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)