10/62 (16%) Query: 158 VDVDFGIFELGMSHLGEIRFL--THLVRPHIAVITTIAPAHLSNFSG--IEEIASAKAEI 213 VD + E+G+ G L T+++ P ++VIT+I H + G +EEIA KA I Sbjct: 109 AQVDVAVLEVGLG--GR---LDATNVIEPLVSVITSIGLDH-TEILGDTLEEIAWEKAGI 162 Query: 214 FE 215 + Sbjct: 163 IK 164 >gnl|CDD|178501 PLN02913, PLN02913, dihydrofolate synthetase. Length = 510 Score = 30.6 bits (69), Expect = 0.93 Identities = 22/59 (37%), Positives = 31/59 (52%), Gaps = 7/59 (11%) Query: 159 DVDFGIFELGMSHLGEIRFLTHLVRPH---IAVITTIAPAHLSNFSG-IEEIASAKAEI 213 +VD + E G LG R T+++ +VITTI HL+ G +E IA AK+ I Sbjct: 173 NVDIAVIEAG---LGGARDATNVIDSSGLAASVITTIGEEHLAALGGSLESIALAKSGI 228 >gnl|CDD|163482 TIGR03770, anch_rpt_perm, anchored repeat-type ABC transporter, permease subunit. This protein family is the permease subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in the adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous permease subunits outside the scope of this family include manganese transporter MntB in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown. Length = 270 Score = 30.5 bits (69), Expect = 0.99 Identities = 18/75 (24%), Positives = 35/75 (46%) Query: 80 SLSIPVFGVDDVLGALNKLAVAARLRSKATIIAITGSVGKTTTKEMLTIALSSIKKTYAC 139 ++ +PVF +D VL L AV +++ I+ + + T +LT L + Sbjct: 172 AMGLPVFLLDLVLYVLVTAAVVISVQTIGNILVLALLITPAATARLLTDRLGVMMALSPV 231 Query: 140 IGSYNNHIGVPLTLA 154 IG + +G+ L+ + Sbjct: 232 IGGVGSFLGLYLSWS 246 >gnl|CDD|184108 PRK13518, PRK13518, carboxylate-amine ligase; Provisional. Length = 357 Score = 30.5 bits (69), Expect = 1.1 Identities = 13/26 (50%), Positives = 19/26 (73%), Gaps = 2/26 (7%) Query: 206 IASAKAEIFEGLEKTG--TIFLNYDD 229 +ASA+A+IFEGL TG T F +++ Sbjct: 179 LASARAKIFEGLPNTGMPTAFEDFEA 204 >gnl|CDD|178678 PLN03132, PLN03132, NADH dehydrogenase (ubiquinone) flavoprotein 1; Provisional. Length = 461 Score = 30.2 bits (68), Expect = 1.1 Identities = 22/71 (30%), Positives = 32/71 (45%), Gaps = 1/71 (1%) Query: 307 TADVDTAIKALSVFHPKEGRGKRYRCALNQGFFTLIDESYNANPASMKAAISVLSQISPH 366 + DV AI LS F+ E G+ C G+ I E A ++ I +L +++ Sbjct: 358 STDVVDAIARLSYFYKHESCGQCTPCREGTGWLWDIMERMKVGNAKLEE-IDMLQEVTKQ 416 Query: 367 GEGRRIAVLGD 377 EG I LGD Sbjct: 417 IEGHTICALGD 427 >gnl|CDD|131577 TIGR02525, plasmid_TraJ, plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524). Length = 372 Score = 30.2 bits (68), Expect = 1.1 Identities = 35/154 (22%), Positives = 56/154 (36%), Gaps = 37/154 (24%) Query: 248 YSFGKSKNADFQLRKWKQCSEQSWMEVQLQGKSMEVV-HHGIGYHMAQNMLMTLGIVSIL 306 ++FG AD R + CS ++ LQG S VV HG + L L + ++ Sbjct: 1 FNFGPGLTADTLRRFFVHCSRHEVSDIHLQGGSPIVVERHGRQVPASSFPLDNLELERLV 60 Query: 307 T--------------ADVDTAIK----ALSVFHPKEGRGKRYRCALNQGFFTLIDESYNA 348 A VD AI+ + G R+RC Q A Sbjct: 61 DEVFGPEIKPTVKSGAPVDRAIQLRGDENGRYGLGRGERVRFRCNFIQ-----------A 109 Query: 349 NPASMKAAISVLSQISPHGEGRRIAVLGDMCEMG 382 ++ AIS+ ++ P + + D+ +MG Sbjct: 110 TIGKLETAISLTLRVIP-------SDIPDLKQMG 136 >gnl|CDD|180082 PRK05439, PRK05439, pantothenate kinase; Provisional. Length = 311 Score = 30.2 bits (69), Expect = 1.2 Identities = 13/24 (54%), Positives = 15/24 (62%), Gaps = 2/24 (8%) Query: 110 IIAITGSV--GKTTTKEMLTIALS 131 II I GSV GK+TT +L LS Sbjct: 88 IIGIAGSVAVGKSTTARLLQALLS 111 >gnl|CDD|149875 pfam08941, USP8_interact, USP8 interacting. This domain interacts with the UBP deubiquitinating enzyme USP8. Length = 179 Score = 29.0 bits (65), Expect = 2.7 Identities = 10/28 (35%), Positives = 13/28 (46%) Query: 278 GKSMEVVHHGIGYHMAQNMLMTLGIVSI 305 GK VV HM +N+ G+V I Sbjct: 146 GKQAVVVLGCENTHMPENLRPEPGLVMI 173 >gnl|CDD|179086 PRK00683, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 418 Score = 28.6 bits (64), Expect = 3.7 Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 4/41 (9%) Query: 111 IAITGSVGKTTTKEMLTIALSSIKKTYACIGSYNNHIGVPL 151 + ITGS GKTTT L L + +G+ IG+P+ Sbjct: 105 LGITGSTGKTTTILFLEHLLKRLGIPAFAMGN----IGIPI 141 >gnl|CDD|183493 PRK12389, PRK12389, glutamate-1-semialdehyde aminotransferase; Provisional. Length = 428 Score = 28.4 bits (64), Expect = 4.1 Identities = 15/38 (39%), Positives = 19/38 (50%) Query: 349 NPASMKAAISVLSQISPHGEGRRIAVLGDMCEMGELSQ 386 NPASM A I+ L + G ++ LG M E G L Sbjct: 304 NPASMAAGIACLEVLQQEGVYEKLDRLGAMLEEGILEA 341 >gnl|CDD|178442 PLN02850, PLN02850, aspartate-tRNA ligase. Length = 530 Score = 28.5 bits (64), Expect = 4.1 Identities = 10/24 (41%), Positives = 12/24 (50%), Gaps = 3/24 (12%) Query: 421 SIHVHYSETMD---GLFLFIQSSL 441 I HYSE +D LF+ I L Sbjct: 323 EIKEHYSEVLDVVDELFVAIFDGL 346 >gnl|CDD|180747 PRK06917, PRK06917, hypothetical protein; Provisional. Length = 447 Score = 28.5 bits (64), Expect = 4.2 Identities = 10/34 (29%), Positives = 17/34 (50%) Query: 345 SYNANPASMKAAISVLSQISPHGEGRRIAVLGDM 378 + +ANP S A++VL + H + A G+ Sbjct: 303 TLSANPLSAATALAVLEYMEKHNLPEKAAEKGEY 336 >gnl|CDD|185482 PTZ00150, PTZ00150, phosphoglucomutase-2-like protein; Provisional. Length = 584 Score = 27.7 bits (62), Expect = 6.7 Identities = 14/46 (30%), Positives = 26/46 (56%), Gaps = 4/46 (8%) Query: 286 HGIGYHMAQNMLMTLGIVSILT----ADVDTAIKALSVFHPKEGRG 327 HG+G Q L T+G+ ++L+ A+ D ++ +P+EG+G Sbjct: 237 HGVGTRFVQKALHTVGLPNLLSVAQQAEPDPEFPTVTFPNPEEGKG 282 >gnl|CDD|131023 TIGR01968, minD_bact, septum site-determining protein MinD. This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model. Length = 261 Score = 27.7 bits (62), Expect = 7.5 Identities = 16/36 (44%), Positives = 19/36 (52%), Gaps = 3/36 (8%) Query: 108 ATIIAIT---GSVGKTTTKEMLTIALSSIKKTYACI 140 A +I IT G VGKTTT L AL+ + K I Sbjct: 1 ARVIVITSGKGGVGKTTTTANLGTALARLGKKVVLI 36 >gnl|CDD|148468 pfam06869, DUF1258, Protein of unknown function (DUF1258). This family represents a conserved region approximately 260 residues long within a number of hypothetical proteins of unknown function that seem to be specific to C. elegans. Note that this family contains a number of conserved cysteine and histidine residues. Length = 258 Score = 27.1 bits (60), Expect = 9.4 Identities = 13/63 (20%), Positives = 25/63 (39%), Gaps = 4/63 (6%) Query: 375 LGDMCEMGELSQSFHIDLAEV----LSLYNISHVWLSGFHVLALKDALPRSIHVHYSETM 430 +GD ++ EL +S+ + E+ N SH S F + + ++ Sbjct: 48 IGDFSQILELVESYANIIMEIREQLKEGRNSSHNLNSPFFSKKWLSESDNHLWLSTVSSI 107 Query: 431 DGL 433 DG+ Sbjct: 108 DGI 110 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.322 0.137 0.401 Gapped Lambda K H 0.267 0.0653 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 7,737,352 Number of extensions: 509523 Number of successful extensions: 1081 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1024 Number of HSP's successfully gapped: 62 Length of query: 472 Length of database: 5,994,473 Length adjustment: 97 Effective length of query: 375 Effective length of database: 3,898,497 Effective search space: 1461936375 Effective search space used: 1461936375 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 59 (26.7 bits)