RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254781096|ref|YP_003065509.1| UDP-N-acetylmuramate--L-alanine ligase [Candidatus Liberibacter asiaticus str. psy62] (474 letters) >gnl|CDD|179018 PRK00421, murC, UDP-N-acetylmuramate--L-alanine ligase; Provisional. Length = 461 Score = 679 bits (1756), Expect = 0.0 Identities = 223/465 (47%), Positives = 308/465 (66%), Gaps = 9/465 (1%) Query: 1 MLNPQGMGPIHFVGIGGIGMSGIAEVLHNTGHQVQGSDVILGPNVQRLHKQGIKVSIGHK 60 + + + IHFVGIGGIGMSG+AEVL N G++V GSD+ QRL + G + IGH Sbjct: 1 VPELRRIKRIHFVGIGGIGMSGLAEVLLNLGYKVSGSDLKESAVTQRLLELGAIIFIGHD 60 Query: 61 VENIDNAEILVLSTAIDKDNVECIAARERNIPIIFRSEMLAGLMRCRKSISVSGTHGKTT 120 ENI +A+++V S+AI DN E +AARE IP++ R+EMLA LMR R SI+V+GTHGKTT Sbjct: 61 AENIKDADVVVYSSAIPDDNPELVAARELGIPVVRRAEMLAELMRFRTSIAVAGTHGKTT 120 Query: 121 TTSLIAALLEQGKFDPTVINGGIINSYGTNARIGTSEWIVVEADESDGTFIRLPSDIVVV 180 TTSL+A +L + DPT + GGI+N+ GTNAR+G S++ V EADESD +F++L DI +V Sbjct: 121 TTSLLAHVLAEAGLDPTFLIGGILNAAGTNARLGNSDYFVAEADESDRSFLKLHPDIAIV 180 Query: 181 TNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHPEVRSLIARIQNRKIITYGR 240 TNID +HLDYYGDF ++ AF +F N+PFYG V C D PE+R L+ R+ +R +ITYG Sbjct: 181 TNIDADHLDYYGDFEDLKDAFQEFAHNLPFYGALVACGDDPELRELLPRV-SRPVITYGF 239 Query: 241 HPQADIRYSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLSLPLIGEHNISNACASIAVAYK 300 AD R NIR+ G + FDV +G V+ D +LPL G HN+ NA A+IAVA + Sbjct: 240 SEDADFRAENIRQDGGGTHFDVLRRG------EVLGDFTLPLPGRHNVLNALAAIAVALE 293 Query: 301 LGLSSEDVKKGLASFSGIKRRFTLVGVWNDVHVFDDYGHHPIEISSVLAAVRQICP-RKI 359 LG+ E +++ LA+F G+KRRF G V + DDY HHP EI + L A RQ P ++I Sbjct: 294 LGIDDEAIREALATFKGVKRRFEEKGEVGGVVLIDDYAHHPTEIKATLKAARQGYPDKRI 353 Query: 360 IAIHQPHRYSRLSTLFDQFSSCFGDADIVLISPVYSAGEKEIPGFSSPELVKNIKLQGHP 419 +A+ QPHRYSR L D+F+ DAD V++ +Y+AGE+ I G S +L + IK +GH Sbjct: 354 VAVFQPHRYSRTRDLLDEFAEALSDADEVILLDIYAAGEEPIGGVDSEDLARKIK-RGHR 412 Query: 420 QAYYMDSFDHLVSKILAIAEPGDFIIFFGAGNITQWAASLIGELE 464 ++ + L + + +PGD ++ GAG+IT+ A +L+ L Sbjct: 413 DPIFVPDLEDLAELLAEVLKPGDLVLTMGAGDITKLARALLELLL 457 >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 = 513 bits (1323), Expect = e-146 Identities = 207/454 (45%), Positives = 292/454 (64%), Gaps = 8/454 (1%) Query: 9 PIHFVGIGGIGMSGIAEVLHNTGHQVQGSDVILGPNVQRLHKQGIKVSIGHKVENIDNAE 68 IHFVGIGGIGMSGIAE+L N G+QV GSD+ +RL GI + IGH EN+D+A+ Sbjct: 1 KIHFVGIGGIGMSGIAEILLNRGYQVSGSDIAENATTKRLEALGIPIYIGHSAENLDDAD 60 Query: 69 ILVLSTAIDKDNVECIAARERNIPIIFRSEMLAGLMRCRKSISVSGTHGKTTTTSLIAAL 128 ++V+S AI DN E + A+ER IP+I R+EMLA LMR R SI+V+GTHGKTTTT++IA + Sbjct: 61 VVVVSAAIKDDNPEIVEAKERGIPVIRRAEMLAELMRFRHSIAVAGTHGKTTTTAMIAVI 120 Query: 129 LEQGKFDPTVINGGIINSYGTNARIGTSEWIVVEADESDGTFIRLPSDIVVVTNIDPEHL 188 L++ DPTV+ GG++ GTNAR+G+ E++V EADESD +F+ L ++ +VTNI+P+HL Sbjct: 121 LKEAGLDPTVVVGGLVKEAGTNARLGSGEYLVAEADESDASFLHLQPNVAIVTNIEPDHL 180 Query: 189 D-YYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHPEVRSLIARIQNRKIITYGRHPQADIR 247 D Y F ++AAF KFI N+PFYG AV+C D P +R L+ + + I G AD R Sbjct: 181 DTYGSSFERLKAAFEKFIHNLPFYGLAVICADDPVLRELVPKATEQVITYGGSGEDADYR 240 Query: 248 YSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLSLPLIGEHNISNACASIAVAYKLGLSSED 307 NI++ F V +G + + T+ L G HN+ NA A+IAVA +LG+ E Sbjct: 241 AENIQQSGAEGKFSVRGKGKLYLEFTL------NLPGRHNVLNALAAIAVALELGIDFEA 294 Query: 308 VKKGLASFSGIKRRFTLVGVWNDVHVFDDYGHHPIEISSVLAAVRQICP-RKIIAIHQPH 366 + + LA+F G+KRRF ++G + V + DDY HHP EI + L A RQ P ++I+ + QPH Sbjct: 295 ILRALANFQGVKRRFEILGEFGGVLLIDDYAHHPTEIKATLKAARQGYPDKRIVVVFQPH 354 Query: 367 RYSRLSTLFDQFSSCFGDADIVLISPVYSAGEKEIPGFSSPELVKNIKLQGHPQAYYMDS 426 RYSR LFD F+ DAD +++ +Y+AGE+ I G L + I G + Y++ Sbjct: 355 RYSRTRDLFDDFAKVLSDADELILLDIYAAGEEPINGIDGKSLARKITQLGKIEPYFVPD 414 Query: 427 FDHLVSKILAIAEPGDFIIFFGAGNITQWAASLI 460 LV + A+ + GD I+ GAG+I + A L+ Sbjct: 415 LAELVEFLAAVLQSGDLILTMGAGDIIKLARELL 448 >gnl|CDD|184752 PRK14573, PRK14573, bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional. Length = 809 Score = 309 bits (792), Expect = 1e-84 Identities = 166/449 (36%), Positives = 245/449 (54%), Gaps = 26/449 (5%) Query: 11 HFVGIGGIGMSGIAEVLHNTGHQVQGSDVILGPNVQRLHKQGIKVSIGHKVENIDNAEIL 70 HF+GIGGIGMS +A +L + G+ V GSD+ G V++L +G + +GH+ E++ ++ Sbjct: 8 HFIGIGGIGMSALAHILLDRGYSVSGSDLSEGKTVEKLKAKGARFFLGHQEEHVPEDAVV 67 Query: 71 VLSTAIDKDNVECIAARERNIPIIFRSEMLAGLMRCRKSISVSGTHGKTTTTSLIAALLE 130 V S++I KDNVE ++A+ R ++ R+E+LA LM+ + SI VSG+HGKTT +SLI A+ + Sbjct: 68 VYSSSISKDNVEYLSAKSRGNRLVHRAELLAELMQEQISILVSGSHGKTTVSSLITAIFQ 127 Query: 131 QGKFDPTVINGGIINSYGTNARIGTSEWIVVEADESDGTFIRLPSDIVVVTNIDPEHL-D 189 + K DP+ GG +N G N G+SE+ V EADESDG+ + V+TNID EHL + Sbjct: 128 EAKKDPSYAIGG-LNQEGLNGYSGSSEYFVAEADESDGSLKHYTPEFSVITNIDNEHLSN 186 Query: 190 YYGDFNAIRAAFYKF---IDNIP--FYGFAVVCMDHPEVRSLIARIQNRKIITYGRHPQA 244 + GD + A+ F + I FY D P ++ +Q +YG Sbjct: 187 FEGDRELLLASIQDFARKVQQINKCFYN-----GDCPRLKG---CLQG---HSYGFSSSC 235 Query: 245 DIRYSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLSLPLIGEHNISNACASIAVAYKLGLS 304 D+ + + RS F G V +D+ L L+G HN++NA A++ +A LG+ Sbjct: 236 DLHILSYYQEGWRSYFSAKFLG------VVYQDIELNLVGMHNVANAAAAMGIALTLGID 289 Query: 305 SEDVKKGLASFSGIKRRFTLVGVWNDVHVFDDYGHHPIEISSVLAAVRQ-ICPRKIIAIH 363 ++ L FSG++RR +DY HHP EIS L AVR + R+IIAI Sbjct: 290 EGAIRNALKGFSGVQRRLERKNSSETFLFLEDYAHHPSEISCTLRAVRDAVGLRRIIAIC 349 Query: 364 QPHRYSRLSTLFDQFSSCFGDADIVLISPVYSAGEKEIPGFSSPELVKNIKLQGHPQAYY 423 QPHR+SRL D F S F DAD V+++ VYSAGE+ S +L + I + Y Sbjct: 350 QPHRFSRLRECLDSFPSAFQDADEVILTDVYSAGEEPEDSISYQKLAEAISQSSIVKCTY 409 Query: 424 MDSFDHLVSKILAIAEPGDFIIFFGAGNI 452 + F + + D + GAGNI Sbjct: 410 V-PFHEIQRYLEQSIRVHDVCVSLGAGNI 437 >gnl|CDD|130153 TIGR01081, mpl, UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso- diaminopimelate ligase. Alternate name: murein tripeptide ligase. Length = 448 Score = 193 bits (492), Expect = 7e-50 Identities = 132/456 (28%), Positives = 214/456 (46%), Gaps = 38/456 (8%) Query: 10 IHFVGIGGIGMSGIAEVLHNTGHQVQGSDV-ILGPNVQRLHKQGIKVSIGHKVENID-NA 67 IH +GI G M G+A + GH+V GSD + P +L QGI++ G ++ Sbjct: 2 IHILGICGTFMGGLAMIAKQLGHEVTGSDANVYPPMSTQLEAQGIEIIEGFDAAQLEPKP 61 Query: 68 EILVLSTAIDKDNVECIAARERNIPIIFRSEMLAG-LMRCRKSISVSGTHGKTTTTSLIA 126 +++V+ A+ + N A N+P + L ++ R ++V+GTHGKTTT S++A Sbjct: 62 DLVVIGNAMKRGNPCVEAVLNLNLPYTSGPQWLHDFVLHDRWVLAVAGTHGKTTTASMLA 121 Query: 127 ALLEQGKFDPTVINGGIINSYGTNARIGTSEWIVVEADESDGTFIRLPSDIV-------V 179 +LEQ P + GG+ ++G +AR+G S + V+EADE D F S V V Sbjct: 122 WVLEQCGLKPGFLIGGVPGNFGVSARLGESPFFVIEADEYDTAFFDKRSKFVHYRPRTLV 181 Query: 180 VTNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHPEVRSLIAR---IQNRKII 236 + N++ +H D + D AI+ F+ + +P G + ++ +A+ + Sbjct: 182 LNNLEFDHADIFDDLKAIQRQFHHLVRTVPGEGLILCPGRDQSLKDTLAKGCWSEQEFFG 241 Query: 237 TYGRHPQADIRYSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLSLPLIGEHNISNACASIA 296 G QA+ + + S FDV + G + ++ L+G HN+ NA +IA Sbjct: 242 EQG-EWQAE------KITADGSHFDVLLDGE------KVGEVKWSLVGRHNMHNALMAIA 288 Query: 297 VAYKLGLSSEDVKKGLASFSGIKRRFTLVGVWNDVHVFDDYGHHPIEISSVLAAVRQ-IC 355 A +G++ ED + L SF KRR L G N + V+DD+ HHP I + L +RQ + Sbjct: 289 AARHVGVAIEDACEALGSFVNAKRRLELKGEANGITVYDDFAHHPTAIEATLQGLRQKVG 348 Query: 356 PRKIIAIHQPHRYS-RLSTLFDQFSSCFGDADIVLISPVYSAGEKEIPGFSSPELVKNIK 414 +I+A+ +P + +L D + G AD V + P V + Sbjct: 349 GARILAVLEPRSNTMKLGVHKDDLAPSLGRADQVFL----------YQPGQIPWDVAEVA 398 Query: 415 LQGHPQAYYMDSFDHLVSKILAIAEPGDFIIFFGAG 450 Q A FD V+ I+ A+PGD I+ G Sbjct: 399 AQCVQPANVSADFDAFVAMIVKNAQPGDHILVMSNG 434 >gnl|CDD|162197 TIGR01087, murD, UDP-N-acetylmuramoylalanine--D-glutamate ligase. Length = 433 Score = 141 bits (357), Expect = 4e-34 Identities = 115/451 (25%), Positives = 188/451 (41%), Gaps = 62/451 (13%) Query: 13 VGIGGIGMSGI--AEVLHNTGHQVQGSDVILGPNVQRLHKQ-----GIKVSIGHKVENID 65 + I G+G +G A LH G +V +D+ ++ Q G + G +E+++ Sbjct: 2 ILILGLGKTGRAVARFLHKKGAEVTVTDLKPNEELEPSMGQLRLNEGSVLHTGLHLEDLN 61 Query: 66 NAEILVLSTAIDKDNVECIAARERNIPIIFRSEMLAGLMRCRKSISVSGTHGKTTTTSLI 125 NA+++V S I D+ AA +R IP++ E+ L+ ++++GT+GKTTTTSL+ Sbjct: 62 NADLVVKSPGIPPDHPLVQAAAKRGIPVVGDIELFLRLVP-LPVVAITGTNGKTTTTSLL 120 Query: 126 AALLEQGKFDPTVINGGIINSYGTNARIG----TSEWIVVEADESDGTFIRLPS---DIV 178 LL + + G I GT A +E V+E S S +I Sbjct: 121 YHLL-KAAGLKAFLGGNI----GTPALEVLDQEGAELYVLEL--SSFQLETTESLRPEIA 173 Query: 179 VVTNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHPEVRSLIARIQNRKIITY 238 ++ NI +HLD++G F AA K AV+ D P L + + + I Sbjct: 174 LILNISEDHLDWHGSFEDYVAAKLKIFARQTEGDVAVLNADDPRFARLAQKSKAQVIWFS 233 Query: 239 GRHPQADIRYSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLSLPLIGEHNISNACASIAVA 298 + D + G + DL L+G HN N A+IA+A Sbjct: 234 ---VEKDAERGLCIRDGGLYLKP--------------NDLEGSLLGLHNAENILAAIALA 276 Query: 299 YKLGLSSEDVKKGLASFSGIKRRFTLVGVWNDVHVFDDYGHHPIEISSVLAAVRQICPRK 358 LGL+ E + + L SF G+ R VG N VH ++D + + LAA+ Sbjct: 277 KSLGLNLEAILEALRSFKGLPHRLEYVGQKNGVHFYND--SKATNVHATLAALSAF-DNP 333 Query: 359 IIAIHQPHRYSRLSTLFDQ---FSSCFGDADIVLISPVYSAGEKEIPGFSSPELVKNIKL 415 +I I + D+ FS A + + V + GE + ++ +K Sbjct: 334 VILI--------VGGD-DKGADFSPLAPAAAGKVKA-VLAIGE------DAAKIAPLLKE 377 Query: 416 QGHPQAYYMDSFDHLVSKILAIAEPGDFIIF 446 G Y ++S + V +A PGD ++ Sbjct: 378 AGLS-VYLVESLEEAVQAAREVASPGDVVLL 407 >gnl|CDD|179428 PRK02472, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 447 Score = 128 bits (324), Expect = 3e-30 Identities = 103/342 (30%), Positives = 159/342 (46%), Gaps = 50/342 (14%) Query: 17 GIGMSGI--AEVLHNTGHQVQGSDV-ILGPN--VQRLHKQGIKVSIG-HKVENID-NAEI 69 G+ SG A++LH G V +D N Q L ++GIKV G H +E +D + ++ Sbjct: 12 GLAKSGYAAAKLLHKLGANVTVNDGKPFSENPEAQELLEEGIKVICGSHPLELLDEDFDL 71 Query: 70 LVLSTAIDKDNVECIAARERNIPIIFRSEM-LAGLMRCRKSISVSGTHGKTTTTSLIAAL 128 +V + I N A E+ IPII +E+ LA L+ I ++G++GKTTTT+LI + Sbjct: 72 MVKNPGIPYTNPMVEKALEKGIPII--TEVELAYLISEAPIIGITGSNGKTTTTTLIGEM 129 Query: 129 LEQGKFDPTVINGGIINSYGTNARIGTSEWIVVEADESDGTFIRLPS-----------DI 177 L+ G ++ G I G A SE + +A D + L S I Sbjct: 130 LKAGGQHA-LLAGNI----GYPA----SE-VAQKATADDTLVMELSSFQLMGIETFRPHI 179 Query: 178 VVVTNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHPEVRSLIARIQNRKIIT 237 V+TNI P HLDY+G F AA + N + V+ D EV+ L + + ++ Sbjct: 180 AVITNIYPAHLDYHGTFENYVAAKWNIQKNQTEDDYLVINFDQEEVKELAKQTKA-TVVP 238 Query: 238 YGRH--PQADIRYSNIRKYS-GRSIFDVSVQGNVTKDLTVIKDLSLPLIGEHNISNACAS 294 + + + Y G I D+ LP G HN+ NA A+ Sbjct: 239 FSTTEKVEDGAYIKDGALYFKGEKIMAAD-------------DIVLP--GSHNLENALAA 283 Query: 295 IAVAYKLGLSSEDVKKGLASFSGIKRRFTLVGVWNDVHVFDD 336 IA A LG+S+E +++ L++FSG+K R VG + ++D Sbjct: 284 IAAAKLLGVSNEAIREVLSTFSGVKHRLQYVGTIDGRKFYND 325 >gnl|CDD|149357 pfam08245, Mur_ligase_M, Mur ligase middle domain. Length = 188 Score = 127 bits (321), Expect = 6e-30 Identities = 68/197 (34%), Positives = 96/197 (48%), Gaps = 19/197 (9%) Query: 112 VSGTHGKTTTTSLIAALLEQGKFDPTVINGGIINSYGTNARIG-----TSEWIVVEADES 166 ++GT+GKTTTT LIAALL G N+ G + +++ V+E Sbjct: 1 ITGTNGKTTTTELIAALLSA-AGGVVGTGGNTNNAIGLPLLLALMERKGADYAVLELSSF 59 Query: 167 DGTFIRL----PSDIVVVTNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHPE 222 RL DI V+TNI P+HLDY+G AA + + +P G AV+ D PE Sbjct: 60 GLGEGRLEGLAKPDIAVITNISPDHLDYHGTMENYAAAKAEIFEGLPEDGIAVINADDPE 119 Query: 223 VRSLIARIQNRKIITYGRHPQADIRYSNIRKYS-GRSIFDVSVQGNVTKDLTVIKDLSLP 281 + + K+IT+G +AD R +NI S G I +V G ++SLP Sbjct: 120 LAKRLKNAGA-KVITFGLENEADDRAANIYVSSEGGKIVLFTVPGG-------ELEISLP 171 Query: 282 LIGEHNISNACASIAVA 298 L G HN+ NA A++A A Sbjct: 172 LPGRHNVYNALAALAAA 188 >gnl|CDD|184511 PRK14106, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 450 Score = 114 bits (288), Expect = 5e-26 Identities = 84/348 (24%), Positives = 154/348 (44%), Gaps = 58/348 (16%) Query: 17 GIGMSGIA--EVLHNTGHQVQGSD----VILGPNVQRLHKQGIKVSIG-HKVENIDNAEI 69 G G+SG+A + L G +V +D L ++ L + GI++ +G + E ++ ++ Sbjct: 12 GAGVSGLALAKFLKKLGAKVILTDEKEEDQLKEALEELGELGIELVLGEYPEEFLEGVDL 71 Query: 70 LVLSTAIDKDNVECIAARERNIPIIFRSEMLAGLMRCRKSI-SVSGTHGKTTTTSLIAAL 128 +V+S + D+ + A ++ I +I E+ + I +++GT+GKTTTT+L+ + Sbjct: 72 VVVSPGVPLDSPPVVQAHKKGIEVI--GEVELAYRFSKAPIVAITGTNGKTTTTTLLGEI 129 Query: 129 LEQGKFDPTVINGGI-------INSYGTNARIGTSEWIVVEADESD---GTFIRLPSDIV 178 + T++ G I + YG E ++ A+ S T + Sbjct: 130 FKN-AGRKTLVAGNIGYPLIDAVEEYG--------EDDIIVAEVSSFQLETIKEFKPKVG 180 Query: 179 VVTNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHPEVRSLIARIQNRKIITY 238 + NI P+HLD + A + +N + V+ D P RSL + + R I Sbjct: 181 CILNITPDHLDRHKTMENYIKAKARIFENQRPSDYTVLNYDDPRTRSLAKKAKARVIF-- 238 Query: 239 GRHPQADIRYSNIRKYSGRSIFD--VSVQGN--------VTKDLTVIKDLSLPLIGEHNI 288 +S +S+ + V V+ +++ I ++ +P GEHN+ Sbjct: 239 ---------------FSRKSLLEEGVFVKNGKIVISLGGKEEEVIDIDEIFIP--GEHNL 281 Query: 289 SNACASIAVAYKLGLSSEDVKKGLASFSGIKRRFTLVGVWNDVHVFDD 336 NA A+ A AY LG+S + + L +F G++ R V N V +D Sbjct: 282 ENALAATAAAYLLGISPDVIANTLKTFKGVEHRIEFVAEINGVKFIND 329 >gnl|CDD|178894 PRK00139, murE, UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional. Length = 460 Score = 110 bits (278), Expect = 8e-25 Identities = 49/187 (26%), Positives = 75/187 (40%), Gaps = 18/187 (9%) Query: 176 DIVVVTNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHPEVRSLIARIQNRKI 235 D+ V TN+ +HLDY+G AA + AV+ D R L+ Sbjct: 186 DVAVFTNLSRDHLDYHGTMEDYLAAKARLFSE--LGLAAVINADDEVGRRLL---ALPDA 240 Query: 236 ITYGRHPQADIRYSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLSLPLIGEHNISNACASI 295 AD+R +++ Y+ T++ ++ PLIG N+SN A++ Sbjct: 241 YAVSMAG-ADLRATDVE-YTDSGQ-----------TFTLVTEVESPLIGRFNVSNLLAAL 287 Query: 296 AVAYKLGLSSEDVKKGLASFSGIKRRFTLVGVWNDVHVFDDYGHHPIEISSVLAAVRQIC 355 A LG+ ED LA G+ R V V DY H P + VL A+R Sbjct: 288 AALLALGVPLEDALAALAKLQGVPGRMERVDAGQGPLVIVDYAHTPDALEKVLEALRPHA 347 Query: 356 PRKIIAI 362 ++I + Sbjct: 348 KGRLICV 354 Score = 36.3 bits (85), Expect = 0.020 Identities = 12/22 (54%), Positives = 16/22 (72%) Query: 110 ISVSGTHGKTTTTSLIAALLEQ 131 I V+GT+GKTTT L+A +L Sbjct: 98 IGVTGTNGKTTTAYLLAQILRL 119 >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 = 109 bits (275), Expect = 1e-24 Identities = 76/282 (26%), Positives = 111/282 (39%), Gaps = 31/282 (10%) Query: 108 KSISVSGTHGKTTTTSLIAALLEQ-GK---FDPTVING-GIINSYGTNARIGTSEWIVV- 161 K I V+GT+GKTTTTSLIA LL GK T+ G + A + T E + + Sbjct: 86 KVIGVTGTNGKTTTTSLIAQLLRLLGKKTGLIGTIGYRLGGNDLIKNPAALTTPEALTLQ 145 Query: 162 ----EADESDGTFIRLPS---------------DIVVVTNIDPEHLDYYGDFNAIRAAFY 202 E E+ + + D V TN+ +HLD++G AA Sbjct: 146 STLAEMVEAGAQYAVMEVSSHALAQGRVRGVRFDAAVFTNLSRDHLDFHGTMENYFAAKA 205 Query: 203 KFIDNIPFYGFAVVCMDHPEVRSLIARIQNRKIITY-GRHPQADIRYSNIRKYSGRSIFD 261 + FAV+ +D + R+ K IT AD R +I+ F+ Sbjct: 206 SLFTELGLKRFAVINLDDEYGAQFVKRLP--KDITVSAITQPADGRAQDIKITDSGYSFE 263 Query: 262 VSVQGNVTKDLTVIKDLSLPLIGEHNISNACASIAVA-YKLGLSSEDVKKGLASFSGIKR 320 T L PLIG N+ N A++A + G+ ED+ L F G+ Sbjct: 264 GQQFTFETPA--GEGHLHTPLIGRFNVYNLLAALATLLHLGGIDLEDIVAALEKFRGVPG 321 Query: 321 RFTLVGVWNDVHVFDDYGHHPIEISSVLAAVRQICPRKIIAI 362 R LV V DY H P + L +R+ ++I + Sbjct: 322 RMELVDGGQKFLVIVDYAHTPDALEKALRTLRKHKDGRLIVV 363 >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 = 100 bits (251), Expect = 9e-22 Identities = 79/282 (28%), Positives = 118/282 (41%), Gaps = 27/282 (9%) Query: 100 LAGLMRCRKS---ISVSGTHGKTTTTSLIAALL--EQGKFDPTVINGGIINSYG---TNA 151 LA R R S ++++G++GKTTT +IAA+L QG+ G N G T Sbjct: 593 LATAWRARFSLPVVAITGSNGKTTTKEMIAAILAAWQGEDRVLATEGNFNNEIGVPLTLL 652 Query: 152 RI-GTSEWIVVEAD-ESDGTFIRLPS----DIVVVTNIDPEHLDYYGDFNAIRAAFYKFI 205 R+ V E G L + + +VTN EH ++ A+ A + I Sbjct: 653 RLRAQHRAAVFELGMNHPGEIAYLAAIAAPTVALVTNAQREHQEFMHSVEAVARAKGEII 712 Query: 206 DNIPFYGFAVVCMDHPEVRSLIARIQNRKIITYGRHPQADIRYSNIRK-YSGRSIFDVSV 264 +P G AVV D P R+++ +G P AD+ I K S Sbjct: 713 AALPEDGVAVVNGDDPYTAIWAKLAGARRVLRFGLQPGADVYAEKIAKDISVGEAGGTRC 772 Query: 265 QGNVTKDLTVIKDLSLPLIGEHNISNACASIAVAYKLGLSSEDVKKGLASFSGIKRRFTL 324 Q ++ LPLIGEHN+ NA A+IA A G S + ++ GL F + R Sbjct: 773 QVVTPAGSA---EVYLPLIGEHNLRNALAAIACALAAGASLKQIRAGLERFQPVAGRMQR 829 Query: 325 VGVWNDVHVFDD-YGHHPIEISSVLAAVRQIC-----PRKII 360 + + DD Y +P S+ AA+ + PR ++ Sbjct: 830 RRLSCGTRIIDDTYNANP---DSMRAAIDVLAELPNGPRALV 868 Score = 89.4 bits (222), Expect = 2e-18 Identities = 75/312 (24%), Positives = 115/312 (36%), Gaps = 64/312 (20%) Query: 110 ISVSGTHGKTTTTSLIAALLEQGKFDPTVINGGIINSYGTNAR-IGTS------------ 156 ++V+GT+GKT+ L+A LL + I + R I S Sbjct: 115 VAVTGTNGKTSCAQLLAQLLTRLGKPCGSIG---TLGARLDGRLIPGSLTTPDAIILHRI 171 Query: 157 ---------EWIVVEADES-------DGTFIRLPSDIVVVTNIDPEHLDYYGDFNAIRAA 200 + + +EA DG I + TN+ +HLDY+G A Sbjct: 172 LARMRAAGADAVAMEASSHGLEQGRLDGLRI----AVAGFTNLTRDHLDYHGTMQDYEEA 227 Query: 201 FYKFIDNIPFYGFAVVCMDHPEVRSLIARIQNR--KIITYGRHPQADIRYSNIRKYSGRS 258 +P G AV+ D P L R K+ ++ AD++ ++R + Sbjct: 228 KAALFSKLPGLGAAVINADDPAAARL-LAALPRGLKVGYSPQNAGADVQARDLRATAHGQ 286 Query: 259 IFDVSV-QGNVTKDLTVIKDLSLPLIGEHNISNACASIAVAYKLGLSSEDVKKGLASFSG 317 +F ++ G+ L L+G N+SN A KLGL + + LA+ S Sbjct: 287 VFTLATPDGSYQ--------LVTRLLGRFNVSNLLLVAAALKKLGLPLAQIARALAAVSP 338 Query: 318 IKRRFTLVGVW---NDVHVFDDYGHHPIEISSVLAAVRQICPRKIIAIHQPHRYSRLSTL 374 + R VG V DY H P ++ L A+R + Q R RL + Sbjct: 339 VPGRMERVGPTAGAQGPLVVVDYAHTPDALAKALTALR--------PVAQA-RNGRLVCV 389 Query: 375 FDQFSSCFGDAD 386 F C GD D Sbjct: 390 F----GCGGDRD 397 >gnl|CDD|179461 PRK02705, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 459 Score = 96.5 bits (241), Expect = 1e-20 Identities = 94/358 (26%), Positives = 150/358 (41%), Gaps = 57/358 (15%) Query: 9 PIHFVGIGGIGMSGI--AEVLHNTGHQVQGSDVILGPNVQR----LHKQGIKVSIGHKVE 62 I V IG +G SGI A +L G +V SD P + L ++GI V +G +E Sbjct: 1 AIAHV-IG-LGRSGIAAARLLKAQGWEVVVSDRNDSPELLERQQELEQEGITVKLGKPLE 58 Query: 63 ------NIDNAEILVLSTAIDKDNVECIAARERNIPIIFRSEM-LAGLMRCRKSIS---V 112 +D +++V+S I D+ + RER I +I E+ LA R K I + Sbjct: 59 LESFQPWLDQPDLVVVSPGIPWDHPTLVELRERGIEVI--GEIELA--WRALKHIPWVGI 114 Query: 113 SGTHGKTTTTSLIAALLEQGKFDPTVINGGIINSYGTNA------RIGTSE---WIVVEA 163 +GT+GKTT T+L+A +L+ + G I G A R G ++ WIV E Sbjct: 115 TGTNGKTTVTALLAHILQAAGLNAPA--CGNI---GYAACELALLRSGKAQKPDWIVAEL 169 Query: 164 D----ESDGTFIRLPSDIVVVTNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMD 219 ES L I + T P+HL+ +G A ++ ++ D Sbjct: 170 SSYQIESSPE---LAPKIGIWTTFTPDHLERHGTLENYFAIKASLLER---SEIRILNGD 223 Query: 220 HPEVRSLIARIQNRKIITYGRHPQADIRYSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLS 279 P +R + T + + + + + +G V + + LS Sbjct: 224 DPYLRQHRSSWPK-GYWTSTQGKASLL--------GQADGWILE-EGWVVERGEPLFPLS 273 Query: 280 -LPLIGEHNISNACASIAVAYKLGLSSEDVKKGLASFSGIKRRFTLVGVWNDVHVFDD 336 L + G HN+ N ++A A GLS+E + + L SF G+ R +G N + +D Sbjct: 274 ALKMPGAHNLQNLLLAVAAARLAGLSAEAIAEALRSFPGVPHRLERIGTINGIDFIND 331 >gnl|CDD|179286 PRK01368, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 454 Score = 93.4 bits (232), Expect = 1e-19 Identities = 83/332 (25%), Positives = 152/332 (45%), Gaps = 23/332 (6%) Query: 13 VGIGGIGMSGIA--EVLHNTGHQVQGSDVILGPNVQRLHKQGIKVSIGHKVENID----- 65 +G+ G+G +GI+ E L N DVI+ +++ ++ + + + Sbjct: 9 IGVFGLGKTGISVYEELQNK------YDVIVYDDLKANRDIFEELYSKNAIAALSDSRWQ 62 Query: 66 NAEILVLSTAIDKDNVECIAARERNIPIIFRSEMLAGLMRCRKSISVSGTHGKTTTTSLI 125 N + +VLS I + A+ NIPI ++L + K I+++GT+GK+TTT+LI Sbjct: 63 NLDKIVLSPGIPLTHEIVKIAKNFNIPITSDIDLLFEKSKNLKFIAITGTNGKSTTTALI 122 Query: 126 AALLEQGKFDPTVINGGIINSYGTNARIGTSEWIVVEADESDGTFIR-LPSDIVVVTNID 184 + +L D V G I A+ + + V+E ++ + I V+ NI Sbjct: 123 SHILNSNGLDYPV--AGNIGVPALQAK-ASKDGYVLELSSFQLDLVKTFTAKIAVLLNIT 179 Query: 185 PEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHPEVRSLIARIQNRKIITYGRHPQA 244 P+HLD + D + AA K D + +AV+ +D+ R + ++Q + I Sbjct: 180 PDHLDRHQDMDGYIAAKSKIFDRMDKDSYAVINIDNDYCREIFIKLQQEQRIKLIPFSVT 239 Query: 245 DIRYSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLSLPLIGEHNISNACASIAVAYKLGLS 304 I + I S+ D + N D++ + L G+HN N AS AVA +G+ Sbjct: 240 KILENGI------SVVDDKISDNFFDDISFKLPFNKNLQGKHNCENIAASYAVAKIIGVE 293 Query: 305 SEDVKKGLASFSGIKRRFTLVGVWNDVHVFDD 336 + + + ++SF + R +G N++ ++D Sbjct: 294 PKKILESISSFQSLPHRMQYIGSINNISFYND 325 >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 = 93.1 bits (232), Expect = 1e-19 Identities = 74/271 (27%), Positives = 117/271 (43%), Gaps = 32/271 (11%) Query: 108 KSISVSGTHGKTTTTSLIAALLEQ-GKFDPTVINGGIINS----------YGTNARIGTS 156 K I ++G+ GKTTT ++AA+L K G N+ + Sbjct: 75 KVIGITGSSGKTTTKEMLAAILSHKYK---VFATPGNFNNEIGLPLTLLRAPGDHDYAVL 131 Query: 157 EWIVVEADESDGTFIRLPSDIVVVTNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVV 216 E E DI V+TNI P HL+ +G I A + + + G AV+ Sbjct: 132 EMGASHPGEIAYLAEIAKPDIAVITNIGPAHLEGFGSLEGIAEAKGEILQGLKENGIAVI 191 Query: 217 CMDHPEVRSLIARIQNRKIITYGRHPQADIRYSNIR-KYSGRSIFDVSVQGNVTKDLTVI 275 D P R+ N+ I+++G D ++I G + F + G Sbjct: 192 NADDPAFAKFAKRLPNKAILSFG-FEGGDFSAADISYSALGSTGFTLVAPGGEF------ 244 Query: 276 KDLSLPLIGEHNISNACASIAVAYKLGLSSEDVKKGLASFSGIKRRFTLVGVWNDVHVFD 335 ++SLPL+G HN+ NA A+ A+A +LG+ E++ +GLA +K RF + N + + D Sbjct: 245 -EVSLPLLGRHNVMNALAAAALALELGIPLEEIAEGLAELKLVKGRFEIQTK-NGLTLID 302 Query: 336 D-YGHHPIEISSVLAAVRQIC---PRKIIAI 362 D Y +P S+ AA+ P K I + Sbjct: 303 DTYNANP---DSMRAAL-DALARFPGKKILV 329 >gnl|CDD|179291 PRK01390, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 460 Score = 91.8 bits (229), Expect = 4e-19 Identities = 79/259 (30%), Positives = 114/259 (44%), Gaps = 36/259 (13%) Query: 85 AARERNIPII-----FRSEMLAGLMRCRKSISVSGTHGKTTTTSLIAALLEQGKFDPTVI 139 AR + +I F E A I+++GT+GK+TTT+LIA +L + D + Sbjct: 88 LARAAGVEVIGDIELFCRERRAHAPDAP-FIAITGTNGKSTTTALIAHILREAGRD-VQM 145 Query: 140 NGGIINSYGTNA----RIGTSEWIVVEADESDGTFIRLPS---DIVVVTNIDPEHLDYYG 192 G I GT V+E S PS D+ V+ N+ P+HLD +G Sbjct: 146 GGNI----GTAVLTLEPPPAGRVYVLEL--SSYQIDLAPSLDPDVGVLLNLTPDHLDRHG 199 Query: 193 DFNAIRAAFYKFIDNIPFYGFAVVCMDHPEVRSLIARIQ--NRKIITY-GRHPQADIRYS 249 AA + AV+ +D R++ R++ R+++ P AD Y+ Sbjct: 200 TMEGYAAAKERLFAGQG-PDTAVIGVDDAYCRAIADRLEAAGRRVVRISAGKPLADGVYA 258 Query: 250 NIRKYSGRSIFDVSVQGNVTK--DLTVIKDLSLPLIGEHNISNACASIAVAYKLGLSSED 307 + G + D G + DL I SLP G HN NA A+ A A LGLS E+ Sbjct: 259 D-----GGKLVDAR-GGRQVEIADLRGIP--SLP--GAHNAQNAAAAYAAARALGLSPEE 308 Query: 308 VKKGLASFSGIKRRFTLVG 326 + GLASF G+ R VG Sbjct: 309 IAAGLASFPGLAHRMEQVG 327 >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 = 86.8 bits (215), Expect = 1e-17 Identities = 101/375 (26%), Positives = 154/375 (41%), Gaps = 46/375 (12%) Query: 110 ISVSGTHGKTTTTSLIAALLEQ-GK-FDPTVINGGIINSY------GTNARIG------- 154 +SV+GT+GKTTTT L+A +L+Q GK T +G I Y T Sbjct: 482 VSVTGTNGKTTTTRLVAHILKQTGKVVGMTTTDGVYIGKYLVEKGDNTGPASARRILMDP 541 Query: 155 TSEWIVVEADESDGTFIRL-----PSDIVVVTNIDPEHLDYYGDFNAI-RAAFYK--FID 206 T + V+E G +R D+ VVTNI +HL GD N I A K ++ Sbjct: 542 TVDAAVLETAR--GGILREGLAFDRCDVGVVTNIAGDHLGI-GDINTIEDLADVKRVVVE 598 Query: 207 NIPFYGFAVVCMDHPEVRSLIARIQNRKIITYGRHPQADIRYSNIRK------YSGRSIF 260 + G+AV+ D P V ++ A KI + P ++I Y I Sbjct: 599 VVLPDGYAVLNADDPMVAAM-AEKCKGKIAYFSMDPNNPTVAAHIADGGRAVYYENGYI- 656 Query: 261 DVSVQGNVTKDLTVIKDLSLPLIGE--HNISNACASIAVAYKLGLSSEDVKKGLASF--- 315 V +G + I + L + G I NA A++A A+ LG+ E ++ G+ +F Sbjct: 657 -VIARGGDEVAIARIAAIPLTMGGRVAFQIENALAAVAAAWALGVPIELIRAGIRTFDAD 715 Query: 316 -SGIKRRFTLVGVWNDVHVFDDYGHHPIEISSVLAAVRQICPRKIIAIHQPHRYSRLSTL 374 + RF L + HV DYGH+P I +V AA+R R+ I + R L Sbjct: 716 AAQAPGRFNLFNL-GGAHVLVDYGHNPAAIEAVGAAIRNWPARRRIGVIGGPGDRRDEDL 774 Query: 375 FDQFSSCFGDADIVLISPVYSAGEKEIPGFSSPELVKNIKLQGHPQAYYMDSFDHLVS-- 432 +Q G D +++ + P + L++ Q +A D D + Sbjct: 775 VEQGELLGGAFDQIILKE--DDDVRGRPRGEAAALLRQGLRQSARKAAIEDILDETEAIA 832 Query: 433 KILAIAEPGDFIIFF 447 L GD ++ F Sbjct: 833 AALDDLRAGDLVVIF 847 >gnl|CDD|179323 PRK01710, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 458 Score = 77.8 bits (192), Expect = 6e-15 Identities = 95/370 (25%), Positives = 160/370 (43%), Gaps = 51/370 (13%) Query: 13 VGIGGIGMSGIA--EVLHNTGHQVQGSD----VILGPNVQRLHKQGIKVSIGHK-VENID 65 V + GIG+S I + L G +V D LG L + G+K+ +G ++ +D Sbjct: 17 VAVVGIGVSNIPLIKFLVKLGAKVTAFDKKSEEELGEVSNELKELGVKLVLGENYLDKLD 76 Query: 66 NAEILVLSTAIDKDNVECIAARERNIPIIFRSEMLAGLMRCR-KSISVSGTHGKTTTTSL 124 +++ + ++ D+ E + A+E I SEM + C K V+G+ GKTTTT+L Sbjct: 77 GFDVIFKTPSMRIDSPELVKAKEEGAYIT--SEMEEFIKYCPAKVFGVTGSDGKTTTTTL 134 Query: 125 IAALLEQGKFDPTVINGGIINSYGTNAR-IGTSEWIVVEADESDGTFIRLPSDIVVVTNI 183 I +L++ + T + G I +N I + +V+E + + ++ VVTN+ Sbjct: 135 IYEMLKEEGYK-TWVGGNIGTPLFSNIEEIKEEDKVVLELSSFQLMTMDVSPEVAVVTNL 193 Query: 184 DPEHLDYYGDFNAIRAAFYKFID---NIPFYGFAVVCMDHPEVRSLIARIQNRKIITYGR 240 P HLD + D ++ID NI Y E L+ N IT G Sbjct: 194 SPNHLDVHKDME-------EYIDAKKNIFKY--------QSENDLLVLNKDNE--ITNGM 236 Query: 241 HPQADIRYSNIRKYSGRSIF--DVSVQGN--VTKDLTVIKDLSLPLIGEHNISNACASIA 296 +A ++ K+S + ++ + V K + L G HN+ N A+ Sbjct: 237 EKEAK---GDVVKFSRKEKVYEGAYLKNGKLYIRGKEVCKKDDIKLKGMHNVENLLAAFC 293 Query: 297 VAYKLGLSSEDVKKGLASFSGIKRRFTLVGVWNDVHVFDDYGHHPIEISS----VLAAVR 352 A +S E +KK +FSG++ R V N V ++D I+S LA ++ Sbjct: 294 -AVNDDVSIESMKKVATTFSGVEHRCEFVREINGVKYYND------SIASSPTRTLAGLK 346 Query: 353 QICPRKIIAI 362 + +I I Sbjct: 347 AF-EKPVILI 355 >gnl|CDD|167786 PRK04308, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 445 Score = 74.9 bits (184), Expect = 4e-14 Identities = 85/340 (25%), Positives = 136/340 (40%), Gaps = 41/340 (12%) Query: 13 VGIGGIGMSGIAEVLHNTGHQVQGSDVILGPNVQRLHK--QGIKVSIGHKVENIDN-AEI 69 G+GG G+S IA + N + V ++ K G+ G + +DN +I Sbjct: 11 AGLGGTGISMIAYLRKNGAEVAAYDAELKPERVAQIGKMFDGLVFYTGRLKDALDNGFDI 70 Query: 70 LVLSTAIDKDNVECIAARERNIPIIFRSEMLAGLMRCR--KSISVSGTHGKTTTTSLIAA 127 L LS I + + A ++ ++ E+LA ++ R K I+++G++GKTT TSL+ Sbjct: 71 LALSPGISERQPDIEAFKQNGGRVLGDIELLADIVNRRGDKVIAITGSNGKTTVTSLVGY 130 Query: 128 LLEQGKFDPTVINGGIINSYGTN------ARIGTSE--WIVVEADESDGTFIRLPSDIVV 179 L + D TVI G I GT R G W++ + L Sbjct: 131 LCIKCGLD-TVIAGNI----GTPVLEAELQREGKKADVWVLELSSFQLENTESLRPTAAT 185 Query: 180 VTNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHPEVRSLIARIQNRKIITYG 239 V NI +HLD Y D K G V+ D R++ R R++ + Sbjct: 186 VLNISEDHLDRYDDLLDYAHTKAKIFRG---DGVQVLNADDAFCRAM-KRAG-REVKWFS 240 Query: 240 RHPQADI---RYSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLSLPLIGEHNISNACASIA 296 +AD R + K + +PL G HN +N A++A Sbjct: 241 LEHEADFWLERETGRLKQGNEDLIATQ---------------DIPLQGLHNAANVMAAVA 285 Query: 297 VAYKLGLSSEDVKKGLASFSGIKRRFTLVGVWNDVHVFDD 336 + +GL E + + + +F G+ R +G N V DD Sbjct: 286 LCEAVGLPREALLEHVKTFQGLPHRVEKIGEKNGVVFIDD 325 >gnl|CDD|179297 PRK01438, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 480 Score = 74.7 bits (184), Expect = 5e-14 Identities = 80/364 (21%), Positives = 132/364 (36%), Gaps = 72/364 (19%) Query: 13 VGIGGIGMSGI--AEVLHNTGHQV----QGSDVILGPNVQRLHKQGIKVSIGHKVENIDN 66 V + G+G+SG A+ L G +V G D L G V +G ++ Sbjct: 19 VVVAGLGVSGFAAADALLELGARVTVVDDGDDERHRALAAILEALGATVRLGPGPTLPED 78 Query: 67 AEILVLSTAIDKDNVECIAARERNIPIIFRSEM---LAGLMRCRKSISVSGTHGKTTTTS 123 +++V S D AA + IP+ E+ L R ++V+GT+GKTTT Sbjct: 79 TDLVVTSPGWRPDAPLLAAAADAGIPVWGEVELAWRLRDPDRPAPWLAVTGTNGKTTTVQ 138 Query: 124 LIAALLEQGKFDPTVINGGIINSYGTNARIGTSEWIVVEADESDGTFIRLPSDIVVVT-- 181 ++A++L + IGT V++A + D++ V Sbjct: 139 MLASMLRAAGLRAAAV-----------GNIGTP---VLDAVRDPEGY-----DVLAVELS 179 Query: 182 ------------------NIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHPEV 223 N+ P+HLD++G A AA + + V + P Sbjct: 180 SFQLHWSPSVSPHSAAVLNLAPDHLDWHGSMEAYAAAKARIYEGT--TVACVYNVADPAT 237 Query: 224 RSLIAR---IQNRKIITYGRHPQADIRYSNIRKYSGRSIFD------VSVQGNVTK--DL 272 L+ ++ + I + S + D V+ T +L Sbjct: 238 EDLVEEADVVEGARAIGFT---------LGTPGPSQLGVVDGILVDRAFVEDRQTSALEL 288 Query: 273 TVIKDLSLPLIGEHNISNACASIAVAYKLGLSSEDVKKGLASFSGIKRRFTLVGVWNDVH 332 ++DL HNI+NA A+ A+A G+ V+ GL +F R V + V Sbjct: 289 ATLEDLRPA--APHNIANALAAAALARSFGVPPAAVRDGLRAFRPDAHRIEHVADADGVT 346 Query: 333 VFDD 336 DD Sbjct: 347 WVDD 350 >gnl|CDD|179359 PRK02006, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 498 Score = 73.5 bits (181), Expect = 1e-13 Identities = 78/286 (27%), Positives = 114/286 (39%), Gaps = 41/286 (14%) Query: 85 AARERNIPII----FRSEMLAGLMRCR---KSISVSGTHGKTTTTSLIAALLEQGKFDPT 137 AARER IP+ ++ LA L K ++++GT+GKTTTT+L L E+ Sbjct: 92 AARERGIPVWGEIELFAQALAALGASGYAPKVLAITGTNGKTTTTALTGLLCERAGKKVA 151 Query: 138 VINGGIINSYGTNA---RIGTSEWIVVEADESDG----TFIRLPSDIVVVTNIDPEHLDY 190 V G I+ + I V E T L D V NI +HLD+ Sbjct: 152 V--AGNISPAALDKLMEAIDAGALPDVWVLELSSFQLETTHTLAPDAATVLNITQDHLDW 209 Query: 191 YGDFNAIRAAFYK-FIDNIPFYGFAVVCMDHPEVRSLIARIQNRKIITYGRH-PQADIRY 248 +G A AA + F V+ D V ++ +T+G P AD Y Sbjct: 210 HGSMAAYAAAKARIFGPR----TVRVLNRDDARVMAMAPPGGAADAVTFGLDEPAADGDY 265 Query: 249 SNIRKYSG---------RSIFDVSVQGNVTKDLTVIKDLS---------LPLIGEHNISN 290 +R +G R D + KD D+ L + G HN +N Sbjct: 266 GLLRD-NGMAWLVEAEDRDAADPAPSRRRKKDAAPPPDIRLKRLMPADALRIRGLHNAAN 324 Query: 291 ACASIAVAYKLGLSSEDVKKGLASFSGIKRRFTLVGVWNDVHVFDD 336 A A++A+A +GL + + GL + G R LV + V +DD Sbjct: 325 ALAALALARAIGLPAAPLLHGLREYRGEPHRVELVATIDGVDYYDD 370 >gnl|CDD|184454 PRK14016, PRK14016, cyanophycin synthetase; Provisional. Length = 727 Score = 72.1 bits (178), Expect = 3e-13 Identities = 71/235 (30%), Positives = 111/235 (47%), Gaps = 33/235 (14%) Query: 110 ISVSGTHGKTTTTSLIAALLEQ-GKF------DPTVINGGII----NSYGTNARI----G 154 ++V+GT+GKTTTT LIA +L+ GK D I+G +I + +AR Sbjct: 483 VAVTGTNGKTTTTRLIAHILKLSGKRVGMTTTDGVYIDGRLIDKGDCTGPKSARRVLMNP 542 Query: 155 TSEWIVVEADESDGTFIR--LP---SDIVVVTNIDPEHLDYYGDFNAIRAAFYK--FIDN 207 E V+E G +R L D+ VVTNI +HL G A K ++ Sbjct: 543 DVEAAVLETAR--GGILREGLAYDRCDVGVVTNIGEDHLGLGGINTLEDLAKVKRVVVEA 600 Query: 208 IPFYGFAVVCMDHPEVRSLIARIQNRKIITYGRHPQADIRYSNIRKYSGRSIF---D--V 262 + G+AV+ D P V ++ R + K+I + P + + + GR+++ D V Sbjct: 601 VKPDGYAVLNADDPMVAAMAERCKG-KVIFFSMDPDNPVIAEHRAQ-GGRAVYVEGDYIV 658 Query: 263 SVQGNVTKDLTVIKDLSLPLIG--EHNISNACASIAVAYKLGLSSEDVKKGLASF 315 +G + + D+ L L G NI NA A+IA A+ LG+ E ++ GL +F Sbjct: 659 LAEGGWEIRIISLADIPLTLGGKAGFNIENALAAIAAAWALGIDIELIRAGLRTF 713 >gnl|CDD|179650 PRK03803, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 448 Score = 71.1 bits (175), Expect = 6e-13 Identities = 78/347 (22%), Positives = 138/347 (39%), Gaps = 58/347 (16%) Query: 13 VGIGGIGMSGIAEVLHNTGHQVQGSDVILGP----NVQRLHKQGIKVSIGH-KVENIDNA 67 VG+G G+S + L G D P + R +++ G E + A Sbjct: 12 VGLGKTGLS-VVRFLARQGIPFAVMDSREQPPGLDTLAR-EFPDVELRCGGFDCELLVQA 69 Query: 68 EILVLSTAIDKDNVECIAARERNIPIIFRSEMLAGLMRCRKS--ISVSGTHGKTTTTSLI 125 +++S + D AA I +I E+ A R K+ I+++G++GK+T T+L+ Sbjct: 70 SEIIISPGLALDTPALRAAAAMGIEVIGDIELFA---REAKAPVIAITGSNGKSTVTTLV 126 Query: 126 AALLEQ-GKFDPTVINGGIINSYGTNARIGTSEWIVVE--ADESDGTFIRLPS------- 175 + + GK V GG IGT ++ +D+ + + L S Sbjct: 127 GEMAKAAGK---RVAVGG---------NIGTP---ALDLLSDDPELYVLELSSFQLETTH 171 Query: 176 --DIVVVT--NIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHPEVRSLIARIQ 231 + V T NI +H+D Y D A A ++ V D R L+ Sbjct: 172 SLNAEVATVLNISEDHMDRYSDLEAYHQAKHRIYRGA---KQVVFNRDDALTRPLVPD-- 226 Query: 232 NRKIITYGRH-PQADIRYSNIRKYSGRSIFDVSVQGNVTKDLT-VIKDLSLPLIGEHNIS 289 N+ +++G + P D + + + + ++ L L G HN++ Sbjct: 227 NQPCLSFGLNAPDFD----------EWGLREGDGETYLAHGFERLMPVRELKLRGSHNLA 276 Query: 290 NACASIAVAYKLGLSSEDVKKGLASFSGIKRRFTLVGVWNDVHVFDD 336 NA A++A+ GL E + + L +F+G+ R V V ++D Sbjct: 277 NALAALALGEAAGLPKEAMLEVLRTFTGLPHRCEWVREVAGVDYYND 323 >gnl|CDD|179872 PRK04690, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 468 Score = 70.6 bits (173), Expect = 9e-13 Identities = 71/305 (23%), Positives = 121/305 (39%), Gaps = 57/305 (18%) Query: 55 VSIGHKVENIDNAEILVLSTAIDKDNVECIAARERNIPII-----FRSEMLAGLMRCRKS 109 V + + +++V S I E +AA R P I + +E A + Sbjct: 58 VETEASAQRLAAFDVVVKSPGISPYRPEALAAAARGTPFIGGTALWFAEHAARDGVVPGT 117 Query: 110 ISVSGTHGKTTTTSLIAALLEQGKFDPTVINGGIINSYGT-----NARIGTSEWIVVEAD 164 + V+GT GK+TTT+L+A LL T + G I G A E+ +E Sbjct: 118 VCVTGTKGKSTTTALLAHLLRAAG-HRTALVGNI----GVPLLEVLAPQPAPEYWAIELS 172 Query: 165 E---SDGTFIRLPSDIVVVTNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHP 221 D ++ VV N+ PEHLD++G A +Y+ D + ++V P Sbjct: 173 SYQTGDVARSGARPELAVVLNLFPEHLDWHGG----EARYYR--DKL-----SLVTEGRP 221 Query: 222 EVRSLIARIQNRKIITYGRHPQADIRYSNIRK---------YSG-RSIFDVSVQGNVTKD 271 + L A + ++ + P +++ + N Y G +++FD ++ Sbjct: 222 RIALLNA--ADPRLAAL-QLPDSEVVWFNHPDGWHVRGDVVYRGEQALFDTAL------- 271 Query: 272 LTVIKDLSLPLIGEHNISNACASIAVAYKLGLSSEDVKKGLASFSGIKRRFTLVGVWNDV 331 +PL G HN N CA +A LGL + + A F + R +G + + Sbjct: 272 --------VPLPGRHNRGNLCAVLAALEALGLDAVALAPAAAGFRPLPNRLQELGSRDGI 323 Query: 332 HVFDD 336 +D Sbjct: 324 TYVND 328 >gnl|CDD|178896 PRK00141, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 473 Score = 64.0 bits (156), Expect = 7e-11 Identities = 78/349 (22%), Positives = 134/349 (38%), Gaps = 52/349 (14%) Query: 13 VGIGGIGMSG--IAEVLHNTGHQVQGSDVILGPNVQRLHK-----QGIKVSIGHKVENID 65 V + G G+SG IA +L G V V+ N HK +S + +D Sbjct: 18 VLVAGAGVSGRGIAAMLSELGCDV----VVADDNETARHKLIEVTGVADISTAEASDQLD 73 Query: 66 NAEILVLSTAIDKDNVECIAARERNIPIIFRSEMLAGLMRC------RKSISVSGTHGKT 119 + ++V S D+ + A+ + + +I E+ L + R ++V+GT+GKT Sbjct: 74 SFSLVVTSPGWRPDSPLLVDAQSQGLEVIGDVELAWRLDQAGVFGEPRTWLAVTGTNGKT 133 Query: 120 TTTSLIAALLEQGKFDPTVINGGIINSYGTNARIGTSEWIVVEADESDGTFI-------- 171 TTT+++AA++++G F + IG + A + Sbjct: 134 TTTAMLAAMMQEGGFAAQAV-----------GNIGVPVSAALVAQPRIDVLVAELSSFQL 182 Query: 172 ----RLPSDIVVVTNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHPEVRSLI 227 L D+ VV N+ +H+D++G A K + AV+ D V L Sbjct: 183 HWSPTLTPDVGVVLNLAEDHIDWHGSMRDYAADKAKVLRG----PVAVIGADDEYVVQLT 238 Query: 228 ARIQNRKIITYGRHPQADIRYSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLSLPLIGEHN 287 + +I + A +R G + + Q V I S G Sbjct: 239 SAADLSGLIGFTMGEPAA-GQVGVR--DGELVDNAFGQNVVLASAEGI---SPA--GPAG 290 Query: 288 ISNACASIAVAYKLGLSSEDVKKGLASFSGIKRRFTLVGVWNDVHVFDD 336 + +A A+ AVA G++ E + + L+SF R +V V D+ Sbjct: 291 VLDALAAAAVARSQGVAPEAIARALSSFEVAGHRGQVVAEHGGVTWIDN 339 >gnl|CDD|184459 PRK14022, PRK14022, UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional. Length = 481 Score = 54.7 bits (132), Expect = 6e-08 Identities = 65/293 (22%), Positives = 111/293 (37%), Gaps = 70/293 (23%) Query: 108 KSISVSGTHGKTTTTSLIAALLEQGKFDPTVI---NGGIINSYGTNARIGTSEWI----- 159 K ++ +GT GKTT +L+Q P ++ N + + + T E + Sbjct: 111 KLLAFTGTKGKTTAAYFAYHILKQLH-KPAMLSTMNTTLDGETFFKSALTTPESLDLFKM 169 Query: 160 VVEADESDGTFI---------------RLPSDIVVVTNIDPEHLDYYGDFNAIRAAFYKF 204 + EA ++ T + L D+ V NI P+H+ Sbjct: 170 MAEAVDNGMTHLIMEVSSQAYLVGRVYGLTFDVGVFLNITPDHIG--------------P 215 Query: 205 IDNIPF--YGF----------AVVC---MDHPEVRSLIARIQNRKIITYGRHPQADIRYS 249 I++ F Y + AVV MDH L+ ++ ++ YG + I S Sbjct: 216 IEHPTFEDYFYHKRLLMENSKAVVVNSDMDHFSE--LLEQVTPQEHDFYGIDSENQIMAS 273 Query: 250 NIRKYSGRSIFDVSVQGNVTKDLTVIKDLSLPLIGEHNISNACASIAVAYKLGLSSEDVK 309 N F G + + LIG+ N NA A+ +LG S ED++ Sbjct: 274 NA--------FSFEATGKL------AGTYDIQLIGKFNQENAMAAGLACLRLGASLEDIQ 319 Query: 310 KGLASFSGIKRRFTLVGVWNDVHVFDDYGHHPIEISSVLAAVRQICPRKIIAI 362 KG+A + R ++ N VF DY H+ ++ ++ V + K+I + Sbjct: 320 KGIAQTP-VPGRMEVLTQSNGAKVFIDYAHNGDSLNKLIDVVEEHQKGKLILL 371 >gnl|CDD|179871 PRK04663, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 438 Score = 50.2 bits (120), Expect = 1e-06 Identities = 73/367 (19%), Positives = 143/367 (38%), Gaps = 56/367 (15%) Query: 5 QGMGPIHFVGIGGIGMSGIAEVLHNTGHQVQGS-DVI----LGPNVQRLHKQGIKVSIGH 59 I V + G+G++G++ V H +Q Q + VI P ++L + S G Sbjct: 2 DRWQGIKNVVVVGLGITGLSVVKHLRKYQPQLTVKVIDTRETPPGQEQLPEDVELHSGGW 61 Query: 60 KVENIDNAEILVLSTAIDKDNVECIAARERNIPIIFRSEMLAGLMRCRKSISVSGTHGKT 119 +E + A+++V + I E IP++ E+ A + + I+++G++GK+ Sbjct: 62 NLEWLLEADLVVTNPGIALATPEIQQVLAAGIPVVGDIELFAWAVD-KPVIAITGSNGKS 120 Query: 120 TTTSLIAALLEQGKFDPTVINGGIINSYGTNARIGTSEWIVVEAD-----------ESDG 168 T T L + + G+ + G N + + + +A+ E+ Sbjct: 121 TVTDLTGVMAKAA---------GVKVAVGGNIGVPALDLLEQDAELYVLELSSFQLETTS 171 Query: 169 TFIRLPSDIVVVTNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMD----HPEVR 224 + L N+ +H+D Y R A + D+ AVV D +P+ Sbjct: 172 S---LKLKAAAFLNLSEDHMDRYQGMEDYRQAKLRIFDHAEL---AVVNRDDKQTYPDHA 225 Query: 225 SLIARIQNRKIITYGRHPQADIRYSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLSLPLIG 284 L +++T+G Q + + + D V+ L L+G Sbjct: 226 EL-------QLVTFGFDQQD---FGLAQHQGREWLAD--------NGQPVLASAELKLVG 267 Query: 285 EHNISNACASIAVAYKLGLSSEDVKKGLASFSGIKRRFTLVGVWNDVHVFDDYGHHPIEI 344 HN++N +A+ G+ L S++G+ R +V + + +D + Sbjct: 268 RHNVANVLVVLALLDAAGVDYRKALDALKSYTGLTHRCQVVADNHGIKWVND--SKATNV 325 Query: 345 SSVLAAV 351 +S LAA+ Sbjct: 326 ASTLAAL 332 >gnl|CDD|179651 PRK03806, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 438 Score = 49.6 bits (119), Expect = 2e-06 Identities = 68/287 (23%), Positives = 122/287 (42%), Gaps = 55/287 (19%) Query: 66 NAEILVLSTAIDKDNVECIAARERNIPIIFRSEMLAGLMRCRKS----ISVSGTHGKTTT 121 A+++V S I + AA + I I+ E+ CR++ ++++G++GK+T Sbjct: 65 AADLIVASPGIALAHPSLSAAADAGIEIVGDIELF-----CREAQAPIVAITGSNGKSTV 119 Query: 122 TSLIAALLEQGKFDPTVINGGIINSYGTNARIG---------TSEWIVVEAD--ESDGTF 170 T+L+ + + G G N IG E V+E + + T Sbjct: 120 TTLVGEMAKAA---------GWKVGVGGN--IGLPALSLLDQECELYVLELSSFQLETTS 168 Query: 171 IRLPSDIVVVTNIDPEHLD-YYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHPEVRSLIAR 229 L + + N+ +H+D Y RAA + +N VV D ++ R Sbjct: 169 -SLKAAAATILNVTEDHMDRYPFGLQQYRAAKLRIYENAKV---CVVNADDAL--TMPIR 222 Query: 230 IQNRKIITYGRHPQADIRYSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLSLPLIGEHNIS 289 +++ +++G + D + + G + V K V+ + L G+HN + Sbjct: 223 GADKRCVSFGVN-MGDYH---LNRQQGETWLRV-------KGEKVLNTKEMKLSGQHNYT 271 Query: 290 NACASIAVAYKLGLSSEDVKKGLASFSGIKRRFTLV----GV-W-ND 330 NA A++A+A +G+ K L +F+G+ RF LV GV W ND Sbjct: 272 NALAALALADAVGIPRASSLKALTTFTGLPHRFQLVLEHNGVRWIND 318 >gnl|CDD|184501 PRK14093, PRK14093, UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional. Length = 479 Score = 49.4 bits (118), Expect = 2e-06 Identities = 58/248 (23%), Positives = 105/248 (42%), Gaps = 37/248 (14%) Query: 83 CIAARER------NIPIIFRSEMLAGLM------RCR---KSISVSGTHGKTTTT-SLIA 126 + R + + P++ ++LA L R R K I+V+G+ GKT+T +L Sbjct: 69 AVVERAQRDKFAADAPLLVVDDVLAALRDLGRAARARLEAKVIAVTGSVGKTSTKEALRG 128 Query: 127 ALLEQGKFDPTVINGGIINSYGT---------NARIGTSEWIVVEADESDGTFIRLPSDI 177 L QG+ +V N +G +AR E + A E + + + Sbjct: 129 VLGAQGETHASV--ASFNNHWGVPLSLARCPADARFAVFEIGMNHAGEIEPLVKMVRPHV 186 Query: 178 VVVTNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHPEVRSLIARIQNR---K 234 ++T ++P HL+++ AI A + + G AV+ D+P+ L A + + Sbjct: 187 AIITTVEPVHLEFFSGIEAIADAKAEIFTGLEPGGAAVLNRDNPQFDRLAASARAAGIAR 246 Query: 235 IITYGRHPQADIRYSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLSLPLIGEHNISNACAS 294 I+++G +AD R ++ ++ S + G+ V L +P G H N+ A Sbjct: 247 IVSFGADEKADARLLDVALHADCSAVHADILGH-----DVTYKLGMP--GRHIAMNSLAV 299 Query: 295 IAVAYKLG 302 +A A G Sbjct: 300 LAAAELAG 307 >gnl|CDD|179571 PRK03369, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 488 Score = 47.0 bits (112), Expect = 1e-05 Identities = 60/237 (25%), Positives = 98/237 (41%), Gaps = 27/237 (11%) Query: 107 RKSISVSGTHGKTTTTSLIAALLEQGKFDPTVINGGIINSYGTNARIGTSEWIVVEADES 166 R+ + V+GT+GKTTTTS++ A+L +V+ G I + + +E + VE S Sbjct: 117 RRWLVVTGTNGKTTTTSMLHAMLIAAGR-RSVLCGNIGSPV-LDVLDEPAELLAVEL--S 172 Query: 167 DGTFIRLPS---DIVVVTNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMDHPEV 223 PS + V NI +HLD++G A AA + + AVV +D Sbjct: 173 SFQLHWAPSLRPEAGAVLNIAEDHLDWHGTMAAYAAAKARALTG----RVAVVGLDDSRA 228 Query: 224 RSLIARIQNRKIITYGRHPQADIRYSNIRKYSGRSIFDVS----VQGNVTKDLTVIKDLS 279 +L+ A +R V V DL + S Sbjct: 229 AALLDT------------APAPVRVGFRLGEPAAGELGVRDGHLVDRAFADDLRLAPVAS 276 Query: 280 LPLIGEHNISNACASIAVAYKLGLSSEDVKKGLASFSGIKRRFTLVGVWNDVHVFDD 336 +P+ G + +A A+ A+A +G+ + + LASF + R +V V + + DD Sbjct: 277 IPVPGPVGVLDALAAAALARAVGVPAGAIADALASFRVGRHRAEVVAVADGITYVDD 333 >gnl|CDD|182718 PRK10773, murF, UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed. Length = 453 Score = 44.3 bits (105), Expect = 8e-05 Identities = 20/45 (44%), Positives = 29/45 (64%) Query: 277 DLSLPLIGEHNISNACASIAVAYKLGLSSEDVKKGLASFSGIKRR 321 D+ LPL G HNI+NA A+ A+A +G + + VK GLA+ + R Sbjct: 273 DVLLPLPGRHNIANALAAAALAMSVGATLDAVKAGLANLKAVPGR 317 >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 = 43.8 bits (104), Expect = 9e-05 Identities = 61/316 (19%), Positives = 113/316 (35%), Gaps = 86/316 (27%) Query: 108 KSISVSGTHGKTTTTSLIAALLEQ-----GKF---------DPTVINGGIIN-SYGTNA- 151 I V+GT+GK +T + + ++L G F + ING I+ A Sbjct: 19 PVIHVAGTNGKGSTCAFLESILRAAGYKVGLFTSPHLVSFNERIRINGEPISDEELAQAF 78 Query: 152 -----------------RIGT-----------SEWIVVEAD---ESDGTFIRLPSDIVVV 180 + T + V+E D T + + + V+ Sbjct: 79 EQVRPILEKLSQQPTYFELLTLLAFLYFAQAQVDVAVLEVGLGGRLDATNV-IEPLVSVI 137 Query: 181 TNIDPEHLDYYGDFNAIRA-AFYK---FIDNIPFYGFAVVCMDHPEVRSLIARIQNRK-- 234 T+I +H + G + + A+ K + +P V PE +++ + K Sbjct: 138 TSIGLDHTEILG--DTLEEIAWEKAGIIKEGVP----IVTGPQEPEALNVLKKKAQEKGA 191 Query: 235 -IITYGRHPQADIRYSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLSLPLIGEHNISNACA 293 + GR D YS + + ++ L+L L+G+H NA Sbjct: 192 PLFVVGR----DFNYSETD----------ENYLSFSGANLFLEPLALSLLGDHQAENAAL 237 Query: 294 SIAVAYKLG-----LSSEDVKKGLASFS--GIKRRFTLVGVWNDVHVFDDYGHHPIEISS 346 ++A LG LS E ++KGLA+ G R ++ N ++ D H+P + Sbjct: 238 ALAALEVLGKQRPKLSEEAIRKGLANTIWPG---RLEILSEDN-PNILLDGAHNPHSAEA 293 Query: 347 VLAAVRQICPRKIIAI 362 + ++ + I + Sbjct: 294 LAEWFKKRFNGRPIIL 309 >gnl|CDD|179086 PRK00683, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 418 Score = 43.6 bits (103), Expect = 1e-04 Identities = 32/123 (26%), Positives = 57/123 (46%), Gaps = 18/123 (14%) Query: 17 GIGMSG--IAEVLHNTGHQVQGSDVILGP--NVQRLHKQGIKVSIGHKVENIDNAEILVL 72 G+G++G IA L G V G D L + +H++ ++ + E +D ++V Sbjct: 10 GLGVTGKSIARFLAQKGVYVIGVDKSLEALQSCPYIHERYLE-NAEEFPEQVD---LVVR 65 Query: 73 STAIDKDNVECIAARERNIPII------FRSEMLAGLMRCRKSISVSGTHGKTTTTSLIA 126 S I K++ AA +IP++ F++ S+ ++G+ GKTTT + Sbjct: 66 SPGIKKEHPWVQAAIASHIPVVTDIQLAFQTPEFTR----YPSLGITGSTGKTTTILFLE 121 Query: 127 ALL 129 LL Sbjct: 122 HLL 124 >gnl|CDD|179652 PRK03815, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional. Length = 401 Score = 43.0 bits (102), Expect = 1e-04 Identities = 34/101 (33%), Positives = 47/101 (46%), Gaps = 28/101 (27%) Query: 108 KSISVSGTHGKTTTTSLIAALLEQGKFDPTVINGGIINSYGT-------NARIGTSEWIV 160 SI +SGT+GKTTTT + LLE F V G I GT NA+I W++ Sbjct: 90 FSIWISGTNGKTTTTQMTTHLLE--DFG-AVSGGNI----GTPLAELDKNAKI----WVL 138 Query: 161 VEADESDG-----TFIRLPSDIVVVTNIDPEHLDYYGDFNA 196 E+ T P +I ++ I P+HL ++G F Sbjct: 139 ----ETSSFTLHYTNKAKP-NIYLLLPITPDHLSWHGSFEN 174 >gnl|CDD|182167 PRK09956, PRK09956, hypothetical protein; Provisional. Length = 308 Score = 32.0 bits (72), Expect = 0.34 Identities = 15/57 (26%), Positives = 28/57 (49%) Query: 23 IAEVLHNTGHQVQGSDVILGPNVQRLHKQGIKVSIGHKVENIDNAEILVLSTAIDKD 79 IAE L GHQ+ + L + +H+Q IK+++ + D ++L + + D Sbjct: 246 IAERLRQEGHQIGWQEGKLEGLQEGMHEQAIKIALRMLEQGFDRDQVLAATQLSEAD 302 >gnl|CDD|183673 PRK12676, PRK12676, bifunctional inositol-1 monophosphatase/fructose-1,6-bisphosphatase; Reviewed. Length = 263 Score = 31.0 bits (71), Expect = 0.68 Identities = 16/74 (21%), Positives = 27/74 (36%), Gaps = 23/74 (31%) Query: 142 GIINSYGTNARIGTSEWIVVEADESDGTFIRLPSDIVVVTNIDPEHLDYYGDFNAIRAAF 201 ++ G I + E + + + T + +DP LD G +NAI Sbjct: 56 EVLKPLGRCVNIISEELGEIVGNGPEYTVV-----------LDP--LD--GTYNAIN--- 97 Query: 202 YKFIDNIPFYGFAV 215 IPFY ++ Sbjct: 98 -----GIPFYAISI 106 >gnl|CDD|180588 PRK06487, PRK06487, glycerate dehydrogenase; Provisional. Length = 317 Score = 30.8 bits (70), Expect = 0.70 Identities = 20/56 (35%), Positives = 31/56 (55%), Gaps = 10/56 (17%) Query: 45 VQRLHKQGIKVSIGHKVENIDNAEI-------LVLSTAIDKDNVECIAARERNIPI 93 +RL +G +V+I +KV +D A + L+L A +NV+ AARER I + Sbjct: 40 AERL--RGAQVAISNKVA-LDAAALAAAPQLKLILVAATGTNNVDLAAARERGITV 92 >gnl|CDD|181132 PRK07818, PRK07818, dihydrolipoamide dehydrogenase; Reviewed. Length = 466 Score = 30.8 bits (70), Expect = 0.80 Identities = 26/78 (33%), Positives = 36/78 (46%), Gaps = 14/78 (17%) Query: 1 MLNPQGMGPIHFVGIGGIGMSGIAEVLHNTGHQV---QGSDVILGPN---------VQRL 48 +L+ + I G G IGM A VL N G V + D L PN ++ Sbjct: 166 ILSRELPKSIVIAGAGAIGME-FAYVLKNYGVDVTIVEFLDRAL-PNEDAEVSKEIAKQY 223 Query: 49 HKQGIKVSIGHKVENIDN 66 K G+K+ G KVE+ID+ Sbjct: 224 KKLGVKILTGTKVESIDD 241 >gnl|CDD|183386 PRK11930, PRK11930, putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional. Length = 822 Score = 30.7 bits (70), Expect = 0.89 Identities = 30/143 (20%), Positives = 60/143 (41%), Gaps = 18/143 (12%) Query: 176 DIVVVTNIDPEHLDYYGDFNAI---RAAFYKFIDNIPFYGFAVVCMDHPEVRSLIARI-Q 231 I ++TNI H + + + +K D I + D+ + S I + Sbjct: 184 TIGILTNIGGAHQENFRSIKQKIMEKLKLFKDCDVI------IYNGDNELISSCITKSNL 237 Query: 232 NRKIITYGR-HPQADIRYSNIRKYSGRSIFDVSVQGNVTKDLTVIKDLSLPLIGEHNISN 290 K+I++ R P+A + + K ++ + +G +D +P I + +I N Sbjct: 238 TLKLISWSRKDPEAPLYIPFVEKKEDHTVISYTYKG---EDFH----FEIPFIDDASIEN 290 Query: 291 ACASIAVAYKLGLSSEDVKKGLA 313 IAV LG S++ +++ +A Sbjct: 291 LIHCIAVLLYLGYSADQIQERMA 313 >gnl|CDD|162312 TIGR01350, lipoamide_DH, dihydrolipoamide dehydrogenase. The motif GGXCXXXGCXP near the N-terminus contains a redox-active disulfide. Length = 461 Score = 30.3 bits (69), Expect = 1.2 Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 12/63 (19%) Query: 13 VGIGGIGMSGIAEVLHNTGHQV---QGSDVILGPN-------VQR-LHKQGIKVSIGHKV 61 +G G IG+ A + + G +V + D IL V + L K+G+K+ KV Sbjct: 176 IGGGVIGIE-FASIFASLGSKVTVIEMLDRILPGEDAEVSKVVAKALKKKGVKILTNTKV 234 Query: 62 ENI 64 + Sbjct: 235 TAV 237 >gnl|CDD|184158 PRK13577, PRK13577, diaminopimelate epimerase; Provisional. Length = 281 Score = 30.0 bits (68), Expect = 1.3 Identities = 9/21 (42%), Positives = 15/21 (71%) Query: 289 SNACASIAVAYKLGLSSEDVK 309 S++CA+ AVA++LGL + Sbjct: 220 SSSCAAAAVAHRLGLCDSSIT 240 >gnl|CDD|172658 PRK14170, PRK14170, bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional. Length = 284 Score = 29.7 bits (66), Expect = 1.7 Identities = 20/71 (28%), Positives = 39/71 (54%), Gaps = 13/71 (18%) Query: 21 SGIAEVLHNTGHQVQG--------SDVILGPNVQRLHKQGIKVSIGH-KVENI----DNA 67 +GI E++ +TG Q++G S+++ P Q L + V+I H + +++ A Sbjct: 142 AGIIELIKSTGTQIEGKRAVVIGRSNIVGKPVAQLLLNENATVTIAHSRTKDLPQVAKEA 201 Query: 68 EILVLSTAIDK 78 +ILV++T + K Sbjct: 202 DILVVATGLAK 212 >gnl|CDD|180465 PRK06201, PRK06201, hypothetical protein; Validated. Length = 221 Score = 28.8 bits (65), Expect = 3.1 Identities = 14/37 (37%), Positives = 24/37 (64%), Gaps = 4/37 (10%) Query: 428 DHL-VSKILAIAEPGDFIIFFGAGNITQWAASLIGEL 463 D+L + + L +A PGD I+ G G++T +L+GE+ Sbjct: 66 DNLMIHRALDLARPGDVIVVDGGGDLTN---ALVGEI 99 >gnl|CDD|180018 PRK05327, rpsD, 30S ribosomal protein S4; Validated. Length = 203 Score = 28.2 bits (64), Expect = 4.5 Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 7/53 (13%) Query: 143 IINSYGTNARIGTSEWIVVEADESDGTFIRLP--SDIVVVTNIDPEHL--DYY 191 I + R G +W+ V+A++ +GTF RLP +I V N E L + Y Sbjct: 152 IKEALELAERRGVPDWLEVDAEKLEGTFKRLPEREEIPVPIN---EQLIVELY 201 >gnl|CDD|184119 PRK13532, PRK13532, nitrate reductase catalytic subunit; Provisional. Length = 830 Score = 28.3 bits (64), Expect = 4.6 Identities = 13/21 (61%), Positives = 16/21 (76%), Gaps = 4/21 (19%) Query: 168 GTFI-RLPSDIVVVTNIDPEH 187 GTF RLP+D+ VVTN P+H Sbjct: 423 GTFSHRLPADM-VVTN--PKH 440 >gnl|CDD|180722 PRK06840, PRK06840, hypothetical protein; Validated. Length = 339 Score = 28.0 bits (63), Expect = 4.9 Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 10/51 (19%) Query: 420 QAYYMDSFDHL--VSKILAIAE--------PGDFIIFFGAGNITQWAASLI 460 QA Y+D + HL + +IL++ GD ++ AG WAA++I Sbjct: 283 QAIYLDEYGHLGQLDQILSLHLALEQGKLKDGDLVVLVSAGTGYTWAATVI 333 >gnl|CDD|130080 TIGR01007, eps_fam, capsular exopolysaccharide family. This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes. Length = 204 Score = 28.2 bits (63), Expect = 4.9 Identities = 18/64 (28%), Positives = 28/64 (43%), Gaps = 6/64 (9%) Query: 111 SVSGTHGKTTTTSLIAALLEQGKFDPTVINGGIINSY------GTNARIGTSEWIVVEAD 164 SV GK+TT++ IA Q + +I+G + NS N G + ++ D Sbjct: 24 SVKPGEGKSTTSANIAVAFAQAGYKTLLIDGDMRNSVMSGTFKSQNKITGLTNFLSGTTD 83 Query: 165 ESDG 168 SD Sbjct: 84 LSDA 87 >gnl|CDD|162690 TIGR02082, metH, 5-methyltetrahydrofolate--homocysteine methyltransferase. S-methyltransferase (MetE, EC 2.1.1.14, the cobalamin-independent methionine synthase) and betaine-homocysteine methyltransferase. Length = 1178 Score = 28.2 bits (63), Expect = 4.9 Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 1/44 (2%) Query: 338 GHHPIEISSVLAAVRQICPRKIIAIHQPHRYSRLSTL-FDQFSS 380 G P I ++ AV+ I PR+ +++P R S L + Q S+ Sbjct: 299 GTTPDHIRAIAEAVKNIKPRQRPVLYEPSRLSGLEAITIAQDSN 342 >gnl|CDD|184937 PRK14974, PRK14974, cell division protein FtsY; Provisional. Length = 336 Score = 27.6 bits (62), Expect = 6.4 Identities = 27/95 (28%), Positives = 41/95 (43%), Gaps = 20/95 (21%) Query: 52 GIKVSIGHKVENIDNAEIL-----VLSTAIDKDNVECIAARERNIPIIFRSEMLAGLMRC 106 G KV G VE I + VLS D +E I ++ + + I+F Sbjct: 97 GKKVKRGEDVEEIVKNALKEALLEVLSVGDLFDLIEEIKSKGKPVVIVF----------- 145 Query: 107 RKSISVSGTHGKTTTTSLIAALLEQGKFDPTVING 141 + V+GT GKTTT + +A L++ F + G Sbjct: 146 ---VGVNGT-GKTTTIAKLAYYLKKNGFSVVIAAG 176 >gnl|CDD|163531 TIGR03819, heli_sec_ATPase, helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer. Length = 340 Score = 27.7 bits (62), Expect = 6.5 Identities = 11/31 (35%), Positives = 18/31 (58%), Gaps = 1/31 (3%) Query: 99 MLAGLMRCRKSISVSGTHGKTTTTSLIAALL 129 +L ++ R + +SG G TT L++ALL Sbjct: 170 LLRAIVAARLAFLISGGTGSGKTT-LLSALL 199 >gnl|CDD|131394 TIGR02341, chap_CCT_beta, T-complex protein 1, beta subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT beta chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes. Length = 519 Score = 27.5 bits (61), Expect = 7.2 Identities = 11/26 (42%), Positives = 18/26 (69%) Query: 64 IDNAEILVLSTAIDKDNVECIAARER 89 I+NA+IL+ +T +D D V+ +R R Sbjct: 223 IENAKILIANTPMDTDKVKVFGSRVR 248 >gnl|CDD|130089 TIGR01017, rpsD_bact, ribosomal protein S4, bacterial/organelle type. This model finds organelle (chloroplast and mitochondrial) ribosomal protein S4 as well as bacterial ribosomal protein S4. Length = 200 Score = 27.3 bits (61), Expect = 8.7 Identities = 12/51 (23%), Positives = 23/51 (45%), Gaps = 3/51 (5%) Query: 143 IINSYGTNARIGTSEWIVVEADESDGTFIRLPSDIVVVTNIDPEHL--DYY 191 + + TN + W+ V+ +G +R+P + I+ E L +YY Sbjct: 149 VKENLETNGQRNIPSWLEVDKKTLEGKVLRVPERSQLPLPIN-ESLVVEYY 198 >gnl|CDD|116359 pfam07745, Glyco_hydro_53, Glycosyl hydrolase family 53. This domain belongs to family 53 of the glycosyl hydrolase classification. These enzymes are enzymes are endo-1,4- beta-galactanases (EC:3.2.1.89). The structure of this domain is known and has a TIM barrel fold. Length = 332 Score = 27.3 bits (61), Expect = 9.4 Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 4/57 (7%) Query: 344 ISSVLAAVRQICPRKIIAIH--QPHRYSRLSTLFDQFSSCFGDADIVLIS--PVYSA 396 ++S AV+ + P + IH FD + D D++ +S P +S Sbjct: 156 LNSGYWAVKDVNPTIKVMIHLDNGEDNGTYRWWFDNLLAAGVDFDVIGVSYYPFWSG 212 >gnl|CDD|178304 PLN02701, PLN02701, alpha-mannosidase. Length = 1050 Score = 27.1 bits (60), Expect = 9.7 Identities = 14/34 (41%), Positives = 18/34 (52%) Query: 373 TLFDQFSSCFGDADIVLISPVYSAGEKEIPGFSS 406 TL D FS+ +AD + S G E+PGF S Sbjct: 338 TLEDYFSTLRDEADRINYSRPGEVGSGEVPGFPS 371 >gnl|CDD|183827 PRK12906, secA, preprotein translocase subunit SecA; Reviewed. Length = 796 Score = 27.0 bits (60), Expect = 9.8 Identities = 15/34 (44%), Positives = 20/34 (58%), Gaps = 6/34 (17%) Query: 36 GSDVILGPNVQRLHKQGIKVSIG---HKVENIDN 66 G+D+ LGP V+ L G+ V IG H+ IDN Sbjct: 501 GTDIKLGPGVKEL--GGLAV-IGTERHESRRIDN 531 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 0.139 0.412 Gapped Lambda K H 0.267 0.0711 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 8,035,327 Number of extensions: 539879 Number of successful extensions: 1329 Number of sequences better than 10.0: 1 Number of HSP's gapped: 1270 Number of HSP's successfully gapped: 93 Length of query: 474 Length of database: 5,994,473 Length adjustment: 97 Effective length of query: 377 Effective length of database: 3,898,497 Effective search space: 1469733369 Effective search space used: 1469733369 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 (26.5 bits)