RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780333|ref|YP_003064746.1| alanine racemase [Candidatus Liberibacter asiaticus str. psy62] (370 letters) >gnl|CDD|178827 PRK00053, alr, alanine racemase; Reviewed. Length = 363 Score = 282 bits (725), Expect = 8e-77 Identities = 123/379 (32%), Positives = 184/379 (48%), Gaps = 38/379 (10%) Query: 8 RLKIDLTALKNNWHSMNALS----GNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVT 63 +IDL AL++N + + ++ AVVK NAYG G ++A L AG F V Sbjct: 5 TAEIDLDALRHN---LRQIRKHAPPKSKLMAVVKANAYGHGAVEVAKTLLEAGADGFGVA 61 Query: 64 SVEEGVKLRLYTPQARIFVLYGIHPGQE-KIIFDTNLIPVISSVPQLTFYSKLMSCGVSH 122 ++EE ++LR A I +L G P ++ +I NL + S+ QL L + Sbjct: 62 TLEEALELREAGITAPILILGGFFPAEDLPLIIAYNLTTAVHSLEQL---EALEKAELGK 118 Query: 123 PYA--LQVDTGFNRLGLSLQEALDFTHNSFN--KKLGQLSL--IISHLACADDPSSHVNS 176 P L++DTG +RLG+ +EA + L I SH A AD+P + Sbjct: 119 PLKVHLKIDTGMHRLGVRPEEAEAA----LERLLACPNVRLEGIFSHFATADEPDNSYTE 174 Query: 177 VQLERFRTLISHYKG---IEASLASSSGILLGPNYHFQLTRPGISLYGG---TDKINKSH 230 QL RF ++ G LA+S+ IL P+ HF RPGI+LYG + + Sbjct: 175 QQLNRFEAALAGLPGKGKPLRHLANSAAILRWPDLHFDWVRPGIALYGLSPSGEPLGLDF 234 Query: 231 PMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEH 290 ++ +T ++ +I +R+ AGE V YGG RD+ IAV IGYADGYP L Sbjct: 235 GLKPAMTLKSSLIAVRELKAGEGVGYGGTFTAERDTRIAVVPIGYADGYPRNLPS----- 289 Query: 291 SPSVFLGGKGFIKGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIFGPDIKLDDVALAS 350 G + G VPI+G+++MD D+ +VGD + ++G + +DVA Sbjct: 290 ------GTPVLVNGRRVPIVGRVSMDQLTVDLGPDPQDKVGDEVTLWGEALTAEDVAEII 343 Query: 351 GTTNYDLLVRIGTRYAKFY 369 GT NY+LL ++ R + Y Sbjct: 344 GTINYELLCKLSPRVPRVY 362 >gnl|CDD|129583 TIGR00492, alr, alanine racemase. This enzyme interconverts L-alanine and D-alanine. Its primary function is to generate D-alanine for cell wall formation. With D-alanine-D-alanine ligase, it makes up the D-alanine branch of the peptidoglycan biosynthetic route. It is a monomer with one pyridoxal phosphate per subunit. In E. coli, the ortholog is duplicated so that a second isozyme, DadX, is present. DadX, a paralog of the biosynthetic Alr, is induced by D- or L-alanine and is involved in catabolism. Length = 367 Score = 225 bits (576), Expect = 1e-59 Identities = 131/372 (35%), Positives = 190/372 (51%), Gaps = 23/372 (6%) Query: 10 KIDLTALKNNWHSM-NALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEEG 68 +IDL ALK+N ++ N + ++ AVVK NAYG G ++A L AG F V ++EE Sbjct: 6 EIDLAALKHNLSAIRNHIGPKSKIMAVVKANAYGHGLIEVAKTLLQAGADYFGVANLEEA 65 Query: 69 VKLRLYTPQARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSK-LMSCGVSHPYALQ 127 + LR A I +L G KI+ +L + SV QL + L+ L+ Sbjct: 66 ITLRKAGITAPILLLGGFFAEDLKILAAWDLTTTVHSVEQLQALEEALLKEPKRLKVHLK 125 Query: 128 VDTGFNRLGLSLQEALDFTHNSF-NKKLGQLSLIISHLACADDPSSHVNSVQLERFRTLI 186 +DTG NRLG+ EA F KK +L I SH A AD+P + Q+ERF + + Sbjct: 126 IDTGMNRLGVKPDEAALFVQKLRQLKKFLELEGIFSHFATADEPKTGTTQKQIERFNSFL 185 Query: 187 SHYKG--IEA---SLASSSGILLGPNYHFQLTRPGISLYG--GTDKINKSHP--MQTVVT 237 K IE +A+S+ IL P HF + RPGI LYG + ++ P ++ V++ Sbjct: 186 EGLKQQNIEPPFRHIANSAAILNWPESHFDMVRPGIILYGLYPSADMSDGAPFGLKPVLS 245 Query: 238 AEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVFLG 297 ++II +R GE VSYGG D+ I V AIGYADGYP LS G Sbjct: 246 LTSKIIQVRTVKKGEPVSYGGTFTAEEDTRIGVVAIGYADGYPRALSN-----------G 294 Query: 298 GKGFIKGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIFGPDIKLDDVALASGTTNYDL 357 + G VPI+G++ MDM M D+ L + GD + ++G +I +D++A GT Y+L Sbjct: 295 TPVLVNGKRVPIVGRVCMDMIMVDLGPDLQDKTGDEVILWGEEISIDEIAEMLGTIAYEL 354 Query: 358 LVRIGTRYAKFY 369 + + R + Y Sbjct: 355 ICTLSKRVPRKY 366 >gnl|CDD|179622 PRK03646, dadX, alanine racemase; Reviewed. Length = 355 Score = 178 bits (454), Expect = 2e-45 Identities = 116/374 (31%), Positives = 177/374 (47%), Gaps = 36/374 (9%) Query: 8 RLKIDLTALKNNWHSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEE 67 + +DL ALK N + + AR +VVK NAYG G E+I AL F V ++EE Sbjct: 5 QASLDLQALKQNLSIVREAAPGARVWSVVKANAYGHGIERIWSAL--GATDGFAVLNLEE 62 Query: 68 GVKLRLYTPQARIFVLYGIHPGQEKIIFDT-NLIPVISSVPQLTFYSKLMSCGVSHPYA- 125 + LR + I +L G Q+ ++D L + S QL L + + P Sbjct: 63 AITLRERGWKGPILMLEGFFHAQDLELYDQHRLTTCVHSNWQL---KALQNARLKAPLDI 119 Query: 126 -LQVDTGFNRLGLSLQEALD-FTHNSFNKKLGQLSLIISHLACADDPSSHVNSVQLERFR 183 L+V++G NRLG + + +G+++L+ SH A AD P + R Sbjct: 120 YLKVNSGMNRLGFQPERVQTVWQQLRAMGNVGEMTLM-SHFARADHPDGISE--AMARIE 176 Query: 184 TLISHYKGIEA--SLASSSGILLGPNYHFQLTRPGISLYGGT------DKINKSHPMQTV 235 +G+E SL++S+ L P HF RPGI LYG + D N ++ V Sbjct: 177 QA---AEGLECERSLSNSAATLWHPQAHFDWVRPGIILYGASPSGQWRDIANTG--LRPV 231 Query: 236 VTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEHSPSVF 295 +T + II ++ AGE V YGG+ R+ I + A GYADGYP H+P+ Sbjct: 232 MTLSSEIIGVQTLKAGERVGYGGRYTARREQRIGIVAAGYADGYP--------RHAPT-- 281 Query: 296 LGGKGFIKGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIFGPDIKLDDVALASGTTNY 355 G + G +G ++MDM D+T +G ++++G +IK+DDVA A+GT Y Sbjct: 282 -GTPVLVDGVRTRTVGTVSMDMLAVDLTPCPQAGIGTPVELWGKEIKIDDVAAAAGTIGY 340 Query: 356 DLLVRIGTRYAKFY 369 +L+ + R Sbjct: 341 ELMCALALRVPVVT 354 >gnl|CDD|183386 PRK11930, PRK11930, putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional. Length = 822 Score = 166 bits (422), Expect = 1e-41 Identities = 110/374 (29%), Positives = 167/374 (44%), Gaps = 39/374 (10%) Query: 9 LKIDLTALKNNW-HSMNALSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQDFFVTSVEE 67 L+I+L A+ +N + + L + +VK AYG G +IA L V V +E Sbjct: 462 LEINLNAIVHNLNYYRSKLKPETKIMCMVKAFAYGSGSYEIAKLLQEHRVDYLAVAYADE 521 Query: 68 GVKLRLYTPQARIFVLYGIHPGQEKI--IFDTNLIPVISSVPQLTFYSKLM--SCGVSHP 123 GV LR I V+ +P I D L P I S L + K +P Sbjct: 522 GVSLRKAGITLPIMVM---NPEPTSFDTIIDYKLEPEIYSFRLLDAFIKAAQKKGITGYP 578 Query: 124 YALQVDTGFNRLGLSLQEALD----FTHNSFNKKLGQLSLIISHLACADDPSSHVNSV-Q 178 +++DTG +RLG ++ + K + + SHLA +DDP + Q Sbjct: 579 IHIKIDTGMHRLGFEPEDIPELARRLKKQPALK----VRSVFSHLAGSDDPDHDDFTRQQ 634 Query: 179 LERFRTLIS------HYKGIEASLASSSGILLGPNYHFQLTRPGISLYG--GTDKINKSH 230 +E F YK I + +S+GI P+Y + + R GI LYG + ++ Sbjct: 635 IELFDEGSEELQEALGYKPIR-HILNSAGIERFPDYQYDMVRLGIGLYGVSASGAGQQA- 692 Query: 231 PMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYPLTLSGLDSEH 290 ++ V T + I+ I+ GE V YG + +T+ S IA IGYADG L + Sbjct: 693 -LRNVSTLKTTILQIKHVPKGETVGYGRKGVVTKPSRIATIPIGYADGLNRRLG---NGV 748 Query: 291 SPSVFLGGKGFIKGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIFGPDIKLDDVALAS 350 G + G PI+G I MDM M D+TD + + GD + IFG ++ + ++A A Sbjct: 749 -------GYVLVNGQKAPIVGNICMDMCMIDVTD-IDAKEGDEVIIFGEELPVTELADAL 800 Query: 351 GTTNYDLLVRIGTR 364 T Y++L I R Sbjct: 801 NTIPYEILTSISPR 814 >gnl|CDD|183984 PRK13340, PRK13340, alanine racemase; Reviewed. Length = 406 Score = 159 bits (405), Expect = 8e-40 Identities = 95/393 (24%), Positives = 165/393 (41%), Gaps = 49/393 (12%) Query: 1 MHSNEFLRLKIDLTALKNNWHSMNA-LSGNARTAAVVKDNAYGLGCEKIAPALYNAGVQD 59 N +L I A ++N ++ + L+ ++ AV+K +AYG G E + P++ A V Sbjct: 37 QPRNAWLE--ISPGAFRHNIKTLRSLLANKSKVCAVMKADAYGHGIELLMPSIIKANVPC 94 Query: 60 FFVTSVEEGVKLRLYTPQARIFVLYGIHPGQEKIIFDTNLIPVISSVPQLTFYSKLMSCG 119 + S EE ++R ++ + P + + +L +I Q + + Sbjct: 95 IGIASNEEARRVRELGFTGQLLRVRSASPAEIEQALRYDLEELIGDDEQAKLLAAI---A 151 Query: 120 VSHPYALQV-----DTGFNRLGLSL------QEALDFTHNSFNKKLGQLSLIISHLACAD 168 + + + G +R GL + EAL +G I++H D Sbjct: 152 KKNGKPIDIHLALNSGGMSRNGLDMSTARGKWEALRIATLPSLGIVG----IMTHFPNED 207 Query: 169 DPSSHVNSVQLERFRT----LISH----YKGIEASLASSSGILLGPNYHFQLTRPGISLY 220 + V +L +F+ LI + I +A+S L P H + RPG LY Sbjct: 208 E--DEVR-WKLAQFKEQTAWLIGEAGLKREKITLHVANSYATLNVPEAHLDMVRPGGILY 264 Query: 221 GGTDKINKSHPMQTVVTAEARIILIRKALAGELVSYGGQKKLTRDSLIAVAAIGYADGYP 280 G D+ + + ++T ++RI + G V Y L RDS +A +GY+DGYP Sbjct: 265 G--DRHPANTEYKRIMTFKSRIASVNTLPKGSTVGYDRTFTLKRDSRLANLPVGYSDGYP 322 Query: 281 LTLSGLDSEHSPSVFLGGKGFIKGYMVPILGKITMDMTMFDITDSLSIEVGDYIQIFG-- 338 S I G P++G+++M+ M D+TD +++ GD + +FG Sbjct: 323 RHASN-----------KAPVLINGQRAPVVGRVSMNTLMVDVTDIPNVKPGDEVVLFGKQ 371 Query: 339 --PDIKLDDVALASGTTNYDLLVRIGTRYAKFY 369 +I +D+V ASGT +L G + Y Sbjct: 372 GNAEITVDEVEEASGTIFPELYTAWGRTNPRIY 404 >gnl|CDD|135659 PRK05925, PRK05925, aspartate kinase; Provisional. Length = 440 Score = 34.0 bits (78), Expect = 0.064 Identities = 27/106 (25%), Positives = 45/106 (42%), Gaps = 18/106 (16%) Query: 4 NEFLRLKIDLTALKNNWHSMNALSGNAR--TAAVVKDNAYGLGCEKIAPALYNAGVQDFF 61 +++LR DL ++ WH + L +A + N+ G + G DF Sbjct: 141 DQYLRAVPDLALMQTAWHELA-LQEDAIYIMQGFIGANSSG------KTTVLGRGGSDFS 193 Query: 62 VTSVEE---GVKLRLYTPQARIFVLYGIHPGQEKIIFDTNLIPVIS 104 + + E ++R+YT + GI+ KII D LIP +S Sbjct: 194 ASLIAELCKAREVRIYTD------VNGIYTMDPKIIKDAQLIPELS 233 >gnl|CDD|179715 PRK04024, PRK04024, cofactor-independent phosphoglycerate mutase; Provisional. Length = 412 Score = 27.6 bits (62), Expect = 5.0 Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 8/48 (16%) Query: 308 PILGKITMDMTMFDIT--DSLSIEVGDY------IQIFGPDIKLDDVA 347 IL + +D +T S +EV D+ I I+GP +++DDV Sbjct: 329 YILDNLDLDEVYIAVTGDHSTPVEVKDHSGDPVPILIYGPGVRVDDVE 376 >gnl|CDD|171438 PRK12363, PRK12363, phosphoglycerol transferase I; Provisional. Length = 703 Score = 27.2 bits (60), Expect = 7.9 Identities = 16/91 (17%), Positives = 30/91 (32%), Gaps = 7/91 (7%) Query: 3 SNEFLRLKIDLTAL----KNNWHSMNALSGNARTAAV---VKDNAYGLGCEKIAPALYNA 55 S LK L +L + W ++ LSG+ AA ++ + G G + + Sbjct: 19 SPRLAWLKAGLLSLFLLLLSAWGLVDRLSGDGVNAATLYHLRADMDGAGVSDFSGYIAVF 78 Query: 56 GVQDFFVTSVEEGVKLRLYTPQARIFVLYGI 86 S ++R + L+ Sbjct: 79 IGMILLSLSPLFAFRVRRFRRPRGGGALFAG 109 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 0.320 0.137 0.397 Gapped Lambda K H 0.267 0.0665 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 6,011,595 Number of extensions: 390021 Number of successful extensions: 705 Number of sequences better than 10.0: 1 Number of HSP's gapped: 676 Number of HSP's successfully gapped: 11 Length of query: 370 Length of database: 5,994,473 Length adjustment: 95 Effective length of query: 275 Effective length of database: 3,941,713 Effective search space: 1083971075 Effective search space used: 1083971075 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 (21.8 bits) S2: 58 (26.3 bits)