BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0022.0168.p (397 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309666|ref|YP_003773758.1| D-amino acid dehydrogenase smal... 669 0.0 gi|300311013|ref|YP_003775105.1| glycine/D-amino acid oxidase [H... 234 6e-63 gi|300310779|ref|YP_003774871.1| D-amino acid dehydrogenase smal... 217 1e-57 gi|300311555|ref|YP_003775647.1| D-amino acid dehydrogenase smal... 122 7e-29 gi|300313873|ref|YP_003777965.1| glycine/D-amino acid oxidase [H... 81 1e-16 >gi|300309666|ref|YP_003773758.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 421 Score = 669 bits (1725), Expect = 0.0, Method: Compositional matrix adjust. Identities = 337/415 (81%), Positives = 358/415 (86%), Gaps = 19/415 (4%) Query: 1 MGAGVIGVTTAYRLLQDGHQVSLIDARQQPGEGTSQGNGAQLSYSYVAPLADPSVWTKWA 60 MGAGVIGVTTAYRLLQDGHQVSLID R QPG GTSQGNGAQLSYSYVAPLADPSVW+KWA Sbjct: 6 MGAGVIGVTTAYRLLQDGHQVSLIDERDQPGAGTSQGNGAQLSYSYVAPLADPSVWSKWA 65 Query: 61 YYLFSKDSPLTIRPTADLDQYRWLVEFLRCCNAQRVRQTTIDLLQLAFYSRDQLTQWNAG 120 YYLFSKDSPLTI+PT + QYRWL FLR CNA VRQTTIDLLQLAFYSRDQLTQWN Sbjct: 66 YYLFSKDSPLTIKPTLEAAQYRWLAGFLRYCNAGSVRQTTIDLLQLAFYSRDQLTQWNGR 125 Query: 121 LQLSFDHQRSGKLVMFTDAQGLEAAAQQVQFQSQYGCQQEVLGAAECIRIEPALGHSQRD 180 L+LSFDHQRSGKLVMFTDAQGLEAAA QV+FQ+QYGCQQEVL AA+CIRIEPALG SQRD Sbjct: 126 LKLSFDHQRSGKLVMFTDAQGLEAAAGQVRFQAQYGCQQEVLDAAQCIRIEPALGRSQRD 185 Query: 181 WVGGVYTPSEEAGDCPQFCRALVASMQAHPNFRFIGGARISEVRREGHALRAVQAGGEWI 240 WVGGVYT SEEAGDCP FCRALVA+MQA PNFRFIGGARI+ VRR+G AL AVQAG EWI Sbjct: 186 WVGGVYTRSEEAGDCPAFCRALVAAMQADPNFRFIGGARITAVRRQGSALSAVQAGNEWI 245 Query: 241 AADRFVLALGAESVEFARLLDLRLPLYPLKGYSITVPLEDDASRTAAPQVSITDIARKIV 300 +A RFVLALGA+S +FAR LDLRLPLYPLKGYSITVPLED+ASR AAPQVSITDIARKIV Sbjct: 246 SAQRFVLALGADSADFARQLDLRLPLYPLKGYSITVPLEDEASRAAAPQVSITDIARKIV 305 Query: 301 YARLGQRLRVAGRIELVGQDRSIPPAAIEELRNGLRELFPGCALGEDATRS--------- 351 YARLGQRLRVAGRIELVGQDRSIPP AI EL+ G+RELFP C LGEDA S Sbjct: 306 YARLGQRLRVAGRIELVGQDRSIPPRAIAELKQGMRELFPDCVLGEDARLSPWMGFRPAT 365 Query: 352 ----------PVENLHFNIGQGALGWTLACGSAALVADQIAGRRRAIDDTAFQYR 396 PV+NL+ NIGQGALGWTLACGSAAL+ADQIAGR +IDDT F+YR Sbjct: 366 PSGVPIVGACPVDNLYLNIGQGALGWTLACGSAALIADQIAGRPCSIDDTPFRYR 420 >gi|300311013|ref|YP_003775105.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 433 Score = 234 bits (598), Expect = 6e-63, Method: Compositional matrix adjust. Identities = 145/407 (35%), Positives = 213/407 (52%), Gaps = 23/407 (5%) Query: 1 MGAGVIGVTTAYRLLQDGHQVSLIDARQQPGEGTSQGNGAQLSYSYVAPLADPSVWTKWA 60 +G+GVIGVT+A+ L + GH V+++D + P TS GN Q+S Y +P A P + K Sbjct: 6 LGSGVIGVTSAWYLARAGHDVTVLDRQPGPALETSFGNAGQISPGYASPWAAPGIPLKAI 65 Query: 61 YYLFSKDSPLTIRPTADLDQYRWLVEFLRCCNAQRVRQTTIDLLQLAFYSRDQLTQWNAG 120 ++F + +PL IR +Q RW+ + LR CNA+R +++LA YSRD L A Sbjct: 66 KWMFQEHAPLAIRLDGSFNQLRWMWQMLRNCNAERYAVNKERMVRLAEYSRDCLRDLRAD 125 Query: 121 LQLSFDHQRSGKLVMFTDAQGLEAAAQQVQFQSQYGCQQEVLGAAECIRIEPALGHSQRD 180 + + ++ ++ G L +F + LE AA+ + + G E+L + EPAL + Sbjct: 126 VGIPYEGRQQGTLQLFRSQEQLEGAAKDIAVLKEAGVPFELLTPDQLGNAEPALAKVRDK 185 Query: 181 WVGGVYTPSEEAGDCPQFCRALVASMQAHPNFRFIGGARISEVRREGHALRAVQAGGEWI 240 GG+ P++E GDC F L A+M +F G I + G + V G E + Sbjct: 186 LTGGLRLPNDETGDCQLFTTRL-ATMAEQIGVKFRYGVDIDALAMAGGKIAGVVCGKELV 244 Query: 241 AADRFVLALGAESVEFARLLD--LRLPLYPLKGYSITVPLEDDASRTAAPQVSITDIARK 298 AD +V+ALG+ S + + +P+YPLKGYSITVP+ D +AAP +I D K Sbjct: 245 QADSYVVALGSYSPQLLGEVPGLPAIPVYPLKGYSITVPITD---ASAAPVSTILDETYK 301 Query: 299 IVYARLGQRLRVAGRIELVGQDRSIPPAAIEELRNGLRELFPGCA-------------LG 345 I R R+RV G E+VG D ++ L + +LFPG + Sbjct: 302 IAVTRFDDRIRVGGMAEIVGYDTALKAKRRATLELVVNDLFPGAGDTAQASFWTGLRPMT 361 Query: 346 EDAT----RSPVENLHFNIGQGALGWTLACGSAALVADQIAGRRRAI 388 D T +PV NL+ N G G LGWT++CGS L+AD I+GRR AI Sbjct: 362 PDGTPVVGATPVSNLYINTGHGTLGWTMSCGSGQLLADLISGRRPAI 408 >gi|300310779|ref|YP_003774871.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 436 Score = 217 bits (552), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 142/416 (34%), Positives = 208/416 (50%), Gaps = 32/416 (7%) Query: 1 MGAGVIGVTTAYRLLQDGHQVSLIDARQQPGEGTSQGNGAQLSYSYVAPLADPSVWTKWA 60 +GAG+IG +A+ L + G+ V++ID + + TS NG Q+S S+ P A+P+ K Sbjct: 6 LGAGIIGTASAWFLKKQGYDVTVIDRQPGAAQETSFANGCQISVSHAEPWANPAAPMKVL 65 Query: 61 YYLFSKDSPLTIRPTADLDQYRWLVEFLRCCNAQRVRQTTIDLLQLAFYSRDQLTQWNAG 120 +L +D+PL R + Q++W V FLR C A R + +++ L YSR L A Sbjct: 66 KWLGKEDAPLLYRFRPEWLQWKWAVAFLRECTAARTDENIRNIVALCEYSRQTLQAVRAE 125 Query: 121 LQLSFDHQRSGKLVMFTDAQGLEAAAQQVQFQSQYGCQQEVLGAAECIRIEPALGHSQRD 180 + +DH G L +T+ + + + + GC +E +GA E +RIEPAL + Sbjct: 126 TGIQYDHLTRGILHFYTEEKEFQDSLPAAKLMRDLGCPRESIGADEVVRIEPALASIRNK 185 Query: 181 WVGGVYTPSEEAGDCPQFCRALV-ASMQAHPNFRFIGGARISEVRREGHALRAVQAGGEW 239 VGG +T ++E+GD + L S +A FR+ I+ + EG A G E Sbjct: 186 IVGGDFTATDESGDVFKLTTGLAKKSAEAGVEFRY--STTITRLITEGAGAAARVTGVEI 243 Query: 240 I---------AADRFVLALGAESVEFARLLDLRLPLYPLKGYSITVPLEDDASRTAAPQV 290 I AD FV+A+G+ S + + L + L LYP KGYS T + + AAP V Sbjct: 244 INPDGRHEVLKADTFVVAMGSFSQQLVKPLGIDLLLYPGKGYSATYQITNP---DAAPTV 300 Query: 291 SITDIARKIVYARLGQRLRVAGRIELVGQDRSIPPAAIEELRNGLRELFPGCALGEDAT- 349 S+TD K+V +RLG RLRVAG EL G R + E + RELFP E+ T Sbjct: 301 SLTDDGYKLVVSRLGDRLRVAGTCELNGYTRELNTTRCEAITRRTRELFPDGCDYENPTY 360 Query: 350 ----------------RSPVENLHFNIGQGALGWTLACGSAALVADQIAGRRRAID 389 ++ NL+ N G G LGWT+ CGS +A+ +AG ID Sbjct: 361 WTGLRPLTPSNVPYVGKTKFANLYLNTGHGTLGWTMGCGSGRAIAEIVAGHVPEID 416 >gi|300311555|ref|YP_003775647.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 122 bits (305), Expect = 7e-29, Method: Compositional matrix adjust. Identities = 117/417 (28%), Positives = 186/417 (44%), Gaps = 45/417 (10%) Query: 1 MGAGVIGVTTAYRLLQDGHQVSLIDARQQPGEGTSQGNGAQLSYSYVAPLADPSVWTKWA 60 +G G+ G+ +AY L G++V++I+ R E + G+ L+ PL P +A Sbjct: 11 IGGGLSGICSAYFLATKGYEVAVIERRAHVAEEATFGDSGLLAPGTAMPLTLPGALATFA 70 Query: 61 YYLFSKDSPLTIRPTADLDQYRWLVEFLRCCNAQRVRQTTIDLLQLAFYSRDQLTQWNAG 120 F + + + AD + RW+ R Q + L +L+ Y +D Q A Sbjct: 71 CR-FQDEPRVLLASGADFGRRRWM-RATRAAQQHHFAQHKLILSRLSAYGQDLTQQLQA- 127 Query: 121 LQLSFDHQRS-GKLVMFTDAQGLEAA----AQQVQFQSQYGCQQEVLGAAECIRIEPALG 175 + +H+ S G +F Q EAA Q+ Q +Y +Q L AA +EPA Sbjct: 128 -HYNMEHENSAGVFHLFR--QSAEAARLPALQEAASQCEY--KQLTLDAAGIRALEPAFS 182 Query: 176 HSQRDWVGGVYTPSEEAGDCPQFCRALVASMQA-HPNFRFIGGARISEVRRE--GHALRA 232 S+ G +Y P + AG+ F + + + QA +F F + +S +R E G Sbjct: 183 -SEAALAGALYYPDDIAGNSVLFAKQMRNAAQALGVSFHF--NSTVSSIRSEFGGRVTLE 239 Query: 233 VQAG--GEWIAADRFVLALGAESVEFARLLDLRLPLYPLKGYSITVPLE--DDASRTAAP 288 VQ+ + D V+A G S + LD LPL L+ YS VP++ DDA P Sbjct: 240 VQSPHLASHLTMDAVVVAAGMASAALLQPLDTSLPLRALQSYSALVPVKNPDDA-----P 294 Query: 289 QVSITDIARKIVYARLGQRLRVAGRIELVGQDRSIPPAAIEELRNGLRELFPGCALGEDA 348 +++ D + K+ RLG R+R++G + V +++PP A+ L + +P A A Sbjct: 295 TMALYDDSYKVAMTRLGSRIRISGLLGFVPASQTLPPKALRNLLKIAGDYYPNAANYNQA 354 Query: 349 -----------TRSPVE------NLHFNIGQGALGWTLACGSAALVADQIAGRRRAI 388 T PV N+ N+G G GW + GSA L++D +AG I Sbjct: 355 HFWSNSIAMMPTGLPVVGPTRQGNIFVNVGHGVTGWAASVGSARLLSDMMAGEETEI 411 >gi|300313873|ref|YP_003777965.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 428 Score = 81.3 bits (199), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 95/345 (27%), Positives = 142/345 (41%), Gaps = 14/345 (4%) Query: 1 MGAGVIGVTTAYRLLQDGHQVSLIDARQQPGE-GTSQGNGAQLSYSYVAPLADPSVWTKW 59 +GAG +G+ +A L G +VSL+D E S GN LS V P +P +W K Sbjct: 16 IGAGAVGLMSAIHALDQGLEVSLLDFNPVGSEEAASYGNAGWLSSHSVIPPVEPGMWKKV 75 Query: 60 AYYLFSKDSPLTIRPTADLDQYRWLVEFLRCCNAQRVRQTTIDLLQLAFYSRDQLTQWNA 119 YL PL+IR WL+ L +R+R T L L +R Sbjct: 76 PGYLMDPIGPLSIRWRYLPRLTPWLLRNLASARRERIRATARALRTLVVDARTLHLDIAR 135 Query: 120 GLQLSFDHQRSGKLVMFTDAQGLEAAAQQVQFQSQYGCQQEVLGAAECIRIEPALGHSQR 179 ++ SG L ++ Q E A + + G Q L A R EP L Sbjct: 136 RAGVAHLIDTSGVLHVYRSRQQFEGDAFGWSVRRELGIQWSELEAEALRRREPDL----- 190 Query: 180 DWVGGVYTPSEEAGDCPQ---FCRALVASMQAHPNFRFIGGARISEVRREGHALRAVQAG 236 D G +EAG C + +AL A A R AR + R E L+AV Sbjct: 191 DPAFGFAVQVDEAGHCKNPAAYLQALQAYALARGAHRI--DARATGFRIEEGRLKAVLTE 248 Query: 237 GEWIAADRFVLALGAESVEFARLLDLRLPLYPLKGYSITVPLEDDASRTAAPQVSITDIA 296 +A D V+ GA S A R+ L +GY + + A+R P + +++ Sbjct: 249 TGEVACDAAVICAGARSKALAAQAGDRVQLESERGYHALIRGHEQAARARTPMM-LSEF- 306 Query: 297 RKIVYARLGQRLRVAGRIELVGQDRSIPPAAIEELRNGLRELFPG 341 K++ ++ LR+AG++E + + E +R+ +LFPG Sbjct: 307 -KVIATQMETGLRIAGQVEFASFEAAPDWRRGEIMRDIALKLFPG 350 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.321 0.136 0.414 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 1,280,445 Number of extensions: 53575 Number of successful extensions: 200 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 188 Number of HSP's successfully gapped: 5 Length of query: 397 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 310 Effective length of database: 1,207,925 Effective search space: 374456750 Effective search space used: 374456750 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: 131 (55.1 bits)