RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254781099|ref|YP_003065512.1| UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase [Candidatus Liberibacter asiaticus str. psy62] (468 letters) >gnl|CDD|179291 PRK01390, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 460 Score = 506 bits (1306), Expect = e-144 Identities = 204/459 (44%), Positives = 265/459 (57%), Gaps = 10/459 (2%) Query: 3 LSSFRNHSIAVFGLGRSGLSAACALKDSGVHVIAWDDHPCAVKQAKDMGIEVIDFREIPW 62 ++ F ++AVFGLG SGL+ A AL G VIAWDD+P + +A GI D R W Sbjct: 4 VTGFAGKTVAVFGLGGSGLATARALVAGGAEVIAWDDNPASRAKAAAAGITTADLRTADW 63 Query: 63 SIISFLVLSPGIALTGENAHWCVKLANQFNVEIIGDIELFVRERRFSSLQSPFIAVTGTN 122 S + LVLSPG+ LT HW V LA VE+IGDIELF RERR + +PFIA+TGTN Sbjct: 64 SGFAALVLSPGVPLTHPKPHWVVDLARAAGVEVIGDIELFCRERRAHAPDAPFIAITGTN 123 Query: 123 GKSSTVALISHVLRKNGYDVQLGGNIGLPILNLEYFSPNRFYVIECSSYQIELTPTIDPS 182 GKS+T ALI+H+LR+ G DVQ+GGNIG +L LE R YV+E SSYQI+L P++DP Sbjct: 124 GKSTTTALIAHILREAGRDVQMGGNIGTAVLTLEPPPAGRVYVLELSSYQIDLAPSLDPD 183 Query: 183 IGVLLNISPDHLDRHHTLENYVNIKKKIVTMSK--HAIICINDHQCEKIAYDMNFIGHSI 240 +GVLLN++PDHLDRH T+E Y K+++ A+I ++D C IA + G + Sbjct: 184 VGVLLNLTPDHLDRHGTMEGYAAAKERLFAGQGPDTAVIGVDDAYCRAIADRLEAAGRRV 243 Query: 241 SRISSQSLQSDSDLYIDESFL--KCSATSEVIFDFSQETK---KHNIQNLVTSAVVCMQL 295 RIS+ +D +Y D L I D HN QN + L Sbjct: 244 VRISAGKPLAD-GVYADGGKLVDARGGRQVEIADLRGIPSLPGAHNAQNAAAAYAAARAL 302 Query: 296 GLKVEEIKRALLSCGGLTHRLQTIARLGHVIFINDSKATNLHSVIHAFLNEKRRIYWIAG 355 GL EEI L S GL HR++ + R G V+F+NDSKATN + A L+ RIYWIAG Sbjct: 303 GLSPEEIAAGLASFPGLAHRMEQVGRRGGVLFVNDSKATNADAAAKA-LSSFDRIYWIAG 361 Query: 356 GLSKSDDFSTLFPFISKIAKAYFIGNSAMLFFHHFGGKINSTLSKTLDQALKSVVRDVEN 415 G K +L PF +IAKAY IG +A F GG + + TL++A+ + D Sbjct: 362 GKPKEGGIESLAPFFPRIAKAYLIGEAAEAFAATLGGAVPFEICGTLERAVAAAAADAAA 421 Query: 416 VQLPS-IVLFSPGCASFDQYNNFRERGFSFMSQVSEIPG 453 P +VL SP CASFDQ+ NF RG +F V+ +PG Sbjct: 422 DGAPEPVVLLSPACASFDQFKNFEVRGDAFRELVAALPG 460 >gnl|CDD|162197 TIGR01087, murD, UDP-N-acetylmuramoylalanine--D-glutamate ligase. Length = 433 Score = 309 bits (794), Expect = 8e-85 Identities = 141/453 (31%), Positives = 206/453 (45%), Gaps = 38/453 (8%) Query: 11 IAVFGLGRSGLSAACALKDSGVHVIAWDDHP-----CAVKQAKDMGIEVIDFREIP--WS 63 I + GLG++G + A L G V D P ++ Q + V+ + Sbjct: 2 ILILGLGKTGRAVARFLHKKGAEVTVTDLKPNEELEPSMGQLRLNEGSVLHTGLHLEDLN 61 Query: 64 IISFLVLSPGIALTGENAHWCVKLANQFNVEIIGDIELFVRERRFSSLQSPFIAVTGTNG 123 +V SPGI H V+ A + + ++GDIELF+R L P +A+TGTNG Sbjct: 62 NADLVVKSPGIPP----DHPLVQAAAKRGIPVVGDIELFLR---LVPL--PVVAITGTNG 112 Query: 124 KSSTVALISHVLRKNGYDVQLGGNIGLPILNLEYFSPNRFYVIECSSYQIELTPTIDPSI 183 K++T +L+ H+L+ G LGGNIG P L + YV+E SS+Q+E T ++ P I Sbjct: 113 KTTTTSLLYHLLKAAGLKAFLGGNIGTPALEVLDQEGAELYVLELSSFQLETTESLRPEI 172 Query: 184 GVLLNISPDHLDRHHTLENYVNIKKKIVT-MSKHAIICINDHQCEKIAYDMNFIGHSISR 242 ++LNIS DHLD H + E+YV K KI ++ + +N I Sbjct: 173 ALILNISEDHLDWHGSFEDYVAAKLKIFARQTEGDVAVLNADDPRFARLAQKSKAQVIWF 232 Query: 243 ISSQSLQSDSDLYIDESFLKCSATSEVIFDFSQETK---KHNIQNLVTSAVVCMQLGLKV 299 + + + +LK E HN +N++ + + LGL + Sbjct: 233 SVEKDAERGLCIRDGGLYLK---------PNDLEGSLLGLHNAENILAAIALAKSLGLNL 283 Query: 300 EEIKRALLSCGGLTHRLQTIARLGHVIFINDSKATNLHSVIHAFLNEKRRIYWIAGGLSK 359 E I AL S GL HRL+ + + V F NDSKATN+H+ + A + I GG K Sbjct: 284 EAILEALRSFKGLPHRLEYVGQKNGVHFYNDSKATNVHATLAALSAFDNPVILIVGGDDK 343 Query: 360 SDDFSTLFPFISKIAK-AYFIGNSAMLF--FHHFGGKINSTLSKTLDQALKSVVRDVENV 416 DFS L P + K IG A + LS L ++L+ V+ V Sbjct: 344 GADFSPLAPAAAGKVKAVLAIGEDAAKIAPLLK-----EAGLSVYLVESLEEAVQAAREV 398 Query: 417 -QLPSIVLFSPGCASFDQYNNFRERGFSFMSQV 448 +VL SP CASFDQ+ ++ ERG F V Sbjct: 399 ASPGDVVLLSPACASFDQFKSYEERGEKFKELV 431 >gnl|CDD|179286 PRK01368, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 454 Score = 269 bits (690), Expect = 1e-72 Identities = 161/460 (35%), Positives = 239/460 (51%), Gaps = 37/460 (8%) Query: 3 LSSFRNHSIAVFGLGRSGLSAACALKDSGVHVIAWDDHPCA----VKQAKDMGIEVIDFR 58 ++S I VFGLG++G+S L+ + VI +DD + I + Sbjct: 1 MNSHTKQKIGVFGLGKTGISVYEELQ-NKYDVIVYDDLKANRDIFEELYSKNAIAALS-- 57 Query: 59 EIPWSIISFLVLSPGIALTGENAHWCVKLANQFNVEIIGDIELFVRERRFSSLQSPFIAV 118 + W + +VLSPGI LT H VK+A FN+ I DI+L + S FIA+ Sbjct: 58 DSRWQNLDKIVLSPGIPLT----HEIVKIAKNFNIPITSDIDLLFEK----SKNLKFIAI 109 Query: 119 TGTNGKSSTVALISHVLRKNGYDVQLGGNIGLPILNLEYFSPNRFYVIECSSYQIELTPT 178 TGTNGKS+T ALISH+L NG D + GNIG+P L + + YV+E SS+Q++L T Sbjct: 110 TGTNGKSTTTALISHILNSNGLDYPVAGNIGVPALQAK--ASKDGYVLELSSFQLDLVKT 167 Query: 179 IDPSIGVLLNISPDHLDRHHTLENYVNIKKKIVT-MSK--HAIICINDHQCEKI------ 229 I VLLNI+PDHLDRH ++ Y+ K KI M K +A+I I++ C +I Sbjct: 168 FTAKIAVLLNITPDHLDRHQDMDGYIAAKSKIFDRMDKDSYAVINIDNDYCREIFIKLQQ 227 Query: 230 AYDMNFIGHSISRISSQSLQSDSDLYIDESFLKCSATSEVIFDFSQETKKHNIQNLVTSA 289 + I S+++I + D D F + ++ F+ KHN +N+ S Sbjct: 228 EQRIKLIPFSVTKILENGISVVDDKISDNFF--DDISFKLPFN-KNLQGKHNCENIAASY 284 Query: 290 VVCMQLGLKVEEIKRALLSCGGLTHRLQTIARLGHVIFINDSKATNLHSVIHAFLNEKRR 349 V +G++ ++I ++ S L HR+Q I + ++ F NDSKATN S + + + Sbjct: 285 AVAKIIGVEPKKILESISSFQSLPHRMQYIGSINNISFYNDSKATNAISAVQS-IKALDN 343 Query: 350 IYWIAGGLSKSDDFSTLFPFISKIAKAYFIGNSAMLFFHHFGG----KINSTLSKTLDQA 405 IYW+AGG+ K + P+ SKI KAYF G + +F + I L + D A Sbjct: 344 IYWLAGGIPKEGGIEEIKPYFSKIKKAYFYGQAKEIFANTAKNIVDFVICDNLEQAFDLA 403 Query: 406 LKSVVRDVENVQLPSIVLFSPGCASFDQYNNFRERGFSFM 445 K V D N ++ +I L +P C+S+DQ+ NF ERG F+ Sbjct: 404 YKDAVGD--NAEVKNI-LLAPSCSSYDQFKNFEERGELFI 440 >gnl|CDD|179461 PRK02705, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 459 Score = 267 bits (684), Expect = 6e-72 Identities = 149/465 (32%), Positives = 217/465 (46%), Gaps = 60/465 (12%) Query: 13 VFGLGRSGLSAACALKDSGVHVIAWD--DHPCAVKQAKDM---GIEV-----IDFREI-P 61 V GLGRSG++AA LK G V+ D D P +++ +++ GI V ++ P Sbjct: 5 VIGLGRSGIAAARLLKAQGWEVVVSDRNDSPELLERQQELEQEGITVKLGKPLELESFQP 64 Query: 62 WSI-ISFLVLSPGIALTGENAHWCVKLANQF---NVEIIGDIELFVRERRFSSLQS-PFI 116 W +V+SPGI W + +E+IG+IEL R +L+ P++ Sbjct: 65 WLDQPDLVVVSPGIP-------WDHPTLVELRERGIEVIGEIELAWR-----ALKHIPWV 112 Query: 117 AVTGTNGKSSTVALISHVLRKNGYDVQLGGNIGLPILNLEYF-SPNR----FYVIECSSY 171 +TGTNGK++ AL++H+L+ G + GNIG L S + V E SSY Sbjct: 113 GITGTNGKTTVTALLAHILQAAGLNAPACGNIGYAACELALLRSGKAQKPDWIVAELSSY 172 Query: 172 QIELTPTIDPSIGVLLNISPDHLDRHHTLENYVNIKKKIVTMSKHAIICINDHQCEKIAY 231 QIE +P + P IG+ +PDHL+RH TLENY IK ++ S+ I+ +D + Sbjct: 173 QIESSPELAPKIGIWTTFTPDHLERHGTLENYFAIKASLLERSEIRILNGDDPYLRQHR- 231 Query: 232 DMNFIGHSISR---ISSQSLQSDSD----LYIDESFLKCSATSEVIFDFS--QETKKHNI 282 S + S+Q S ++E ++ E +F S + HN+ Sbjct: 232 ------SSWPKGYWTSTQGKASLLGQADGWILEEGWVV--ERGEPLFPLSALKMPGAHNL 283 Query: 283 QNLVTSAVVCMQLGLKVEEIKRALLSCGGLTHRLQTIARLGHVIFINDSKATNLHSVIHA 342 QNL+ + GL E I AL S G+ HRL+ I + + FINDSKATN + Sbjct: 284 QNLLLAVAAARLAGLSAEAIAEALRSFPGVPHRLERIGTINGIDFINDSKATNYDAAEVG 343 Query: 343 FLNEKRRIYWIAGGLSKSDDFSTLFPFISKIAKAYF-IGNSAMLFFH-----HFGGKINS 396 + IAGG +K D S I A A G +A + G+ Sbjct: 344 LKAVPGPVILIAGGEAKQGDDSAWLKQIKAKAAAVLLFGEAAPTLAQRLQESGYTGEY-- 401 Query: 397 TLSKTLDQALKSVVRDVENVQLPSIVLFSPGCASFDQYNNFRERG 441 + +TLD+A+ + +Q VL SP CASFDQY NF ERG Sbjct: 402 EIVETLDEAVPRAFELAKELQ-AKSVLLSPACASFDQYKNFEERG 445 >gnl|CDD|179428 PRK02472, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 447 Score = 235 bits (603), Expect = 1e-62 Identities = 132/471 (28%), Positives = 209/471 (44%), Gaps = 50/471 (10%) Query: 6 FRNHSIAVFGLGRSGLSAACALKDSGVHVIAWD-----DHPCAVKQAKDMGIEVIDFREI 60 ++N + V GL +SG +AA L G +V D ++P ++ + GI+VI Sbjct: 3 YQNKKVLVLGLAKSGYAAAKLLHKLGANVTVNDGKPFSENP-EAQELLEEGIKVI-CGSH 60 Query: 61 PWSI----ISFLVLSPGIALTGENAHWCVKLANQFNVEIIGDIELFVRERRFSSLQSPFI 116 P + +V +PGI N V+ A + + II ++EL + ++P I Sbjct: 61 PLELLDEDFDLMVKNPGIP--YTNP--MVEKALEKGIPIITEVEL-----AYLISEAPII 111 Query: 117 AVTGTNGKSSTVALISHVLRKNGYDVQLGGNIGLPILNL-EYFSPNRFYVIECSSYQIEL 175 +TG+NGK++T LI +L+ G L GNIG P + + + + V+E SS+Q+ Sbjct: 112 GITGSNGKTTTTTLIGEMLKAGGQHALLAGNIGYPASEVAQKATADDTLVMELSSFQLMG 171 Query: 176 TPTIDPSIGVLLNISPDHLDRHHTLENYVNIKKKIV-TMSKHAIICINDHQCEKIAYDMN 234 T P I V+ NI P HLD H T ENYV K I ++ + IN Q E Sbjct: 172 IETFRPHIAVITNIYPAHLDYHGTFENYVAAKWNIQKNQTEDDYLVINFDQEEV----KE 227 Query: 235 FIGHSISRISSQSLQSDS--DLYIDESFL-----KCSATSEVIFDFSQETKKHNIQNLVT 287 + + + S YI + L K A +++ HN++N + Sbjct: 228 LAKQTKATVVPFSTTEKVEDGAYIKDGALYFKGEKIMAADDIVL-----PGSHNLENALA 282 Query: 288 SAVVCMQLGLKVEEIKRALLSCGGLTHRLQTIARLGHVIFINDSKATN---LHSVIHAFL 344 + LG+ E I+ L + G+ HRLQ + + F NDSKATN + F Sbjct: 283 AIAAAKLLGVSNEAIREVLSTFSGVKHRLQYVGTIDGRKFYNDSKATNILATQKALSGF- 341 Query: 345 NEKRRIYWIAGGLSKSDDFSTLFPFISKIAKAYFIGNSAMLFFHHFGGK--INSTLSKTL 402 + + +AGGL + ++F L P++ + G +A K I + + Sbjct: 342 --NQPVVLLAGGLDRGNEFDELVPYLKNVKAMVVFGETAEK-LARAAEKAGITVVEADNV 398 Query: 403 DQALKSVVRDVENVQLPSIVLFSPGCASFDQYNNFRERGFSFMSQVSEIPG 453 + A+ E ++L SP CAS+DQY F ERG F+ V E+ G Sbjct: 399 EDAVPKAYELSEPGD---VILLSPACASWDQYKTFEERGDEFIKAVEELKG 446 >gnl|CDD|184511 PRK14106, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 450 Score = 234 bits (598), Expect = 6e-62 Identities = 135/483 (27%), Positives = 217/483 (44%), Gaps = 74/483 (15%) Query: 6 FRNHSIAVFGLGRSGLSAACALKDSGVHVIAWD-----DHPCAVKQAKDMGIEVIDFREI 60 + + V G G SGL+ A LK G VI D A+++ ++GIE++ E Sbjct: 3 LKGKKVLVVGAGVSGLALAKFLKKLGAKVILTDEKEEDQLKEALEELGELGIELV-LGEY 61 Query: 61 P-WSIISF--LVLSPGIALTGENAHWCVKLANQFNVEIIGDIELFVRERRFSSLQSPFIA 117 P + +V+SPG+ L V A++ +E+IG++EL R + +P +A Sbjct: 62 PEEFLEGVDLVVVSPGVPLDSP----PVVQAHKKGIEVIGEVELAYRFSK-----APIVA 112 Query: 118 VTGTNGKSSTVALISHVLRKNGYDVQLGGNIGLP-ILNLEYFSPNRFYVIECSSYQIELT 176 +TGTNGK++T L+ + + G + GNIG P I +E + + V E SS+Q+E Sbjct: 113 ITGTNGKTTTTTLLGEIFKNAGRKTLVAGNIGYPLIDAVEEYGEDDIIVAEVSSFQLETI 172 Query: 177 PTIDPSIGVLLNISPDHLDRHHTLENYVNIKKKIVTMSKHAIICINDHQCEKIAYDMNFI 236 P +G +LNI+PDHLDRH T+ENY+ K +I + YD Sbjct: 173 KEFKPKVGCILNITPDHLDRHKTMENYIKAKARI-------FENQRPSDYTVLNYDDPRT 225 Query: 237 GHSISRISSQ----SLQSDSD--LYIDESFLKCSATSEVIFDFSQETKK----------- 279 + ++ S +S + +++ +++ + ++ Sbjct: 226 RSLAKKAKARVIFFSRKSLLEEGVFVKN--------GKIVISLGGKEEEVIDIDEIFIPG 277 Query: 280 -HNIQNLVTSAVVCMQLGLKVEEIKRALLSCGGLTHRLQTIARLGHVIFINDSKATNLHS 338 HN++N + + LG+ + I L + G+ HR++ +A + V FINDSK TN + Sbjct: 278 EHNLENALAATAAAYLLGISPDVIANTLKTFKGVEHRIEFVAEINGVKFINDSKGTNPDA 337 Query: 339 VIHAFLNEKRRIYWIAGGLSKSDDFSTLFPFISKIAK-----------AYFIGNSAMLFF 387 I A + I IAGG K DF F + A I +A + Sbjct: 338 AIKALEAYETPIVLIAGGYDKGSDFDE---FAKAFKEKVKKLILLGETAQEIAEAARKY- 393 Query: 388 HHFGGKINSTLSKTLDQALKSVVRDVENVQLPSIVLFSPGCASFDQYNNFRERGFSFMSQ 447 G N ++TL++A V + E + +VL SP CAS+D + NF ERG F Sbjct: 394 ----GFDNILFAETLEEA---VKKAYEIAKPGDVVLLSPACASWDMFKNFEERGRLFKEL 446 Query: 448 VSE 450 V E Sbjct: 447 VLE 449 >gnl|CDD|179650 PRK03803, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 448 Score = 219 bits (559), Expect = 2e-57 Identities = 139/465 (29%), Positives = 212/465 (45%), Gaps = 43/465 (9%) Query: 9 HSIAVFGLGRSGLSAACALKDSGVHVIAWD--DHP--CAVKQAKDMGIEVIDFREIPWSI 64 V GLG++GLS L G+ D + P + +E+ + Sbjct: 7 GLHIVVGLGKTGLSVVRFLARQGIPFAVMDSREQPPGLDTLAREFPDVELR-CGGFDCEL 65 Query: 65 I---SFLVLSPGIAL-TGENAHWCVKLANQFNVEIIGDIELFVRERRFSSLQSPFIAVTG 120 + S +++SPG+AL T ++ A +E+IGDIELF RE ++P IA+TG Sbjct: 66 LVQASEIIISPGLALDTPA-----LRAAAAMGIEVIGDIELFARE-----AKAPVIAITG 115 Query: 121 TNGKSSTVALISHVLRKNGYDVQLGGNIGLPILNLEYFSPNRFYVIECSSYQIELTPTID 180 +NGKS+ L+ + + G V +GGNIG P L+L P YV+E SS+Q+E T +++ Sbjct: 116 SNGKSTVTTLVGEMAKAAGKRVAVGGNIGTPALDLLSDDPE-LYVLELSSFQLETTHSLN 174 Query: 181 PSIGVLLNISPDHLDRHHTLENYVNIKKKIVTMSKHAIICINDHQCEKIAYDMNFIGHSI 240 + +LNIS DH+DR+ LE Y K +I +K + +D A + + Sbjct: 175 AEVATVLNISEDHMDRYSDLEAYHQAKHRIYRGAKQVVFNRDD------ALTRPLVPDNQ 228 Query: 241 SRISSQSLQSDSDLY--IDESFLKCSA--TSEVIFDFSQETK---KHNIQNLVTSAVVCM 293 +S D D + + A ++ +E K HN+ N + + + Sbjct: 229 PCLSFGLNAPDFDEWGLREGDGETYLAHGFERLM--PVRELKLRGSHNLANALAALALGE 286 Query: 294 QLGLKVEEIKRALLSCGGLTHRLQTIARLGHVIFINDSKATNLHSVIHAF--LNE--KRR 349 GL E + L + GL HR + + + V + NDSK TN+ + + A L + + Sbjct: 287 AAGLPKEAMLEVLRTFTGLPHRCEWVREVAGVDYYNDSKGTNVGATVAAIEGLGAHIQGK 346 Query: 350 IYWIAGGLSKSDDFSTLFPFISKIAKAY-FIGNSAMLFFHHFGGKINSTLSKTLDQALKS 408 + IAGG K DFS L ++K +A IG A GG + TL +A Sbjct: 347 LVLIAGGDGKGADFSPLREPVAKYVRAVVLIGRDADKIAAALGGAVPLVRVATLAEA--- 403 Query: 409 VVRDVENVQLPSIVLFSPGCASFDQYNNFRERGFSFMSQVSEIPG 453 V + E Q IVL SP CAS D + NF RG F V + G Sbjct: 404 VAKAAELAQAGDIVLLSPACASLDMFKNFEARGDDFRQAVEALAG 448 >gnl|CDD|179651 PRK03806, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 438 Score = 209 bits (533), Expect = 2e-54 Identities = 141/472 (29%), Positives = 216/472 (45%), Gaps = 78/472 (16%) Query: 6 FRNHSIAVFGLGRSGLSAACALKDSGVHVIAWDDHPCAVKQAKDMGIEVIDFREIP---- 61 ++ + + GLG +GLS GV VID R P Sbjct: 4 YQGKKVVIIGLGLTGLSCVDFFLARGVTP------------------RVIDTRITPPGLD 45 Query: 62 ----------------WSIISFL-VLSPGIALTGENAHWCVKLANQFNVEIIGDIELFVR 104 W + + L V SPGIAL AH + A +EI+GDIELF R Sbjct: 46 KLPENVERHTGSLNDEWLLAADLIVASPGIAL----AHPSLSAAADAGIEIVGDIELFCR 101 Query: 105 ERRFSSLQSPFIAVTGTNGKSSTVALISHVLRKNGYDVQLGGNIGLPILNLEYFSPNRFY 164 E Q+P +A+TG+NGKS+ L+ + + G+ V +GGNIGLP L+L Y Sbjct: 102 E-----AQAPIVAITGSNGKSTVTTLVGEMAKAAGWKVGVGGNIGLPALSL-LDQECELY 155 Query: 165 VIECSSYQIELTPTIDPSIGVLLNISPDHLDRHHT-LENYVNIKKKIVTMSKHAIICIND 223 V+E SS+Q+E T ++ + +LN++ DH+DR+ L+ Y K +I +K ++ +D Sbjct: 156 VLELSSFQLETTSSLKAAAATILNVTEDHMDRYPFGLQQYRAAKLRIYENAKVCVVNADD 215 Query: 224 HQCEKIAYDMNFIGHSISRISSQSLQSDSDL--YIDESFLKCSATSEVIFDFSQE--TKK 279 A M G +S D L E++L+ E + + + + + Sbjct: 216 ------ALTMPIRGADKRCVSFGVNMGDYHLNRQQGETWLR--VKGEKVLNTKEMKLSGQ 267 Query: 280 HNIQNLVTSAVVCMQLGLKVEEIKRALLSCGGLTHRLQTIARLGHVIFINDSKATNLHSV 339 HN N + + + +G+ +AL + GL HR Q + V +INDSKATN+ S Sbjct: 268 HNYTNALAALALADAVGIPRASSLKALTTFTGLPHRFQLVLEHNGVRWINDSKATNVGST 327 Query: 340 IHAF--LNEKRRIYWIAGGLSKSDDFSTLFPFISKIA-KAYFIG----NSAMLFFHHFGG 392 A L+ ++ + GG KS DFS L +++ + Y G A L Sbjct: 328 EAALNGLHVDGTLHLLLGGDGKSADFSPLARYLNGDNIRLYCFGRDGAQLAAL------R 381 Query: 393 KINSTLSKTLDQALKSVVRDVENVQLPSIVLFSPGCASFDQYNNFRERGFSF 444 S L++T++QA++ + VQ +VL SP CAS DQ+ NF +RG F Sbjct: 382 PEVSQLTETMEQAMRLIAP---RVQPGDMVLLSPACASLDQFKNFEQRGNEF 430 >gnl|CDD|167786 PRK04308, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 445 Score = 207 bits (529), Expect = 4e-54 Identities = 131/460 (28%), Positives = 214/460 (46%), Gaps = 29/460 (6%) Query: 5 SFRNHSIAVFGLGRSGLSAACALKDSGVHVIAWDDHPCA--VKQAKDM--GIEVI--DFR 58 +F+N I V GLG +G+S L+ +G V A+D V Q M G+ + Sbjct: 2 TFQNKKILVAGLGGTGISMIAYLRKNGAEVAAYDAELKPERVAQIGKMFDGLVFYTGRLK 61 Query: 59 EIPWSIISFLVLSPGIALTGENAHWCVKLANQFNVEIIGDIELFVRERRFSSLQSPFIAV 118 + + L LSPGI+ ++ Q ++GDIEL + IA+ Sbjct: 62 DALDNGFDILALSPGISE----RQPDIEAFKQNGGRVLGDIELLADI--VNRRGDKVIAI 115 Query: 119 TGTNGKSSTVALISHVLRKNGYDVQLGGNIGLPILNLEYFSPNR---FYVIECSSYQIEL 175 TG+NGK++ +L+ ++ K G D + GNIG P+L E + +V+E SS+Q+E Sbjct: 116 TGSNGKTTVTSLVGYLCIKCGLDTVIAGNIGTPVLEAELQREGKKADVWVLELSSFQLEN 175 Query: 176 TPTIDPSIGVLLNISPDHLDRHHTLENYVNIKKKIVTMSKHAIICINDHQCEKIAYDMNF 235 T ++ P+ +LNIS DHLDR+ L +Y + K KI ++ +D C M Sbjct: 176 TESLRPTAATVLNISEDHLDRYDDLLDYAHTKAKIFRGDGVQVLNADDAFCRA----MKR 231 Query: 236 IGHSISRISSQSLQSDSDLYIDESFLKCSATSEVIFDFS--QETKKHNIQNLVTSAVVCM 293 G + S L+ ++D +++ + +E + HN N++ + +C Sbjct: 232 AGREVKWFS---LEHEADFWLERETGRLKQGNEDLIATQDIPLQGLHNAANVMAAVALCE 288 Query: 294 QLGLKVEEIKRALLSCGGLTHRLQTIARLGHVIFINDSKATNLHSVIHAFLNEKRRIYWI 353 +GL E + + + GL HR++ I V+FI+DSK TN+ + A + ++ I Sbjct: 289 AVGLPREALLEHVKTFQGLPHRVEKIGEKNGVVFIDDSKGTNVGATAAAIAGLQNPLFVI 348 Query: 354 AGGLSKSDDFSTLFPFISKIAKAYF-IGNSAMLFFHHFGG-KINSTLSKTLDQALKSVVR 411 GG+ K DF+ L ++ AK F IG A G +N T TL++A++ R Sbjct: 349 LGGMGKGQDFTPLRDALAGKAKGVFLIGVDAPQIRRDLDGCGLNLTDCATLEEAVQ---R 405 Query: 412 DVENVQLPSIVLFSPGCASFDQYNNFRERGFSFMSQVSEI 451 + IVL SP CASFD + + R F+ + Sbjct: 406 AYAQAEAGDIVLLSPACASFDMFKGYAHRSEVFIEAFKAL 445 >gnl|CDD|179297 PRK01438, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 480 Score = 199 bits (509), Expect = 9e-52 Identities = 125/476 (26%), Positives = 205/476 (43%), Gaps = 35/476 (7%) Query: 4 SSFRNHSIAVFGLGRSGLSAACALKDSGVHVIAWD--DHPCAVKQAKDMGIEVIDFREIP 61 S ++ + V GLG SG +AA AL + G V D D A + R P Sbjct: 12 SDWQGLRVVVAGLGVSGFAAADALLELGARVTVVDDGDDERHRALAAILEALGATVRLGP 71 Query: 62 WSII----SFLVLSPGIALTGENAHWCVKLANQFNVEIIGDIELFVRERRFSSLQSPFIA 117 + +V SPG + A + + G++EL R R +P++A Sbjct: 72 GPTLPEDTDLVVTSPGWRPD----APLLAAAADAGIPVWGEVELAWRLRDPDR-PAPWLA 126 Query: 118 VTGTNGKSSTVALISHVLRKNGYDVQLGGNIGLPILNLEYFSPNRF--YVIECSSYQIEL 175 VTGTNGK++TV +++ +LR G GNIG P+L+ P + +E SS+Q+ Sbjct: 127 VTGTNGKTTTVQMLASMLRAAGLRAAAVGNIGTPVLD-AVRDPEGYDVLAVELSSFQLHW 185 Query: 176 TPTIDPSIGVLLNISPDHLDRHHTLENYVNIKKKIVTMSKHAIICIN---DHQCEKIAYD 232 +P++ P +LN++PDHLD H ++E Y K +I + C+ D E + + Sbjct: 186 SPSVSPHSAAVLNLAPDHLDWHGSMEAYAAAKARI--YEGTTVACVYNVADPATEDLVEE 243 Query: 233 MNF------IGHSISRISSQSLQSDSDLYIDESFL---KCSATSEVIFDFSQETKKHNIQ 283 + IG ++ L + +D +F+ + SA + + HNI Sbjct: 244 ADVVEGARAIGFTLGTPGPSQLGVVDGILVDRAFVEDRQTSALELATLEDLRPAAPHNIA 303 Query: 284 NLVTSAVVCMQLGLKVEEIKRALLSCGGLTHRLQTIARLGHVIFINDSKATNLHSVIHAF 343 N + +A + G+ ++ L + HR++ +A V +++DSKATN H+ A Sbjct: 304 NALAAAALARSFGVPPAAVRDGLRAFRPDAHRIEHVADADGVTWVDDSKATNPHAAA-AS 362 Query: 344 LNEKRRIYWIAGGLSKSDDFSTLFP-FISKIAKAYFIGNSAML----FFHHFGGKINSTL 398 L + WIAGGL+K DF L ++ IG H + Sbjct: 363 LAAYPSVVWIAGGLAKGADFDDLVRRAAGRLRGVVLIGADRAEIAEALARHAPDVPVVEV 422 Query: 399 SKTLDQALKSVVRDVENVQLP-SIVLFSPGCASFDQYNNFRERGFSFMSQVSEIPG 453 +T A+ V + P VL +P AS D + ++ RG +F + V + G Sbjct: 423 DRTDTGAMDEAVAAAAKLARPGDTVLLAPAAASMDMFTDYAARGDAFAAAVRALLG 478 >gnl|CDD|179871 PRK04663, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 438 Score = 191 bits (486), Expect = 4e-49 Identities = 132/471 (28%), Positives = 217/471 (46%), Gaps = 83/471 (17%) Query: 9 HSIAVFGLGRSGLSAACALKDSGVHVIAWDDHPCAVKQAKDMGIEVIDFREIP------- 61 ++ V GLG +GLS L K + ++VID RE P Sbjct: 8 KNVVVVGLGITGLSVVKHL----------------RKYQPQLTVKVIDTRETPPGQEQLP 51 Query: 62 -------------WSIISFLVL-SPGIAL-TGENAHWCVKLANQFNVEIIGDIELFVRER 106 W + + LV+ +PGIAL T E ++ + ++GDIELF Sbjct: 52 EDVELHSGGWNLEWLLEADLVVTNPGIALATPE-----IQQVLAAGIPVVGDIELFAW-- 104 Query: 107 RFSSLQSPFIAVTGTNGKSSTVALISHVLRKNGYDVQLGGNIGLPILNLEYFSPN-RFYV 165 ++ P IA+TG+NGKS+ L + + G V +GGNIG+P L+L + YV Sbjct: 105 ---AVDKPVIAITGSNGKSTVTDLTGVMAKAAGVKVAVGGNIGVPALDL--LEQDAELYV 159 Query: 166 IECSSYQIELTPTIDPSIGVLLNISPDHLDRHHTLENYVNIKKKIVTMSKHAIICINDHQ 225 +E SS+Q+E T ++ LN+S DH+DR+ +E+Y K +I ++ A++ +D Q Sbjct: 160 LELSSFQLETTSSLKLKAAAFLNLSEDHMDRYQGMEDYRQAKLRIFDHAELAVVNRDDKQ 219 Query: 226 CEKIAYDMNFIGHSISRISSQSLQSDSDLYI---DESFLKCSATSEVIFDFSQETKKHNI 282 ++ + + Q ++ + L + V +HN+ Sbjct: 220 TYPDHAELQLVTFGFDQQDFGLAQHQGREWLADNGQPVLASAELKLV--------GRHNV 271 Query: 283 QNLVTSAVVCMQLGLKVEEIKRALLSCGGLTHRLQTIARLGHVIFINDSKATNLHSVIHA 342 N++ + G+ + AL S GLTHR Q +A + ++NDSKATN+ S + A Sbjct: 272 ANVLVVLALLDAAGVDYRKALDALKSYTGLTHRCQVVADNHGIKWVNDSKATNVASTLAA 331 Query: 343 F--LNEKRRIYWIAGGLSKSDDFSTLFPFISKIAKAYFIGNSAMLFFHHFGGKI-----N 395 L + ++Y + GG+ K DFS L P ++ + N + F G + + Sbjct: 332 LSGLEIEGKLYLLVGGVGKGADFSPLKPVLATL-------NLQLCCFGEDGDQFMPLHPS 384 Query: 396 STLSKTLDQALKSVVRDVENVQLPS--IVLFSPGCASFDQYNNFRERGFSF 444 + T++ A++S+ + QL S +V+ SP CASFDQ+ NF RG +F Sbjct: 385 ARRFDTMEDAIESI-----SPQLKSGDMVMLSPACASFDQFKNFMARGDAF 430 >gnl|CDD|179872 PRK04690, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 468 Score = 159 bits (405), Expect = 9e-40 Identities = 124/494 (25%), Positives = 207/494 (41%), Gaps = 69/494 (13%) Query: 1 MKLSSFRNHSIAVFGLGRSGLSAACALKDSGVHVIAWDDHPCAVKQAKDMGIEV------ 54 M++S +A++G GR G +A AL+ A C +A+++G Sbjct: 1 MRISQLEGRRVALWGWGREGRAAYRALRAHLPAQ-ALTLF-CNAVEAREVGALADAALLV 58 Query: 55 ---IDFREIPWSIISFLVLSPGIALTGENAHWCVKLANQFNVEIIGDIELFVRERRFSSL 111 + + + +V SPGI+ + A + IG L+ E Sbjct: 59 ETEASAQRL--AAFDVVVKSPGISPYRP---EALAAAAR-GTPFIGGTALWFAEHAARDG 112 Query: 112 QSPF-IAVTGTNGKSSTVALISHVLRKNGYDVQLGGNIGLPILNLEYFSPN-RFYVIECS 169 P + VTGT GKS+T AL++H+LR G+ L GNIG+P+L + P ++ IE S Sbjct: 113 VVPGTVCVTGTKGKSTTTALLAHLLRAAGHRTALVGNIGVPLLEVLAPQPAPEYWAIELS 172 Query: 170 SYQI-ELTPT-IDPSIGVLLNISPDHLDRHHTLENYVNIKKKIVTMSKHAIICINDHQCE 227 SYQ ++ + P + V+LN+ P+HLD H Y K +VT + I +N Sbjct: 173 SYQTGDVARSGARPELAVVLNLFPEHLDWHGGEARYYRDKLSLVTEGRPRIALLN----- 227 Query: 228 KIAYDMNFIGHSISRISSQSLQSDSDL----YIDESFLKCSAT---SEVIFDFSQE--TK 278 A D R+++ L DS++ + D ++ + +FD + Sbjct: 228 --AAD--------PRLAALQL-PDSEVVWFNHPDGWHVRGDVVYRGEQALFDTALVPLPG 276 Query: 279 KHNIQNLVTSAVVCMQLGLKVEEIKRALLSCGGLTHRLQTIARLGHVIFINDSKATNLHS 338 +HN NL LGL + A L +RLQ + + ++NDS +T H+ Sbjct: 277 RHNRGNLCAVLAALEALGLDAVALAPAAAGFRPLPNRLQELGSRDGITYVNDSISTTPHA 336 Query: 339 VIHAF-LNEKRRIYWIAGGLSKSDDFSTLFPFISKIA-----KAYFIGNS-----AMLFF 387 + A RR+ + GG + D++ F + +A + +G + A+L Sbjct: 337 SLAALDCFAGRRVALLVGGHDRGLDWT---DFAAHMAQRAPLEIVTMGANGPRIHALLAP 393 Query: 388 HHFGGKINSTLSKTLDQALKSVVRDVENVQLPSIVLFSPGCASFDQYNNFRERGFSF--- 444 G+ + L A++ + R Q +VL SPG SF Y ++ RG F Sbjct: 394 LAAAGRFGLHAADDLAHAVR-LARTALGAQ-GGVVLLSPGAPSFGAYRDYVARGRHFAQL 451 Query: 445 ----MSQVSEIPGI 454 + +S I G+ Sbjct: 452 AGFDPAAISAIAGL 465 >gnl|CDD|179086 PRK00683, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 418 Score = 156 bits (396), Expect = 1e-38 Identities = 126/462 (27%), Positives = 200/462 (43%), Gaps = 70/462 (15%) Query: 8 NHSIAVFGLGRSGLSAACALKDSGVHVIAWDD-----HPCAVKQAKD-MGIEVIDFREIP 61 + V GLG +G S A L GV+VI D C + E E P Sbjct: 3 LQRVVVLGLGVTGKSIARFLAQKGVYVIGVDKSLEALQSCPYIHERYLENAE-----EFP 57 Query: 62 WSIISFLVLSPGIALTGENAHWCVKLANQFNVEIIGDIELFVRERRFSSLQSPFIAVTGT 121 + +V SPGI + H V+ A ++ ++ DI+L + F+ + P + +TG+ Sbjct: 58 -EQVDLVVRSPGI----KKEHPWVQAAIASHIPVVTDIQLAFQTPEFT--RYPSLGITGS 110 Query: 122 NGKSSTVALISHVLRKNGYDVQLGGNIGLPILNLEYFSPNRFYVIECSSYQIELTPTIDP 181 GK++T+ + H+L++ G GNIG+PIL+ R V+E SS+Q+ P Sbjct: 111 TGKTTTILFLEHLLKRLGIPAFAMGNIGIPILDGMQQPGVR--VVEISSFQLADQEKSYP 168 Query: 182 --SIGVLLNISPDHLDRHHTLENYVNIKKKIVTMSKHAIICINDHQCEKIAYDMNFIGHS 239 S G++LNIS +HLD H L Y K+ I Sbjct: 169 VLSGGMILNISDNHLDYHGNLSAYFQAKQNI----------------------------- 199 Query: 240 ISRISSQSLQSDSDLYIDE------SFLKCSATSEVIFDFSQETKK---HNIQNLVTSAV 290 ++ L++ DL++ + S+L+ + D K H+ N + Sbjct: 200 -----AKCLRNPDDLWVGDERSYGHSYLEYVQEIMRLLDKGSALKPLYLHDRYNYCAAYA 254 Query: 291 VCMQLG-LKVEEIKRALLSCGGLTHRLQTIARLGHVIFINDSKATNLHSVIHAFLNEKRR 349 + ++ + E A+ + HR++ + V +INDSKAT + +V A L + Sbjct: 255 LANEVFPISEESFLEAVATFEKPPHRMEYLGEKDGVHYINDSKATTVSAVEKALLAVGNQ 314 Query: 350 IYWIAGGLSKSDDFSTLFPFISKIAKAYF-IGNSAMLFFHHFGGKINSTLSKTLDQALKS 408 + I GG +K DFS+L P + + AK +G K T+ K L +A+ S Sbjct: 315 VIVILGGRNKGCDFSSLLPVLRQTAKHVVAMGECRQEIAQALSEKFPLTVVKDLQEAV-S 373 Query: 409 VVRDVENVQLPSIVLFSPGCASFDQYNNFRERGFSFMSQVSE 450 + E Q ++L SPGCASFDQ+ +F ERG F V Sbjct: 374 CAQ--EIAQPGDVILLSPGCASFDQFRSFEERGAMFKQLVGM 413 >gnl|CDD|179323 PRK01710, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 458 Score = 149 bits (379), Expect = 1e-36 Identities = 99/381 (25%), Positives = 168/381 (44%), Gaps = 48/381 (12%) Query: 94 EIIGDIELFVRERRFSSLQSPFIAVTGTNGKSSTVALISHVLRKNGYDVQLGGNIGLPIL 153 I ++E F++ + VTG++GK++T LI +L++ GY +GGNIG P+ Sbjct: 103 YITSEMEEFIKYCP-----AKVFGVTGSDGKTTTTTLIYEMLKEEGYKTWVGGNIGTPLF 157 Query: 154 -NLEYFSPNRFYVIECSSYQIELTPTIDPSIGVLLNISPDHLDRHHTLENYVNIKKKIVT 212 N+E V+E SS+Q+ +T + P + V+ N+SP+HLD H +E Y++ KK I Sbjct: 158 SNIEEIKEEDKVVLELSSFQL-MTMDVSPEVAVVTNLSPNHLDVHKDMEEYIDAKKNIFK 216 Query: 213 -MSKHAIICIN-DHQCEKIAYDMNFIGHSISRISSQSLQ---------SDSDLYIDESFL 261 S++ ++ +N D++ + + S + + LYI Sbjct: 217 YQSENDLLVLNKDNEITN-----GMEKEAKGDVVKFSRKEKVYEGAYLKNGKLYIRG--- 268 Query: 262 KCSATSEVIFDFSQETK---KHNIQNLVTSAVVCMQLGLKVEEIKRALLSCGGLTHRLQT 318 EV + K HN++NL+ A + + +E +K+ + G+ HR + Sbjct: 269 -----KEVC--KKDDIKLKGMHNVENLLA-AFCAVNDDVSIESMKKVATTFSGVEHRCEF 320 Query: 319 IARLGHVIFINDSKATNLHSVIHAFLNEKRRIYWIAGGLSKSDDFSTLFPFI-SKIAKAY 377 + + V + NDS A++ + ++ + IAGG K F L KI Sbjct: 321 VREINGVKYYNDSIASSPTRTLAGLKAFEKPVILIAGGYDKKIPFEPLAEEGYEKIKTLI 380 Query: 378 FIGNSAMLFFHHF-------GGKINSTLSKTLDQALKSVVRDVENVQLPSIVLFSPGCAS 430 +G + F G I + +L++A+K E IV SP CAS Sbjct: 381 LMGATKNKIKEAFEKVISEKGIDIPIVIVNSLEEAVKVAKEIAEK---GDIVTLSPACAS 437 Query: 431 FDQYNNFRERGFSFMSQVSEI 451 FD + NF RG F V+ + Sbjct: 438 FDMFPNFEIRGNKFKEIVNNL 458 >gnl|CDD|178896 PRK00141, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 473 Score = 148 bits (375), Expect = 3e-36 Identities = 132/468 (28%), Positives = 213/468 (45%), Gaps = 46/468 (9%) Query: 1 MKLSSFRNHSIAVFGLGRSGLSAACALKDSGVHVIAWDDHPCAV-KQAKDMGIEVIDFRE 59 L + + V G G SG A L + G V+ DD+ A K + G+ I E Sbjct: 8 SALPQELSGRVLVAGAGVSGRGIAAMLSELGCDVVVADDNETARHKLIEVTGVADISTAE 67 Query: 60 IPWSIISF--LVLSPGIALTGENAHW-----CVKLANQFNVEIIGDIELFVRERRFSSLQ 112 + SF +V SPG W + A +E+IGD+EL R + Sbjct: 68 ASDQLDSFSLVVTSPG---------WRPDSPLLVDAQSQGLEVIGDVELAWRLDQAGVFG 118 Query: 113 SP--FIAVTGTNGKSSTVALISHVLRKNGYDVQLGGNIGLPI---LNLEYFSPNR--FYV 165 P ++AVTGTNGK++T A+++ ++++ G+ Q GNIG+P+ L + R V Sbjct: 119 EPRTWLAVTGTNGKTTTTAMLAAMMQEGGFAAQAVGNIGVPVSAALV----AQPRIDVLV 174 Query: 166 IECSSYQIELTPTIDPSIGVLLNISPDHLDRHHTLENYVNIKKKIVTMSKHAIICINDHQ 225 E SS+Q+ +PT+ P +GV+LN++ DH+D H ++ +Y K K++ A+I +D Sbjct: 175 AELSSFQLHWSPTLTPDVGVVLNLAEDHIDWHGSMRDYAADKAKVLR-GPVAVIGADDEY 233 Query: 226 CEKIAYDM---NFIGHSISRISSQSLQSDSDLYIDESFLKCS--ATSEVIFDFSQETKKH 280 ++ IG ++ ++ + +D +F + A++E I Sbjct: 234 VVQLTSAADLSGLIGFTMGEPAAGQVGVRDGELVDNAFGQNVVLASAEGI----SPAGPA 289 Query: 281 NIQNLVTSAVVCMQLGLKVEEIKRALLSCGGLTHRLQTIARLGHVIFINDSKATNLHSVI 340 + + + +A V G+ E I RAL S HR Q +A G V +I++SKATN H+ Sbjct: 290 GVLDALAAAAVARSQGVAPEAIARALSSFEVAGHRGQVVAEHGGVTWIDNSKATNPHAAD 349 Query: 341 HAFLNEKRRIYWIAGGLSKSDDFSTLFPFIS-KIAKAYFIGNS-----AMLFFHHFGGKI 394 A L + W+AGG K D L + +I A +G A L H + Sbjct: 350 AA-LAGHESVVWVAGGQLKGADIDDLIRTHAPRIKAAVVLGVDRAEIVAALAEHAPDAPV 408 Query: 395 NSTLSKTLDQALKSVVRDVENVQLP-SIVLFSPGCASFDQYNNFRERG 441 T S ++A++ V ++ P VL +P AS D Y +RG Sbjct: 409 TVTDSTDPEEAMEEAVSAAVSLAEPGDTVLLAPAAASLDMYTGMGQRG 456 >gnl|CDD|179652 PRK03815, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 401 Score = 140 bits (354), Expect = 1e-33 Identities = 110/458 (24%), Positives = 194/458 (42%), Gaps = 76/458 (16%) Query: 11 IAVFGLGRSGLSAACALKDSGVHVIAWDDHPCAVKQAKDMGIEVIDFREIPWSIISFLVL 70 I++FG G++ + A LK G I +DD + G ++ + + + Sbjct: 3 ISLFGYGKTTKALAKFLKKFGGVDI-FDDK-FTESHKDEEGNLLLPSNDFDPNKSDLEIP 60 Query: 71 SPGIALTGENAHWCVKLANQFNVEIIGDIELFVRERRFSSLQSPFIAVTGTNGKSSTVAL 130 SPGI + H ++ A +I + + F FS I ++GTNGK++T + Sbjct: 61 SPGIPPS----HPLIQKAKN----LISEYDYFYDVMPFS------IWISGTNGKTTTTQM 106 Query: 131 ISHVLRKNGYDVQLGGNIGLPILNLEYFSPNRFYVIECSSYQIELTPTIDPSIGVLLNIS 190 +H+L + GGNIG P+ L+ + +V+E SS+ + T P+I +LL I+ Sbjct: 107 TTHLLED--FGAVSGGNIGTPLAELDKNAK--IWVLETSSFTLHYTNKAKPNIYLLLPIT 162 Query: 191 PDHLDRHHTLENYVNIKKKIVTMSKH---AIICINDHQCEKIAYDMNFIGHSISRISSQS 247 PDHL H + ENYV K K + AI+ K + I + Sbjct: 163 PDHLSWHGSFENYVKAKLKPLKRMNEGDVAIL-------PKKFKNTPTKAQKIFYEDEED 215 Query: 248 LQ-----SDSDLYIDESFLKCS----ATSEVIFDFSQETKKHNIQNLVTSAVVCMQLGLK 298 L + FL + A +++FD E + K Sbjct: 216 LAEKFGIDSEKINFKGPFLLDALLALAVYKILFD---ELDYERLNAFKIGK-------HK 265 Query: 299 VEEIKRALLSCGGLTHRLQTIARLGHVIFINDSKATNLHSVIHAFLN-EKRRIYWIAGGL 357 +EE + RL +++DSKATN+ + + A + ++I+ I GG Sbjct: 266 LEEFRDKQ-------------GRL----WVDDSKATNVDATLQALKRYKDKKIHLILGGD 308 Query: 358 SKSDDFSTLFPFISKI-AKAYFIGNSA---MLFFHHFGGKINSTLSKTLDQALKSVVRDV 413 K D + LF F+ + + Y IG++ F I + + + L++A++ + + Sbjct: 309 DKGVDLTPLFEFMKNLNIELYAIGSNTEKIQALAKEFN--IKAFVCEFLEKAVEEIKK-- 364 Query: 414 ENVQLPSIVLFSPGCASFDQYNNFRERGFSFMSQVSEI 451 ++ + L SP AS DQ+ +++ERG F + V ++ Sbjct: 365 -VLKQNEVALLSPAAASLDQFKSYKERGEKFKAFVLKL 401 >gnl|CDD|179571 PRK03369, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 488 Score = 116 bits (292), Expect = 1e-26 Identities = 65/208 (31%), Positives = 99/208 (47%), Gaps = 11/208 (5%) Query: 10 SIAVFGLGRSGLSAACALKDSGVHVIAWDDHPCAVKQAKDMGIEVIDFREIPWSIISF-- 67 + V G G +G + AL G DD P A++ + G+ + + I + Sbjct: 14 PVLVAGAGVTGRAVLAALTRFGARPTVCDDDPDALRPHAERGVATVSTSDAVQQIADYAL 73 Query: 68 LVLSPGIALTGENAHWCVKLANQFNVEIIGDIELFVRERRFSSLQSP--FIAVTGTNGKS 125 +V SPG T + A V I GD+EL R P ++ VTGTNGK+ Sbjct: 74 VVTSPGFRPTAP----VLAAAAAAGVPIWGDVELAWRLDAAGCYGPPRRWLVVTGTNGKT 129 Query: 126 STVALISHVLRKNGYDVQLGGNIGLPILN-LEYFSPNRFYVIECSSYQIELTPTIDPSIG 184 +T +++ +L G L GNIG P+L+ L+ P +E SS+Q+ P++ P G Sbjct: 130 TTTSMLHAMLIAAGRRSVLCGNIGSPVLDVLD--EPAELLAVELSSFQLHWAPSLRPEAG 187 Query: 185 VLLNISPDHLDRHHTLENYVNIKKKIVT 212 +LNI+ DHLD H T+ Y K + +T Sbjct: 188 AVLNIAEDHLDWHGTMAAYAAAKARALT 215 Score = 58.6 bits (142), Expect = 3e-09 Identities = 48/195 (24%), Positives = 75/195 (38%), Gaps = 40/195 (20%) Query: 295 LGLKVEEIKRALLSCGGLTHRLQTIARLGHVIFINDSKATNLHSV---IHAFLNEKRRIY 351 +G+ I AL S HR + +A + +++DSKATN H+ I A+ R+ Sbjct: 298 VGVPAGAIADALASFRVGRHRAEVVAVADGITYVDDSKATNPHAARASILAY----PRVV 353 Query: 352 WIAGGLSKSDDFSTLFPFI-SKIAKAYFIG--------------------------NSAM 384 WIAGGL K L + S++ A IG ++ M Sbjct: 354 WIAGGLLKGASVDALVAEMASRLVGAVLIGRDRAVVAEALSRHAPDVPVVQVVTGEDAGM 413 Query: 385 L----FFHHFGGKINSTLSKTL-DQALKSVVRDVENVQLP-SIVLFSPGCASFDQYNNFR 438 + +TL D + + V + P VL +P ASFDQ+ + Sbjct: 414 PATPEVPVACVTDVADDDGETLGDAVMAAAVAAARRLARPGDTVLLAPAGASFDQFTGYG 473 Query: 439 ERGFSFMSQVSEIPG 453 +RG +F + V Sbjct: 474 DRGDAFAAAVRAAIR 488 >gnl|CDD|179359 PRK02006, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 498 Score = 115 bits (290), Expect = 2e-26 Identities = 65/212 (30%), Positives = 104/212 (49%), Gaps = 14/212 (6%) Query: 13 VFGLGRSGLSAA--CALKDSGVHVIAWDDHP--CAVKQAKDMGIEVI--DFREIPWSIIS 66 V GLG SGL+ A CA + + V + P A +A+ E + F + Sbjct: 12 VLGLGESGLAMARWCARHGARLRVADTREAPPNLAALRAELPDAEFVGGPFDPALLDGVD 71 Query: 67 FLVLSPGIALTGENAHWCVKLANQFNVEIIGDIELFVRERRF--SSLQSP-FIAVTGTNG 123 + LSPG++ V A + + + G+IELF + +S +P +A+TGTNG Sbjct: 72 LVALSPGLSPLEAALAPLVAAARERGIPVWGEIELFAQALAALGASGYAPKVLAITGTNG 131 Query: 124 KSSTVALISHVLRKNGYDVQLGGNIGLPILN-----LEYFSPNRFYVIECSSYQIELTPT 178 K++T AL + + G V + GNI L+ ++ + +V+E SS+Q+E T T Sbjct: 132 KTTTTALTGLLCERAGKKVAVAGNISPAALDKLMEAIDAGALPDVWVLELSSFQLETTHT 191 Query: 179 IDPSIGVLLNISPDHLDRHHTLENYVNIKKKI 210 + P +LNI+ DHLD H ++ Y K +I Sbjct: 192 LAPDAATVLNITQDHLDWHGSMAAYAAAKARI 223 Score = 92.8 bits (231), Expect = 2e-19 Identities = 52/183 (28%), Positives = 80/183 (43%), Gaps = 21/183 (11%) Query: 280 HNIQNLVTSAVVCMQLGLKVEEIKRALLSCGGLTHRLQTIARLGHVIFINDSKATNLHSV 339 HN N + + + +GL + L G HR++ +A + V + +DSK TN+ + Sbjct: 320 HNAANALAALALARAIGLPAAPLLHGLREYRGEPHRVELVATIDGVDYYDDSKGTNVGAT 379 Query: 340 IHAFLNEKRRIYWIAGGLSKSDDFSTLFPFISKIAKA-YFIGNSAMLFFHHFGGKINSTL 398 + A +R+ IAGG K DFS L +++ A+A IG A I + L Sbjct: 380 VAALDGLAQRVVLIAGGDGKGQDFSPLAAPVARHARAVVLIGRDA--------PAIRAAL 431 Query: 399 S---------KTLDQALKSVVRDVENVQLPSIVLFSPGCASFDQYNNFRERGFSFMSQVS 449 + TL++A V Q VL SP CAS D + N+ R F + V Sbjct: 432 AGTGVPLVDAATLEEA---VRAAAALAQPGDAVLLSPACASLDMFRNYAHRAEVFRAAVE 488 Query: 450 EIP 452 E+ Sbjct: 489 ELA 491 >gnl|CDD|149357 pfam08245, Mur_ligase_M, Mur ligase middle domain. Length = 188 Score = 115 bits (289), Expect = 3e-26 Identities = 55/194 (28%), Positives = 88/194 (45%), Gaps = 25/194 (12%) Query: 118 VTGTNGKSSTVALISHVLRKNGYDVQLGGN----IGLPILNLEYFSPN-RFYVIECSSYQ 172 +TGTNGK++T LI+ +L G V GGN IGLP+L + V+E SS+ Sbjct: 1 ITGTNGKTTTTELIAALLSAAGGVVGTGGNTNNAIGLPLLLALMERKGADYAVLELSSFG 60 Query: 173 IE---LTPTIDPSIGVLLNISPDHLDRHHTLENYVNIKKKIVT-MSKHAIICIN--DHQC 226 + L P I V+ NISPDHLD H T+ENY K +I + + I IN D + Sbjct: 61 LGEGRLEGLAKPDIAVITNISPDHLDYHGTMENYAAAKAEIFEGLPEDGIAVINADDPEL 120 Query: 227 EKIAYDMNFIGHSISRISSQSLQSDSDLYIDESFLKCSATSEVIFDFSQETKK------- 279 K + + +++ + L++++D ++ V+F + Sbjct: 121 AKRLKN------AGAKVITFGLENEADDRAANIYVSSEGGKIVLFTVPGGELEISLPLPG 174 Query: 280 -HNIQNLVTSAVVC 292 HN+ N + + Sbjct: 175 RHNVYNALAALAAA 188 >gnl|CDD|178894 PRK00139, murE, UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional. Length = 460 Score = 83.6 bits (208), Expect = 9e-17 Identities = 48/224 (21%), Positives = 88/224 (39%), Gaps = 50/224 (22%) Query: 116 IAVTGTNGKSSTVALISHVLRKNGYDVQLGGNIGLPILNLEYFSPN-------------- 161 I VTGTNGK++T L++ +LR G L G +G I S Sbjct: 98 IGVTGTNGKTTTAYLLAQILRLLGEKTALIGTLGNGIGGELIPSGLTTPDALDLQRLLAE 157 Query: 162 ------RFYVIECSS--------YQIELTPTIDPSIGVLLNISPDHLDRHHTLENYVNIK 207 + +E SS ++ + V N+S DHLD H T+E+Y+ K Sbjct: 158 LVDAGVTYAAMEVSSHALDQGRVDGLKF------DVAVFTNLSRDHLDYHGTMEDYLAAK 211 Query: 208 KKIVTMSK-HAIICINDHQCEKIAYDMNFIGHSISRISSQSLQSDSDLYIDESFLKCSAT 266 ++ + A+I +D ++ + S+ + +DL + ++ + + Sbjct: 212 ARLFSELGLAAVINADDEVGRRLLALPDAYAVSM---------AGADLRATD--VEYTDS 260 Query: 267 -SEVIFDFSQETK---KHNIQNLVTSAVVCMQLGLKVEEIKRAL 306 E+ + N+ NL+ + + LG+ +E+ AL Sbjct: 261 GQTFTLVTEVESPLIGRFNVSNLLAALAALLALGVPLEDALAAL 304 >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 = 82.4 bits (204), Expect = 2e-16 Identities = 61/245 (24%), Positives = 98/245 (40%), Gaps = 47/245 (19%) Query: 116 IAVTGTNGKSSTVALISHVLRKNGYDVQLGGNIGLPIL-NLEYFSPNR------------ 162 I VTGTNGK++T +LI+ +LR G L G IG + N +P Sbjct: 88 IGVTGTNGKTTTTSLIAQLLRLLGKKTGLIGTIGYRLGGNDLIKNPAALTTPEALTLQST 147 Query: 163 ----------FYVIECSSYQIELTPTIDPS--IGVLLNISPDHLDRHHTLENYVNIKKKI 210 + V+E SS+ + V N+S DHLD H T+ENY K + Sbjct: 148 LAEMVEAGAQYAVMEVSSHALAQGRVRGVRFDAAVFTNLSRDHLDFHGTMENYFAAKASL 207 Query: 211 VT---MSKHAIICINDHQCEKIAYDMNFIGHS-----ISRISSQSLQSDSDLYIDESFLK 262 T + + A+I ++D Y F+ +S I+ + D+ I +S Sbjct: 208 FTELGLKRFAVINLDD------EYGAQFVKRLPKDITVSAITQPADGRAQDIKITDSGYS 261 Query: 263 CSATSEVIFDFSQETKKH-------NIQNLVTS-AVVCMQLGLKVEEIKRALLSCGGLTH 314 + E H N+ NL+ + A + G+ +E+I AL G+ Sbjct: 262 FEGQQFTFETPAGEGHLHTPLIGRFNVYNLLAALATLLHLGGIDLEDIVAALEKFRGVPG 321 Query: 315 RLQTI 319 R++ + Sbjct: 322 RMELV 326 >gnl|CDD|179018 PRK00421, murC, UDP-N-acetylmuramate--L-alanine ligase; Provisional. Length = 461 Score = 82.1 bits (204), Expect = 3e-16 Identities = 57/251 (22%), Positives = 99/251 (39%), Gaps = 67/251 (26%) Query: 116 IAVTGTNGKSSTVALISHVLRKNGYDV---------QLGGNIGLPILNLEYFSPNRFYVI 166 IAV GT+GK++T +L++HVL + G D G N L N +YF V Sbjct: 110 IAVAGTHGKTTTTSLLAHVLAEAGLDPTFLIGGILNAAGTNARLG--NSDYF------VA 161 Query: 167 E-CSS------YQIELTPTIDPSIGVLLNISPDHLDRHHTLENYV--------NIKKKIV 211 E S P I ++ NI DHLD + E+ N+ Sbjct: 162 EADESDRSFLKLH--------PDIAIVTNIDADHLDYYGDFEDLKDAFQEFAHNLPFYGA 213 Query: 212 TMSKHAIICINDHQCEKIAYDMNFIGHSISRISSQSLQSDSDLYIDESFLKCSATSEVIF 271 + C +D + ++ ++ + + D+D E+ + + F Sbjct: 214 -----LVACGDDPELRELLPRVSR------PVITYGFSEDADFRA-ENIRQDGGGT--HF 259 Query: 272 DFSQETK-----------KHNIQNLVTSAV-VCMQLGLKVEEIKRALLSCGGLTHRLQTI 319 D + + +HN+ N +A+ V ++LG+ E I+ AL + G+ R + Sbjct: 260 DVLRRGEVLGDFTLPLPGRHNVLN-ALAAIAVALELGIDDEAIREALATFKGVKRRFEEK 318 Query: 320 ARLGHVIFIND 330 +G V+ I+D Sbjct: 319 GEVGGVVLIDD 329 >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 = 75.9 bits (187), Expect = 2e-14 Identities = 47/242 (19%), Positives = 97/242 (40%), Gaps = 40/242 (16%) Query: 116 IAVTGTNGKSSTVALISHVLRKNGYDV----QLGGNIGLPILNLEYFSPN---------- 161 +AVTGTNGK+S L++ +L + G LG + ++ +P+ Sbjct: 115 VAVTGTNGKTSCAQLLAQLLTRLGKPCGSIGTLGARLDGRLIPGSLTTPDAIILHRILAR 174 Query: 162 ------RFYVIECSSYQIELT--PTIDPSIGVLLNISPDHLDRHHTLENYVNIKKKIVTM 213 +E SS+ +E + ++ N++ DHLD H T+++Y K + + Sbjct: 175 MRAAGADAVAMEASSHGLEQGRLDGLRIAVAGFTNLTRDHLDYHGTMQDYEEAKAALFSK 234 Query: 214 SK---HAIICINDHQCEKIAYDMNFIGHSISRISSQSLQSDSDLYIDESFLKCSATSEVI 270 A+I +D ++ + ++ + +D+ + L+ +A +V Sbjct: 235 LPGLGAAVINADDPAAARLLAALP----RGLKVGYSPQNAGADVQARD--LRATAHGQVF 288 Query: 271 -FDFSQET--------KKHNIQNLVTSAVVCMQLGLKVEEIKRALLSCGGLTHRLQTIAR 321 + + N+ NL+ A +LGL + +I RAL + + R++ + Sbjct: 289 TLATPDGSYQLVTRLLGRFNVSNLLLVAAALKKLGLPLAQIARALAAVSPVPGRMERVGP 348 Query: 322 LG 323 Sbjct: 349 TA 350 Score = 56.6 bits (137), Expect = 1e-08 Identities = 53/258 (20%), Positives = 105/258 (40%), Gaps = 26/258 (10%) Query: 104 RERRFSSLQSPFIAVTGTNGKSSTVALISHVLRK-NGYDVQLG--GN----IGLPILNLE 156 RFS P +A+TG+NGK++T +I+ +L G D L GN IG+P+ L Sbjct: 597 WRARFSL---PVVAITGSNGKTTTKEMIAAILAAWQGEDRVLATEGNFNNEIGVPLTLLR 653 Query: 157 YFSPNRFYVIEC---SSYQIE-LTPTIDPSIGVLLNISPDHLDRHHTLENYVNIKKKIVT 212 + +R V E +I L P++ ++ N +H + H++E K +I+ Sbjct: 654 LRAQHRAAVFELGMNHPGEIAYLAAIAAPTVALVTNAQREHQEFMHSVEAVARAKGEIIA 713 Query: 213 MSKH---AIICINDHQC---EKIAYDMN---FIGHSISRISSQSLQSDSDLYIDESFLKC 263 A++ +D K+A F + + ++ + D + + +C Sbjct: 714 ALPEDGVAVVNGDDPYTAIWAKLAGARRVLRFGLQPGADVYAEKIAKDISVG-EAGGTRC 772 Query: 264 --SATSEVIFDFSQETKKHNIQNLVTSAVVCMQLGLKVEEIKRALLSCGGLTHRLQTIAR 321 + + +HN++N + + + G +++I+ L + R+Q Sbjct: 773 QVVTPAGSAEVYLPLIGEHNLRNALAAIACALAAGASLKQIRAGLERFQPVAGRMQRRRL 832 Query: 322 LGHVIFINDSKATNLHSV 339 I+D+ N S+ Sbjct: 833 SCGTRIIDDTYNANPDSM 850 >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 = 75.0 bits (185), Expect = 4e-14 Identities = 60/272 (22%), Positives = 103/272 (37%), Gaps = 34/272 (12%) Query: 92 NVEIIGDIELFVRERRFSSLQSPFIAVTGTNGKSSTVALISHVLRKNGYDVQLGGN---- 147 +E + + R + I +TG++GK++T +++ +L GN Sbjct: 57 TLEALQALASAKRAK----FSGKVIGITGSSGKTTTKEMLAAILSHKYKVFATPGNFNNE 112 Query: 148 IGLPILNLEYFSPNRFYVIECS-SYQIE---LTPTIDPSIGVLLNISPDHLDRHHTLENY 203 IGLP+ L + + V+E S+ E L P I V+ NI P HL+ +LE Sbjct: 113 IGLPLTLLRAPGDHDYAVLEMGASHPGEIAYLAEIAKPDIAVITNIGPAHLEGFGSLEGI 172 Query: 204 VNIKKKIVTMSKH---AIICINDHQCEKIAYDMNFIGHSISRISSQSLQSDSDLYIDESF 260 K +I+ K A+I +D K A + + Y Sbjct: 173 AEAKGEILQGLKENGIAVINADDPAFAKFAKRLPNKAILSFGFEGGDFSAADISY----- 227 Query: 261 LKCSATSEVIFDFSQETKK----------HNIQNLVTSAVVCMQLGLKVEEIKRALLSCG 310 SA F + HN+ N + +A + ++LG+ +EEI L Sbjct: 228 ---SALGSTGFTLVAPGGEFEVSLPLLGRHNVMNALAAAALALELGIPLEEIAEGLAELK 284 Query: 311 GLTHRLQTIARLGHVIFINDSKATNLHSVIHA 342 + R + + G + I+D+ N S+ A Sbjct: 285 LVKGRFEIQTKNG-LTLIDDTYNANPDSMRAA 315 >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 = 74.3 bits (183), Expect = 6e-14 Identities = 57/232 (24%), Positives = 99/232 (42%), Gaps = 27/232 (11%) Query: 116 IAVTGTNGKSSTVALISHVLRKNGYD--VQLGGNIGLPILNLEYFSPNRFYVIECSSYQ- 172 IAV GT+GK++T A+I+ +L++ G D V +GG + N + V E Sbjct: 102 IAVAGTHGKTTTTAMIAVILKEAGLDPTVVVGGLVKEAGTN-ARLGSGEYLVAEADESDA 160 Query: 173 --IELTPTIDPSIGVLLNISPDHLDRH-HTLENYVNIKKKIVTMSK---HAIICINDHQC 226 + L P + ++ NI PDHLD + + E +K + A+IC +D Sbjct: 161 SFLHLQPN----VAIVTNIEPDHLDTYGSSFERLKAAFEKFIHNLPFYGLAVICADDPVL 216 Query: 227 EKIAYDMNFIGHSISRISSQSLQSDSDLY---IDESFLKCSATSEVIFDFSQETK----- 278 ++ + I+ D+D I +S + + E Sbjct: 217 RELVPKA-----TEQVITYGGSGEDADYRAENIQQSGAEGKFSVRGKGKLYLEFTLNLPG 271 Query: 279 KHNIQNLVTSAVVCMQLGLKVEEIKRALLSCGGLTHRLQTIARLGHVIFIND 330 +HN+ N + + V ++LG+ E I RAL + G+ R + + G V+ I+D Sbjct: 272 RHNVLNALAAIAVALELGIDFEAILRALANFQGVKRRFEILGEFGGVLLIDD 323 >gnl|CDD|183386 PRK11930, PRK11930, putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional. Length = 822 Score = 54.2 bits (131), Expect = 7e-08 Identities = 62/268 (23%), Positives = 107/268 (39%), Gaps = 38/268 (14%) Query: 105 ERRFSSLQSPFIAVTGTNGKSSTVALISHVLRKN--------GYDVQLGGNIGLPILNLE 156 S P I +TG+NGK+ + +L + Y+ Q IG+P+ + Sbjct: 99 AYHRSQFDIPVIGITGSNGKTIVKEWLYQLLSPDYNIVRSPRSYNSQ----IGVPLSVWQ 154 Query: 157 YFSPNRFYVIECSSYQIE----LTPTIDPSIGVLLNISPDHLDRHHTLENYVNIKKKI-- 210 + + E Q L I P+IG+L NI H EN+ +IK+KI Sbjct: 155 LNEEHELGIFEAGISQPGEMEALQKIIKPTIGILTNIGGAH------QENFRSIKQKIME 208 Query: 211 -VTMSKHAIICINDHQCEKIAYDMNFIGHSISRISSQSLQSDSDLYIDESFLKCSATSEV 269 + + K + I + E I+ + ++ IS ++ LYI F++ V Sbjct: 209 KLKLFKDCDVIIYNGDNELISSCITKSNLTLKLISWSRKDPEAPLYI--PFVEKKEDHTV 266 Query: 270 I----FDFSQETK-----KHNIQNLVTSAVVCMQLGLKVEEIKRALLSCGGLTHRLQTIA 320 I + +I+NL+ V + LG ++I+ + + RL+ Sbjct: 267 ISYTYKGEDFHFEIPFIDDASIENLIHCIAVLLYLGYSADQIQERMARLEPVAMRLEVKE 326 Query: 321 RLGHVIFINDSKATNLHSVIHA--FLNE 346 + + INDS ++L S+ A FLN Sbjct: 327 GINNCTLINDSYNSDLQSLDIALDFLNR 354 >gnl|CDD|184454 PRK14016, PRK14016, cyanophycin synthetase; Provisional. Length = 727 Score = 53.6 bits (130), Expect = 1e-07 Identities = 33/127 (25%), Positives = 57/127 (44%), Gaps = 38/127 (29%) Query: 114 PFIAVTGTNGKSSTVALISHVLRKNGYDVQLGGNIGLPILNLEYFSPNRFYVIE---CSS 170 P +AVTGTNGK++T LI+H+L+ +G V + G+ I +I+ C+ Sbjct: 481 PIVAVTGTNGKTTTTRLIAHILKLSGKRVGMTTTDGVYIDG---------RLIDKGDCTG 531 Query: 171 YQ----IELTPTIDP--------------------SIGVLLNISPDHLDRH--HTLENYV 204 + + + P ++ +GV+ NI DHL +TLE+ Sbjct: 532 PKSARRVLMNPDVEAAVLETARGGILREGLAYDRCDVGVVTNIGEDHLGLGGINTLEDLA 591 Query: 205 NIKKKIV 211 +K+ +V Sbjct: 592 KVKRVVV 598 >gnl|CDD|184459 PRK14022, PRK14022, UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional. Length = 481 Score = 52.7 bits (127), Expect = 2e-07 Identities = 47/216 (21%), Positives = 87/216 (40%), Gaps = 33/216 (15%) Query: 116 IAVTGTNGKSSTVALISHVLRKNGYDVQLGGNIGLPI--------------LNL-----E 156 +A TGT GK++ H+L++ L L+L E Sbjct: 113 LAFTGTKGKTTAAYFAYHILKQLHKPAMLSTMNTTLDGETFFKSALTTPESLDLFKMMAE 172 Query: 157 YFSPNRFYVI-ECSS--YQIELTPTIDPSIGVLLNISPDHLD--RHHTLENYVNIKKKIV 211 ++I E SS Y + + +GV LNI+PDH+ H T E+Y K+ ++ Sbjct: 173 AVDNGMTHLIMEVSSQAYLVGRVYGLTFDVGVFLNITPDHIGPIEHPTFEDYFYHKRLLM 232 Query: 212 TMSKHAIICINDHQCEKIAYDMNFIGHSISRISSQSLQSDSDLYIDESF-LKCSATSEVI 270 SK ++ + + + + ++ DS+ I S AT ++ Sbjct: 233 ENSKAVVV---NSDMD----HFSELLEQVTPQEHDFYGIDSENQIMASNAFSFEATGKLA 285 Query: 271 FDFS-QETKKHNIQNLVTSAVVCMQLGLKVEEIKRA 305 + Q K N +N + + + C++LG +E+I++ Sbjct: 286 GTYDIQLIGKFNQENAMAAGLACLRLGASLEDIQKG 321 >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 = 52.1 bits (125), Expect = 3e-07 Identities = 31/124 (25%), Positives = 57/124 (45%), Gaps = 32/124 (25%) Query: 114 PFIAVTGTNGKSSTVALISHVLRKNGYDVQLGGNIGLPILNLEYFSPNRFYVIECSSYQ- 172 P ++VTGTNGK++T L++H+L++ G V + G+ Y + + Sbjct: 480 PIVSVTGTNGKTTTTRLVAHILKQTGKVVGMTTTDGV------YIGKYLVEKGDNTGPAS 533 Query: 173 ---IELTPTIDPS--------------------IGVLLNISPDHL--DRHHTLENYVNIK 207 I + PT+D + +GV+ NI+ DHL +T+E+ ++K Sbjct: 534 ARRILMDPTVDAAVLETARGGILREGLAFDRCDVGVVTNIAGDHLGIGDINTIEDLADVK 593 Query: 208 KKIV 211 + +V Sbjct: 594 RVVV 597 >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 = 43.0 bits (102), Expect = 2e-04 Identities = 16/29 (55%), Positives = 18/29 (62%) Query: 114 PFIAVTGTNGKSSTVALISHVLRKNGYDV 142 P I V GTNGK ST A + +LR GY V Sbjct: 19 PVIHVAGTNGKGSTCAFLESILRAAGYKV 47 >gnl|CDD|182718 PRK10773, murF, UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed. Length = 453 Score = 39.6 bits (93), Expect = 0.002 Identities = 55/254 (21%), Positives = 111/254 (43%), Gaps = 29/254 (11%) Query: 112 QSP--FIAVTGTNGKSSTVALISHVLRKNGYDVQLGGN----IGLPILNLEYFSPNRFYV 165 Q P +A+TG++GK+S + + +LR+ G + GN IG+P+ L + + V Sbjct: 97 QVPARVVALTGSSGKTSVKEMTAAILRQCGNTLYTAGNLNNDIGVPLTLLRLTPEHDYAV 156 Query: 166 IEC-SSYQIELTPTID---PSIGVLLNISPDHLDRHHTLENYVNIKKKIVT-MSKHAIIC 220 IE +++Q E+ T+ P ++ N++ HL+ +L K +I + + ++ I Sbjct: 157 IELGANHQGEIAYTVSLTRPEAALVNNLAAAHLEGFGSLAGVAKAKGEIFSGLPENGIAI 216 Query: 221 INDHQCEKIAYDMNFIGHSISRISSQSLQSDSDLYIDESFLKCSATSEVIFDFSQETK-- 278 +N + + + ++ R S + + D + T +F+ T Sbjct: 217 MNADSNDWLNWQSVIGSKTVWRFSPNA-ANSVDFTATNIHVTSHGT-----EFTLHTPTG 270 Query: 279 ----------KHNIQNLVTSAVVCMQLGLKVEEIKRALLSCGGLTHRLQTIARLGHVIFI 328 +HNI N + +A + M +G ++ +K L + + RL I + + Sbjct: 271 SVDVLLPLPGRHNIANALAAAALAMSVGATLDAVKAGLANLKAVPGRLFPIQLAEGQLLL 330 Query: 329 NDSKATNLHSVIHA 342 +DS N+ S+ A Sbjct: 331 DDSYNANVGSMTAA 344 >gnl|CDD|181980 PRK09599, PRK09599, 6-phosphogluconate dehydrogenase-like protein; Reviewed. Length = 301 Score = 37.8 bits (89), Expect = 0.005 Identities = 15/46 (32%), Positives = 23/46 (50%) Query: 11 IAVFGLGRSGLSAACALKDSGVHVIAWDDHPCAVKQAKDMGIEVID 56 + + GLGR G + A L G V+ +D +P AV+ + G D Sbjct: 3 LGMIGLGRMGGNMARRLLRGGHEVVGYDRNPEAVEALAEEGATGAD 48 >gnl|CDD|184752 PRK14573, PRK14573, bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional. Length = 809 Score = 37.1 bits (86), Expect = 0.011 Identities = 45/219 (20%), Positives = 78/219 (35%), Gaps = 34/219 (15%) Query: 116 IAVTGTNGKSSTVALISHVLRKNGYD--VQLGGNIGLPILNLE----YFSPNRFYVIECS 169 I V+G++GK++ +LI+ + ++ D +GG LN E Y + ++V E Sbjct: 107 ILVSGSHGKTTVSSLITAIFQEAKKDPSYAIGG------LNQEGLNGYSGSSEYFVAEAD 160 Query: 170 SYQIELTPTIDPSIGVLLNISPDHLDRHH-TLENYVNIKKKIVTMSKHAIICINDHQCEK 228 L P V+ NI +HL E + + + C + C + Sbjct: 161 ESDGSLK-HYTPEFSVITNIDNEHLSNFEGDRELLLASIQDFARKVQQINKCFYNGDCPR 219 Query: 229 IAYDMNFIGHSISRISSQS--LQSDSDLYID-------ESFLKCSATSEVIFDFS-QETK 278 + + S S DL+I S+ V D Sbjct: 220 LK----------GCLQGHSYGFSSSCDLHILSYYQEGWRSYFSAKFLGVVYQDIELNLVG 269 Query: 279 KHNIQNLVTSAVVCMQLGLKVEEIKRALLSCGGLTHRLQ 317 HN+ N + + + LG+ I+ AL G+ RL+ Sbjct: 270 MHNVANAAAAMGIALTLGIDEGAIRNALKGFSGVQRRLE 308 >gnl|CDD|178501 PLN02913, PLN02913, dihydrofolate synthetase. Length = 510 Score = 36.3 bits (84), Expect = 0.015 Identities = 18/39 (46%), Positives = 22/39 (56%), Gaps = 2/39 (5%) Query: 106 RRFSSLQSPFIAV--TGTNGKSSTVALISHVLRKNGYDV 142 R + S F AV GT GK ST A +S++LR GY V Sbjct: 66 DRLGNPHSKFKAVHVAGTKGKGSTAAFLSNILRAQGYSV 104 >gnl|CDD|130153 TIGR01081, mpl, UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso- diaminopimelate ligase. Alternate name: murein tripeptide ligase. Length = 448 Score = 36.0 bits (83), Expect = 0.023 Identities = 28/92 (30%), Positives = 41/92 (44%), Gaps = 17/92 (18%) Query: 116 IAVTGTNGKSSTVALISHVLRKNGYDVQLGGNIGLPILNLE---YFSPNRFYVIECSSYQ 172 +AV GT+GK++T ++++ VL + G + G IG N + F+VIE Y Sbjct: 105 LAVAGTHGKTTTASMLAWVLEQCGL--KPGFLIGGVPGNFGVSARLGESPFFVIEADEYD 162 Query: 173 IELTPTID---------PSIGVLLNISPDHLD 195 T D P VL N+ DH D Sbjct: 163 ---TAFFDKRSKFVHYRPRTLVLNNLEFDHAD 191 >gnl|CDD|184828 PRK14806, PRK14806, bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional. Length = 735 Score = 35.7 bits (83), Expect = 0.024 Identities = 18/48 (37%), Positives = 27/48 (56%), Gaps = 4/48 (8%) Query: 11 IAVFGLGRSGLSAACALKDSGV--HVIAWDDHPCAVKQAKDMGIEVID 56 + V GLG G S A AL++ G+ V+A D +++ A +G VID Sbjct: 6 VVVIGLGLIGGSFAKALRERGLAREVVAVDRRAKSLELAVSLG--VID 51 >gnl|CDD|116601 pfam07991, IlvN, Acetohydroxy acid isomeroreductase, catalytic domain. Acetohydroxy acid isomeroreductase catalyses the conversion of acetohydroxy acids into dihydroxy valerates. This reaction is the second in the synthetic pathway of the essential branched side chain amino acids valine and isoleucine. Length = 165 Score = 35.2 bits (82), Expect = 0.039 Identities = 20/62 (32%), Positives = 32/62 (51%), Gaps = 3/62 (4%) Query: 11 IAVFGLGRSGLSAACALKDSGVHV-IAWDDHPCAVKQAKDMGIEVIDFRE-IPWS-IISF 67 IAV G G G + A L+DSGV+V + + ++AK G EV E + + ++ Sbjct: 7 IAVIGYGSQGHAHALNLRDSGVNVIVGLRPGSKSWEKAKKDGFEVYTVAEAVKKADVVMI 66 Query: 68 LV 69 L+ Sbjct: 67 LL 68 >gnl|CDD|162080 TIGR00872, gnd_rel, 6-phosphogluconate dehydrogenase (decarboxylating). This family resembles a larger family (gnd) of bacterial and eukaryotic 6-phosphogluconate dehydrogenases but differs from it by a deep split in a UPGMA similarity clustering tree and the lack of a central region of about 140 residues. Among complete genomes, it is found is found in Bacillus subtilis and Mycobacterium tuberculosis, both of which also contain gnd, and in Aquifex aeolicus. The protein from Methylobacillus flagellatus KT has been characterized as a decarboxylating 6-phosphogluconate dehydrogenase as part of an unusual formaldehyde oxidation cycle. In some sequenced organisms members of this family are the sole 6-phosphogluconate dehydrogenase present and are probably active in the pentose phosphate cycle. Length = 298 Score = 34.4 bits (79), Expect = 0.069 Identities = 16/50 (32%), Positives = 22/50 (44%), Gaps = 1/50 (2%) Query: 11 IAVFGLGRSGLSAACALKDSGVHVIAWDDHPCAVKQAK-DMGIEVIDFRE 59 + + GLGR G + L G + +D AVK K D V + RE Sbjct: 3 LGLIGLGRMGANIVRRLAKRGHDCVGYDHDQDAVKAMKEDRTTGVANLRE 52 >gnl|CDD|129652 TIGR00561, pntA, NAD(P) transhydrogenase, alpha subunit. In some species, such as Rhodospirillum rubrum, the alpha chain is replaced by two shorter chains, both with some homology to the full-length alpha chain modeled here. These score below the trusted cutoff. Length = 511 Score = 34.1 bits (78), Expect = 0.081 Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 2/51 (3%) Query: 11 IAVFGLGRSGLSAACALKDSGVHVIAWDDHPCAVKQAKDMGIEV--IDFRE 59 + V G G +GL+A A G V A+D P +Q + MG E +DF+E Sbjct: 167 VLVIGAGVAGLAAIGAANSLGAIVRAFDTRPEVKEQVQSMGAEFLELDFKE 217 >gnl|CDD|184937 PRK14974, PRK14974, cell division protein FtsY; Provisional. Length = 336 Score = 33.4 bits (77), Expect = 0.13 Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 3/55 (5%) Query: 94 EIIGDIELFVRERRFSSLQSPF-IAVTGTNG--KSSTVALISHVLRKNGYDVQLG 145 E++ +LF S P I G NG K++T+A +++ L+KNG+ V + Sbjct: 120 EVLSVGDLFDLIEEIKSKGKPVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIA 174 >gnl|CDD|180519 PRK06298, PRK06298, type III secretion system protein; Validated. Length = 356 Score = 33.3 bits (76), Expect = 0.14 Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 3/45 (6%) Query: 355 GGLSKSDDFSTLFPFISKIAKAYFIGNSAMLFFHHFGGKINSTLS 399 G ++KS DF + FI + + + + F H G + S Sbjct: 20 GQVAKSQDFPSAITFIVSMFLTFSLSSF---FAKHLGSFLVSIFK 61 >gnl|CDD|166468 PLN02827, PLN02827, Alcohol dehydrogenase-like. Length = 378 Score = 33.0 bits (75), Expect = 0.16 Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 1/44 (2%) Query: 10 SIAVFGLGRSGLSAACALKDSGV-HVIAWDDHPCAVKQAKDMGI 52 S+ +FGLG GLS A K G +I D +P ++AK G+ Sbjct: 196 SVVIFGLGTVGLSVAQGAKLRGASQIIGVDINPEKAEKAKTFGV 239 >gnl|CDD|132626 TIGR03587, Pse_Me-ase, pseudaminic acid biosynthesis-associated methylase. Members of this small clade are methyltransferases of the pfam08241 family and are observed within operons for the biosynthesis of pseudaminic acid, a component of exopolysaccharide and flagellin glycosyl modifications. Notable among these genomes is Pseudomonas fluorescens PfO-1. Possibly one of the two hydroxyl groups of pseudaminic acid, at positions 4 and 8 is converted to a methoxy group by this enzyme. Length = 204 Score = 32.9 bits (75), Expect = 0.18 Identities = 24/96 (25%), Positives = 44/96 (45%), Gaps = 26/96 (27%) Query: 125 SSTVALISHVLRKNGYD---VQLGGNIGLPILNLEYFSPNR-FYVIECSSYQIE----LT 176 ++ +A+ + L + ++LG NIG+ + L+ P + Y +E + Y +E Sbjct: 28 AAKLAMFARALNRLPKIASILELGANIGMNLAALKRLLPFKHIYGVEINEYAVEKAKAYL 87 Query: 177 PTI--------DP----------SIGVLLNISPDHL 194 P I DP + GVL++I+PD+L Sbjct: 88 PNINIIQGSLFDPFKDNFFDLVLTKGVLIHINPDNL 123 >gnl|CDD|180113 PRK05479, PRK05479, ketol-acid reductoisomerase; Provisional. Length = 330 Score = 32.4 bits (75), Expect = 0.25 Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 15/60 (25%) Query: 3 LSSFRNHSIAVFGLGRSGLSAACALKDSGVHVI--------AWDDHPCAVKQAKDMGIEV 54 LS + +A+ G G G + A L+DSGV V+ +W K+A+ G EV Sbjct: 12 LSLIKGKKVAIIGYGSQGHAHALNLRDSGVDVVVGLREGSKSW-------KKAEADGFEV 64 >gnl|CDD|129557 TIGR00465, ilvC, ketol-acid reductoisomerase. This is the second enzyme in the parallel isoleucine-valine biosynthetic pathway. Length = 314 Score = 32.0 bits (73), Expect = 0.34 Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 1/55 (1%) Query: 6 FRNHSIAVFGLGRSGLSAACALKDSGVHVI-AWDDHPCAVKQAKDMGIEVIDFRE 59 + ++A+ G G G + A L+DSG++VI + K+A + G +V E Sbjct: 1 LKGKTVAIIGYGSQGHAQALNLRDSGLNVIVGLRKGGASWKKATEDGFKVGTVEE 55 >gnl|CDD|106361 PRK13403, PRK13403, ketol-acid reductoisomerase; Provisional. Length = 335 Score = 32.0 bits (72), Expect = 0.35 Identities = 18/57 (31%), Positives = 28/57 (49%) Query: 3 LSSFRNHSIAVFGLGRSGLSAACALKDSGVHVIAWDDHPCAVKQAKDMGIEVIDFRE 59 + + ++AV G G G + A L+DSGV V+ + + AK G EV+ E Sbjct: 11 VELLQGKTVAVIGYGSQGHAQAQNLRDSGVEVVVGVRPGKSFEVAKADGFEVMSVSE 67 >gnl|CDD|181452 PRK08507, PRK08507, prephenate dehydrogenase; Validated. Length = 275 Score = 31.8 bits (73), Expect = 0.38 Identities = 18/54 (33%), Positives = 30/54 (55%), Gaps = 4/54 (7%) Query: 11 IAVFGLGRSGLSAACALKDSG--VHVIAWDDHPCAVKQAKDMGI--EVIDFREI 60 I + GLG G S ALK+ G V +D + +K+A ++G+ E++ F E+ Sbjct: 3 IGIIGLGLMGGSLGLALKEKGLISKVYGYDHNELHLKKALELGLVDEIVSFEEL 56 >gnl|CDD|178341 PLN02740, PLN02740, Alcohol dehydrogenase-like. Length = 381 Score = 31.7 bits (72), Expect = 0.44 Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 1/44 (2%) Query: 10 SIAVFGLGRSGLSAACALKDSGV-HVIAWDDHPCAVKQAKDMGI 52 S+A+FGLG GL+ A + G +I D +P ++ K+MGI Sbjct: 201 SVAIFGLGAVGLAVAEGARARGASKIIGVDINPEKFEKGKEMGI 244 >gnl|CDD|183762 PRK12809, PRK12809, putative oxidoreductase Fe-S binding subunit; Reviewed. Length = 639 Score = 31.5 bits (71), Expect = 0.46 Identities = 15/35 (42%), Positives = 20/35 (57%) Query: 7 RNHSIAVFGLGRSGLSAACALKDSGVHVIAWDDHP 41 R+ +AV G G +GL A L +GV V +D HP Sbjct: 309 RSEKVAVIGAGPAGLGCADILARAGVQVDVFDRHP 343 >gnl|CDD|180613 PRK06545, PRK06545, prephenate dehydrogenase; Validated. Length = 359 Score = 31.0 bits (71), Expect = 0.60 Identities = 17/47 (36%), Positives = 25/47 (53%) Query: 10 SIAVFGLGRSGLSAACALKDSGVHVIAWDDHPCAVKQAKDMGIEVID 56 ++ + GLG G S A A+K +G V P A + A+ +G VID Sbjct: 2 TVLIVGLGLIGGSLALAIKAAGPDVFIIGYDPSAAQLARALGFGVID 48 >gnl|CDD|163112 TIGR03026, NDP-sugDHase, nucleotide sugar dehydrogenase. All of these enzymes contain three Pfam domains, pfam03721, pfam00984, and pfam03720 for the N-terminal, central, and C-terminal regions respectively. Length = 411 Score = 30.7 bits (70), Expect = 0.77 Identities = 14/28 (50%), Positives = 14/28 (50%) Query: 11 IAVFGLGRSGLSAACALKDSGVHVIAWD 38 IAV GLG GL A L D G V D Sbjct: 3 IAVIGLGYVGLPLAALLADLGHEVTGVD 30 >gnl|CDD|181663 PRK09126, PRK09126, hypothetical protein; Provisional. Length = 392 Score = 30.7 bits (70), Expect = 0.85 Identities = 18/50 (36%), Positives = 22/50 (44%), Gaps = 5/50 (10%) Query: 11 IAVFGLGRSGLSAACALKDSGVHVIAWDDHPCAVKQAKDMGIEVIDFREI 60 I V G G +GLS A +L SG+ V + P A D REI Sbjct: 6 IVVVGAGPAGLSFARSLAGSGLKVTLIERQPLAALADPA-----FDGREI 50 >gnl|CDD|132409 TIGR03366, HpnZ_proposed, putative phosphonate catabolism associated alcohol dehydrogenase. This clade of zinc-binding alcohol dehydrogenases (members of pfam00107) are repeatedly associated with genes proposed to be involved with the catabolism of phosphonate compounds. Length = 280 Score = 30.6 bits (69), Expect = 0.90 Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 1/50 (2%) Query: 7 RNHSIAVFGLGRSGLSAACALKDSGVH-VIAWDDHPCAVKQAKDMGIEVI 55 + + V G G GL+AA A +G V+A D P + A G + Sbjct: 120 KGRRVLVVGAGMLGLTAAAAAAAAGAARVVAADPSPDRRELALSFGATAL 169 >gnl|CDD|161686 TIGR00064, ftsY, signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein. Length = 272 Score = 30.3 bits (69), Expect = 0.99 Identities = 15/68 (22%), Positives = 28/68 (41%), Gaps = 14/68 (20%) Query: 92 NVEIIGDIELFVRERRFSSLQSPF------------IAVTGTNG--KSSTVALISHVLRK 137 V+ ++ ++E L+ I G NG K++T+A +++ L+K Sbjct: 39 KVKDAELLKEILKEYLKEILKETDLELIVEENKPNVILFVGVNGVGKTTTIAKLANKLKK 98 Query: 138 NGYDVQLG 145 G V L Sbjct: 99 QGKSVLLA 106 >gnl|CDD|130385 TIGR01318, gltD_gamma_fam, glutamate synthase small subunit family protein, proteobacterial. This model represents one of three built for the NADPH-dependent or NADH-dependent glutamate synthase (EC 1.4.1.13 and 1.4.1.14, respectively) small subunit and homologs. TIGR01317 describes the small subunit (or equivalent region from longer forms) in eukaryotes, Gram-positive bacteria, and some other lineages, both NADH and NADPH-dependent. TIGR01316 describes a protein of similar length, from Archaea and a number of bacterial lineages, that forms glutamate synthase homotetramers without a large subunit. This model describes both glutatate synthase small subunit and closely related paralogs of unknown function from a number of gamma and alpha subdivision Proteobacteria, including E. coli. Length = 467 Score = 30.5 bits (69), Expect = 1.0 Identities = 14/31 (45%), Positives = 20/31 (64%) Query: 11 IAVFGLGRSGLSAACALKDSGVHVIAWDDHP 41 +AV G G +GL+ A L +GV V+ +D HP Sbjct: 144 VAVIGAGPAGLACADILARAGVQVVVFDRHP 174 >gnl|CDD|131865 TIGR02818, adh_III_F_hyde, S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase. The members of this protein family show dual function. First, they remove formaldehyde, a toxic metabolite, by acting as S-(hydroxymethyl)glutathione dehydrogenase (1.1.1.284). S-(hydroxymethyl)glutathione can form spontaneously from formaldehyde and glutathione, and so this enzyme previously was designated glutathione-dependent formaldehyde dehydrogenase. These same proteins are also designated alcohol dehydrogenase (EC 1.1.1.1) of class III, for activities that do not require glutathione; they tend to show poor activity for ethanol among their various substrate alcohols. Length = 368 Score = 30.2 bits (68), Expect = 1.1 Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 1/43 (2%) Query: 10 SIAVFGLGRSGLSAACALKDSGV-HVIAWDDHPCAVKQAKDMG 51 ++AVFGLG GLS + + +IA D +P + AK +G Sbjct: 188 TVAVFGLGGIGLSVIQGARMAKASRIIAIDINPAKFELAKKLG 230 >gnl|CDD|181057 PRK07608, PRK07608, ubiquinone biosynthesis hydroxylase family protein; Provisional. Length = 388 Score = 30.3 bits (69), Expect = 1.2 Identities = 11/27 (40%), Positives = 13/27 (48%) Query: 8 NHSIAVFGLGRSGLSAACALKDSGVHV 34 + V G G G S A AL SG+ V Sbjct: 5 KFDVVVVGGGLVGASLALALAQSGLRV 31 >gnl|CDD|178469 PLN02881, PLN02881, tetrahydrofolylpolyglutamate synthase. Length = 530 Score = 30.0 bits (68), Expect = 1.4 Identities = 11/25 (44%), Positives = 13/25 (52%) Query: 116 IAVTGTNGKSSTVALISHVLRKNGY 140 I V GT GK ST +LR G+ Sbjct: 64 IHVAGTKGKGSTCTFTESILRNCGF 88 >gnl|CDD|162324 TIGR01372, soxA, sarcosine oxidase, alpha subunit family, heterotetrameric form. This model describes the alpha subunit of a family of known and putative heterotetrameric sarcosine oxidases. Five operons of such oxidases are found in Mesorhizobium loti and three in Agrobacterium tumefaciens, a high enough copy number to suggest that not all members are share the same function. The model is designated as subfamily rather than equivalog for this reason.Sarcosine oxidase catalyzes the oxidative demethylation of sarcosine to glycine. The reaction converts tetrahydrofolate to 5,10-methylene-tetrahydrofolate. The enzyme is known in monomeric and heterotetrameric (alpha,beta,gamma,delta) forms. Length = 985 Score = 29.7 bits (67), Expect = 1.5 Identities = 13/29 (44%), Positives = 17/29 (58%) Query: 13 VFGLGRSGLSAACALKDSGVHVIAWDDHP 41 V G G +GL+AA A +G VI D+ P Sbjct: 168 VVGAGPAGLAAALAAARAGARVILVDEQP 196 >gnl|CDD|184384 PRK13904, murB, UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional. Length = 257 Score = 29.5 bits (67), Expect = 1.9 Identities = 18/63 (28%), Positives = 25/63 (39%), Gaps = 13/63 (20%) Query: 256 IDESFLK--CSATSEVIFDFSQETKKHNIQNL--------VTSAVVCMQLGLKVEEIKRA 305 ID L+ + S IF++ KK+N+ +V M GLK EI Sbjct: 64 IDGECLEIGGATKSGKIFNY---AKKNNLGGFEFLGKLPGTLGGLVKMNAGLKEYEISNN 120 Query: 306 LLS 308 L S Sbjct: 121 LES 123 >gnl|CDD|130870 TIGR01811, sdhA_Bsu, succinate dehydrogenase or fumarate reductase, flavoprotein subunit, Bacillus subtilis subgroup. This model represents the succinate dehydrogenase flavoprotein subunit as found in the low-GC Gram-positive bacteria and a few other lineages. This enzyme may act in a complete or partial TCA cycle, or act in the opposite direction as fumarate reductase. In some but not all species, succinate dehydrogenase and fumarate reductase may be encoded as separate isozymes. Length = 603 Score = 29.4 bits (66), Expect = 2.0 Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 1/37 (2%) Query: 11 IAVFGLGRSGLSAACALKDSGVHVIAWDDHPCAVKQA 47 + V G G +G AA L + G HV + A ++A Sbjct: 1 VIVVGTGLAGGMAAAKLAELGYHVKLFSYVD-APRRA 36 >gnl|CDD|179750 PRK04148, PRK04148, hypothetical protein; Provisional. Length = 134 Score = 29.2 bits (66), Expect = 2.2 Identities = 17/46 (36%), Positives = 25/46 (54%), Gaps = 1/46 (2%) Query: 7 RNHSIAVFGLGRSGLSAACALKDSGVHVIAWDDHPCAVKQAKDMGI 52 +N I G+G A LK+SG VI D + AV++AK +G+ Sbjct: 16 KNKKIVELGIGFY-FKVAKKLKESGFDVIVIDINEKAVEKAKKLGL 60 >gnl|CDD|181842 PRK09422, PRK09422, ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional. Length = 338 Score = 28.8 bits (65), Expect = 3.0 Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 1/46 (2%) Query: 11 IAVFGLGRSG-LSAACALKDSGVHVIAWDDHPCAVKQAKDMGIEVI 55 IA++G G G L+ A VIA D + + AK++G ++ Sbjct: 166 IAIYGAGGLGNLALQYAKNVFNAKVIAVDINDDKLALAKEVGADLT 211 >gnl|CDD|183733 PRK12769, PRK12769, putative oxidoreductase Fe-S binding subunit; Reviewed. Length = 654 Score = 28.6 bits (64), Expect = 3.2 Identities = 13/31 (41%), Positives = 19/31 (61%) Query: 11 IAVFGLGRSGLSAACALKDSGVHVIAWDDHP 41 +A+ G G +GL+ A L +GV V +D HP Sbjct: 330 VAIIGAGPAGLACADVLARNGVAVTVYDRHP 360 >gnl|CDD|184473 PRK14041, PRK14041, oxaloacetate decarboxylase; Provisional. Length = 467 Score = 28.6 bits (64), Expect = 3.5 Identities = 14/39 (35%), Positives = 21/39 (53%), Gaps = 4/39 (10%) Query: 198 HTLENYVNIKKKIVTMSKHAIICINDHQ---CEKIAYDM 233 HTLE Y+ +++V M + ICI D K AY++ Sbjct: 150 HTLEYYLEFARELVDMGVDS-ICIKDMAGLLTPKRAYEL 187 >gnl|CDD|163032 TIGR02819, fdhA_non_GSH, formaldehyde dehydrogenase, glutathione-independent. Members of this family represent a distinct clade within the larger family of zinc-dependent dehydrogenases of medium chain alcohols, a family that also includes the so-called glutathione-dependent formaldehyde dehydrogenase. Members of this protein family have a tightly bound NAD that can act as a true cofactor, rather than a cosubstrate in dehydrogenase reactions, in dismutase reactions for some aldehydes. The name given to this family, however, is formaldehyde dehydrogenase, glutathione-independent. Length = 393 Score = 28.7 bits (64), Expect = 3.7 Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 1/50 (2%) Query: 10 SIAVFGLGRSGLSAACALKDSGVH-VIAWDDHPCAVKQAKDMGIEVIDFR 58 ++ + G G GL+AA + + G VI D +P + QA+ G E +D Sbjct: 188 TVYIAGAGPVGLAAAASAQLLGAAVVIVGDLNPARLAQARSFGCETVDLS 237 >gnl|CDD|184162 PRK13581, PRK13581, D-3-phosphoglycerate dehydrogenase; Provisional. Length = 526 Score = 28.5 bits (65), Expect = 4.0 Identities = 17/49 (34%), Positives = 28/49 (57%), Gaps = 3/49 (6%) Query: 13 VFGLGRSGLSAACALKDSGVHVIAWDDHP-CAVKQAKDMGIEVIDFREI 60 + GLGR G A K G+ VIA+D P + ++A +G+E++ E+ Sbjct: 145 IIGLGRIGSEVAKRAKAFGMKVIAYD--PYISPERAAQLGVELVSLDEL 191 >gnl|CDD|184951 PRK14989, PRK14989, nitrite reductase subunit NirD; Provisional. Length = 847 Score = 28.5 bits (64), Expect = 4.0 Identities = 17/31 (54%), Positives = 19/31 (61%), Gaps = 2/31 (6%) Query: 7 RNHSIAVFGLGRSGLSAACALKDSGV--HVI 35 R+ AV G G GL AA ALK+ GV HVI Sbjct: 144 RSKRGAVVGGGLLGLEAAGALKNLGVETHVI 174 >gnl|CDD|180946 PRK07364, PRK07364, 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated. Length = 415 Score = 28.4 bits (64), Expect = 4.0 Identities = 15/39 (38%), Positives = 21/39 (53%) Query: 11 IAVFGLGRSGLSAACALKDSGVHVIAWDDHPCAVKQAKD 49 +A+ G G GL+ A ALKDSG+ + + P AK Sbjct: 21 VAIVGGGIVGLTLAAALKDSGLRIALIEAQPAEAAAAKG 59 >gnl|CDD|183782 PRK12834, PRK12834, putative FAD-binding dehydrogenase; Reviewed. Length = 549 Score = 28.3 bits (64), Expect = 4.5 Identities = 12/31 (38%), Positives = 16/31 (51%) Query: 11 IAVFGLGRSGLSAACALKDSGVHVIAWDDHP 41 + V G G +GL AA L D+G V+ D Sbjct: 7 VIVVGAGLAGLVAAAELADAGKRVLLLDQEN 37 >gnl|CDD|180415 PRK06130, PRK06130, 3-hydroxybutyryl-CoA dehydrogenase; Validated. Length = 311 Score = 28.2 bits (63), Expect = 4.6 Identities = 10/41 (24%), Positives = 20/41 (48%) Query: 10 SIAVFGLGRSGLSAACALKDSGVHVIAWDDHPCAVKQAKDM 50 ++A+ G G G A G+ V+ D A+++A+ + Sbjct: 6 NLAIIGAGTMGSGIAALFARKGLQVVLIDVMEGALERARGV 46 >gnl|CDD|184717 PRK14508, PRK14508, 4-alpha-glucanotransferase; Provisional. Length = 497 Score = 28.2 bits (64), Expect = 4.7 Identities = 8/18 (44%), Positives = 12/18 (66%) Query: 86 KLANQFNVEIIGDIELFV 103 AN +EIIGD+ ++V Sbjct: 205 AYANDKGIEIIGDLPIYV 222 >gnl|CDD|179106 PRK00742, PRK00742, chemotaxis-specific methylesterase; Provisional. Length = 354 Score = 28.2 bits (64), Expect = 5.0 Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 6/60 (10%) Query: 15 GLGRSGLSAACALKDSGVHVIAWDDHPCAV----KQAKDMGI--EVIDFREIPWSIISFL 68 G+GR G + +K +G IA D+ C V K A + G EV+ +I I+ + Sbjct: 291 GMGRDGAAGLLEMKQAGATTIAQDEASCVVYGMPKAAIEAGAVDEVLPLDQIAERILKEV 350 >gnl|CDD|130753 TIGR01692, HIBADH, 3-hydroxyisobutyrate dehydrogenase. This enzyme belongs to the 3-hydroxyacid dehydrogenase family, sharing a common evolutionary origin and enzymatic mechanism with 6-phosphogluconate. HIBADH exhibits sequence similarity to the NAD binding domain of 6-phosphogluconate dehydrogenase above trusted (pfam03446). Length = 288 Score = 28.2 bits (63), Expect = 5.2 Identities = 14/42 (33%), Positives = 19/42 (45%) Query: 15 GLGRSGLSAACALKDSGVHVIAWDDHPCAVKQAKDMGIEVID 56 GLG G A L +G V +D P AV++A G + Sbjct: 3 GLGNMGGPMAANLLKAGHPVRVFDLFPDAVEEAVAAGAQAAA 44 >gnl|CDD|162205 TIGR01108, oadA, oxaloacetate decarboxylase alpha subunit. This model describes the bacterial oxaloacetate decarboxylase alpha subunit and its equivalents in archaea. The oxaloacetate decarboxylase Na+ pump is the paradigm of the family of Na+ transport decarboxylases that present in bacteria and archaea. It a multi subunit enzyme consisting of a peripheral alpha-subunit and integral membrane subunits beta and gamma. The energy released by the decarboxylation reaction of oxaloacetate is coupled to Na+ ion pumping across the membrane. Length = 582 Score = 27.8 bits (62), Expect = 5.4 Identities = 10/26 (38%), Positives = 17/26 (65%), Gaps = 1/26 (3%) Query: 198 HTLENYVNIKKKIVTMSKHAIICIND 223 HTLE Y+++ ++++ M ICI D Sbjct: 146 HTLETYLDLAEELLEMGVD-SICIKD 170 >gnl|CDD|180343 PRK05993, PRK05993, short chain dehydrogenase; Provisional. Length = 277 Score = 28.1 bits (63), Expect = 5.5 Identities = 20/62 (32%), Positives = 26/62 (41%), Gaps = 6/62 (9%) Query: 7 RNHSIAVFGLGRSGLSAACA--LKDSGVHVIAWDDHPCAVKQAKDMGIEVI--DFREIPW 62 SI + G SG+ A CA L+ G V A V + G+E D+ E P Sbjct: 3 MKRSILITGCS-SGIGAYCARALQSDGWRVFATCRKEEDVAALEAEGLEAFQLDYAE-PE 60 Query: 63 SI 64 SI Sbjct: 61 SI 62 >gnl|CDD|182774 PRK10846, PRK10846, bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional. Length = 416 Score = 27.7 bits (62), Expect = 5.7 Identities = 13/31 (41%), Positives = 17/31 (54%), Gaps = 1/31 (3%) Query: 113 SPF-IAVTGTNGKSSTVALISHVLRKNGYDV 142 +PF V GTNGK +T + +L GY V Sbjct: 48 APFVFTVAGTNGKGTTCRTLESILMAAGYRV 78 >gnl|CDD|130583 TIGR01520, FruBisAldo_II_A, fructose-bisphosphate aldolase, class II, yeast/E. coli subtype. This model represents one of two deeply split, architecturally distinct clades of the family that includes class II fructose-bisphosphate aldolases, tagatose-bisphosphate aldolases, and related uncharacterized proteins. This family is well-conserved and includes characterized FBA from Saccharomyces cerevisiae, Escherichia coli, and Corynebacterium glutamicum. Proteins outside the scope of this model may also be designated as class II fructose-bisphosphate aldolases, but are well separated in an alignment-based phylogenetic tree. Length = 357 Score = 27.9 bits (62), Expect = 5.8 Identities = 16/38 (42%), Positives = 24/38 (63%), Gaps = 4/38 (10%) Query: 394 INSTLSKTLDQALKSVVRDVENVQLPSIVLFSPGCASF 431 IN T S T++ AL++ DV++ P I+ FS G A+F Sbjct: 32 INCTSSSTINAALEAA-ADVKS---PIIIQFSNGGAAF 65 >gnl|CDD|180983 PRK07453, PRK07453, protochlorophyllide oxidoreductase; Validated. Length = 322 Score = 27.6 bits (62), Expect = 6.1 Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 1/34 (2%) Query: 20 GLSAACALKDSGVHVI-AWDDHPCAVKQAKDMGI 52 GL AA AL G HVI A + A A+++GI Sbjct: 19 GLYAAKALAKRGWHVIMACRNLKKAEAAAQELGI 52 >gnl|CDD|130731 TIGR01670, YrbI-phosphatas, 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase, YrbI family. The Methanosarcina sequence is distinctive in that it is linked to an N-terminal cytidylyltransferase domain (pfam02348) and is annotated as acylneuraminate cytidylyltransferase. This may give some clue as the function of these phosphatases. Several eukaryotic sequences scoring between trusted and noise are also closely related to this function such as the CMP-N-acetylneuraminic acid synthetase from mouse, but in these cases the phosphatase domain is clearly inactive as many of the active site residues are not conserved. Length = 154 Score = 27.9 bits (62), Expect = 6.4 Identities = 13/46 (28%), Positives = 18/46 (39%), Gaps = 2/46 (4%) Query: 11 IAVFGLGRSGLSAACALK-DSGVHVIAWDDHPCAVKQAKDMGIEVI 55 I F + R G CALK V +I + K +GI + Sbjct: 26 IKAFNV-RDGYGIRCALKSGIEVAIITGRKAKLVEDRCKTLGITHL 70 >gnl|CDD|184315 PRK13768, PRK13768, GTPase; Provisional. Length = 253 Score = 27.5 bits (62), Expect = 6.6 Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 2/30 (6%) Query: 115 FIAVTGT--NGKSSTVALISHVLRKNGYDV 142 + GT +GK++ +S L + GYDV Sbjct: 4 IVFFLGTAGSGKTTLTKALSDWLEEQGYDV 33 >gnl|CDD|177909 PLN02268, PLN02268, probable polyamine oxidase. Length = 435 Score = 27.7 bits (62), Expect = 6.9 Identities = 11/26 (42%), Positives = 16/26 (61%) Query: 10 SIAVFGLGRSGLSAACALKDSGVHVI 35 S+ V G G +G++AA AL D+ V Sbjct: 2 SVIVIGGGIAGIAAARALHDASFKVT 27 >gnl|CDD|148236 pfam06506, PrpR_N, Propionate catabolism activator. This domain is found at the N terminus of several sigma54- dependent transcriptional activators including PrpR, which activates catabolism of propionate. Length = 169 Score = 27.5 bits (62), Expect = 7.6 Identities = 15/53 (28%), Positives = 20/53 (37%), Gaps = 5/53 (9%) Query: 8 NHSIAVFGLGRS--GLSAACALKDSGVHVIAWDDH---PCAVKQAKDMGIEVI 55 I + G GL A L + A+ AVK+ K GI+VI Sbjct: 75 GGRIGLVGYENIIPGLKALSELLGLDIVQRAYQSEEEARAAVKELKAQGIKVI 127 >gnl|CDD|150950 pfam10359, Fmp27_WPPW, RNA pol II promoter Fmp27 protein domain. Fmp27_WPPW is a conserved domain of a family of proteins involved in RNA polymerase II transcription initiation. It contains characteristic HQR and WPPW sequence motifs. and is towards the C-terminal in members which contain Fmp27_SW pfam10305. Length = 470 Score = 27.3 bits (61), Expect = 7.9 Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 3/69 (4%) Query: 196 RHHTLE--NYVNIKKKIVT-MSKHAIICINDHQCEKIAYDMNFIGHSISRISSQSLQSDS 252 R+ L+ ++V+++K V MS A+ I D E++ D S S ++ S+ Sbjct: 280 RNILLKYIHFVSLRKGFVYYMSYKAVKFIEDLIKERLKSDKTSESESGSDKIAEKDSSEK 339 Query: 253 DLYIDESFL 261 + DE L Sbjct: 340 EESSDEELL 348 >gnl|CDD|181001 PRK07494, PRK07494, 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional. Length = 388 Score = 27.6 bits (62), Expect = 8.0 Identities = 13/25 (52%), Positives = 16/25 (64%) Query: 11 IAVFGLGRSGLSAACALKDSGVHVI 35 IAV G G +GL+AA AL +G V Sbjct: 10 IAVIGGGPAGLAAAIALARAGASVA 34 >gnl|CDD|181565 PRK08850, PRK08850, 2-octaprenyl-6-methoxyphenol hydroxylase; Validated. Length = 405 Score = 27.4 bits (61), Expect = 8.2 Identities = 10/24 (41%), Positives = 16/24 (66%) Query: 11 IAVFGLGRSGLSAACALKDSGVHV 34 +A+ G G GL+ A ALK+S + + Sbjct: 7 VAIIGGGMVGLALAAALKESDLRI 30 >gnl|CDD|161695 TIGR00078, nadC, nicotinate-nucleotide pyrophosphorylase. Synonym: quinolinate phosphoribosyltransferase (decarboxylating). Length = 265 Score = 27.2 bits (61), Expect = 9.0 Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 5/35 (14%) Query: 296 GLKVEEIKRALLSCGGLTHRLQTIARLGHVIFIND 330 GL++ E K A+ GG HRL L + I D Sbjct: 126 GLRLLE-KYAVRVGGGDNHRL----GLSDAVMIKD 155 >gnl|CDD|181499 PRK08605, PRK08605, D-lactate dehydrogenase; Validated. Length = 332 Score = 27.4 bits (61), Expect = 9.1 Identities = 15/38 (39%), Positives = 21/38 (55%), Gaps = 1/38 (2%) Query: 5 SFRNHSIAVFGLGRSGLSAACAL-KDSGVHVIAWDDHP 41 S ++ +AV G GR GL+ A K G V+A+D P Sbjct: 143 SIKDLKVAVIGTGRIGLAVAKIFAKGYGSDVVAYDPFP 180 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 0.405 Gapped Lambda K H 0.267 0.0600 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 7,521,332 Number of extensions: 486148 Number of successful extensions: 1341 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1240 Number of HSP's successfully gapped: 121 Length of query: 468 Length of database: 5,994,473 Length adjustment: 97 Effective length of query: 371 Effective length of database: 3,898,497 Effective search space: 1446342387 Effective search space used: 1446342387 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 (26.8 bits)