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= 0022.0035.p (428 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311013|ref|YP_003775105.1| glycine/D-amino acid oxidase [H... 382 e-107 gi|300310779|ref|YP_003774871.1| D-amino acid dehydrogenase smal... 290 1e-79 gi|300309666|ref|YP_003773758.1| D-amino acid dehydrogenase smal... 265 4e-72 gi|300311555|ref|YP_003775647.1| D-amino acid dehydrogenase smal... 194 8e-51 gi|300313873|ref|YP_003777965.1| glycine/D-amino acid oxidase [H... 121 8e-29 >gi|300311013|ref|YP_003775105.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 433 Score = 382 bits (981), Expect = e-107, Method: Compositional matrix adjust. Identities = 200/427 (46%), Positives = 270/427 (63%), Gaps = 12/427 (2%) Query: 1 MHIIVIGAGIVGVTTAYFLHEKGYTVTVVDRQPEVAAETSVGNAGHVCPSYATPWAAPGM 60 M ++++G+G++GVT+A++L G+ VTV+DRQP A ETS GNAG + P YA+PWAAPG+ Sbjct: 1 MRVVILGSGVIGVTSAWYLARAGHDVTVLDRQPGPALETSFGNAGQISPGYASPWAAPGI 60 Query: 61 KGKSLKWSLQSWLGMESALRFTPRLDRHQWRWLGQFLSQCNADRYAVNKARMGRLARYSH 120 K++KW Q + A+R ++ +W W Q L CNA+RYAVNK RM RLA YS Sbjct: 61 PLKAIKWMFQEHAPL--AIRLDGSFNQLRWMW--QMLRNCNAERYAVNKERMVRLAEYSR 116 Query: 121 TQLKDIRERLGIEYEQTTVGNLQLFRTQEGMDNAGLAARVLAEAGVAYELLDAGACVTFD 180 L+D+R +GI YE G LQLFR+QE ++ A VL EAGV +ELL + Sbjct: 117 DCLRDLRADVGIPYEGRQQGTLQLFRSQEQLEGAAKDIAVLKEAGVPFELLTPDQLGNAE 176 Query: 181 PALRAARDQLVGGMLLPQDETGNCPLFARALAGWLQTQGVGFELGTSVQQIEYAGGAVTG 240 PAL RD+L GG+ LP DETG+C LF LA + GV F G + + AGG + G Sbjct: 177 PALAKVRDKLTGGLRLPNDETGDCQLFTTRLATMAEQIGVKFRYGVDIDALAMAGGKIAG 236 Query: 241 LRTANGMLKADAYVVACASASVALVKPL-GL-QLPVYPVKGYAITVPVADATAAPGPXRA 298 + +++AD+YVVA S S L+ + GL +PVYP+KGY+ITVP+ DA+A A Sbjct: 237 VVCGKELVQADSYVVALGSYSPQLLGEVPGLPAIPVYPLKGYSITVPITDASA------A 290 Query: 299 PKSGVMDEYYKVAITRMGSHIRAAGTAEIGSWDTKVTPRDCATAVKSLSSLFPGGADMSG 358 P S ++DE YK+A+TR IR G AEI +DT + + AT ++ LFPG D + Sbjct: 291 PVSTILDETYKIAVTRFDDRIRVGGMAEIVGYDTALKAKRRATLELVVNDLFPGAGDTAQ 350 Query: 359 ISYWAGLRPMTPDGAPLIGATAFSNLYLNAGHGSNGWTTACGSSRLIADKIAGVATEIIS 418 S+W GLRPMTPDG P++GAT SNLY+N GHG+ GWT +CGS +L+AD I+G I Sbjct: 351 ASFWTGLRPMTPDGTPVVGATPVSNLYINTGHGTLGWTMSCGSGQLLADLISGRRPAIAH 410 Query: 419 DDLSPLR 425 +DLS R Sbjct: 411 EDLSVER 417 >gi|300310779|ref|YP_003774871.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 436 Score = 290 bits (743), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 165/426 (38%), Positives = 232/426 (54%), Gaps = 21/426 (4%) Query: 1 MHIIVIGAGIVGVTTAYFLHEKGYTVTVVDRQPEVAAETSVGNAGHVCPSYATPWAAPGM 60 M +IV+GAGI+G +A+FL ++GY VTV+DRQP A ETS N + S+A PWA P Sbjct: 1 MKVIVLGAGIIGTASAWFLKKQGYDVTVIDRQPGAAQETSFANGCQISVSHAEPWANPAA 60 Query: 61 KGKSLKWSLQSWLGMESA-LRFTPRLDRHQWRWLGQFLSQCNADRYAVNKARMGRLARYS 119 K LKW LG E A L + R + QW+W FL +C A R N + L YS Sbjct: 61 PMKVLKW-----LGKEDAPLLYRFRPEWLQWKWAVAFLRECTAARTDENIRNIVALCEYS 115 Query: 120 HTQLKDIRERLGIEYEQTTVGNLQLFRTQEGMDNAGLAARVLAEAGVAYELLDAGACVTF 179 L+ +R GI+Y+ T G L + ++ ++ AA+++ + G E + A V Sbjct: 116 RQTLQAVRAETGIQYDHLTRGILHFYTEEKEFQDSLPAAKLMRDLGCPRESIGADEVVRI 175 Query: 180 DPALRAARDQLVGGMLLPQDETGNCPLFARALAGWLQTQGVGFELGTSVQQI--EYAGGA 237 +PAL + R+++VGG DE+G+ LA GV F T++ ++ E AG A Sbjct: 176 EPALASIRNKIVGGDFTATDESGDVFKLTTGLAKKSAEAGVEFRYSTTITRLITEGAGAA 235 Query: 238 --VTGLRTAN-----GMLKADAYVVACASASVALVKPLGLQLPVYPVKGYAITVPVADAT 290 VTG+ N +LKAD +VVA S S LVKPLG+ L +YP KGY+ T + + Sbjct: 236 ARVTGVEIINPDGRHEVLKADTFVVAMGSFSQQLVKPLGIDLLLYPGKGYSATYQITN-- 293 Query: 291 AAPGPXRAPKSGVMDEYYKVAITRMGSHIRAAGTAEIGSWDTKVTPRDCATAVKSLSSLF 350 P AP + D+ YK+ ++R+G +R AGT E+ + ++ C + LF Sbjct: 294 ----PDAAPTVSLTDDGYKLVVSRLGDRLRVAGTCELNGYTRELNTTRCEAITRRTRELF 349 Query: 351 PGGADMSGISYWAGLRPMTPDGAPLIGATAFSNLYLNAGHGSNGWTTACGSSRLIADKIA 410 P G D +YW GLRP+TP P +G T F+NLYLN GHG+ GWT CGS R IA+ +A Sbjct: 350 PDGCDYENPTYWTGLRPLTPSNVPYVGKTKFANLYLNTGHGTLGWTMGCGSGRAIAEIVA 409 Query: 411 GVATEI 416 G EI Sbjct: 410 GHVPEI 415 >gi|300309666|ref|YP_003773758.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 421 Score = 265 bits (678), Expect = 4e-72, Method: Compositional matrix adjust. Identities = 156/429 (36%), Positives = 225/429 (52%), Gaps = 15/429 (3%) Query: 1 MHIIVIGAGIVGVTTAYFLHEKGYTVTVVDRQPEVAAETSVGNAGHVCPSYATPWAAPGM 60 MHI V+GAG++GVTTAY L + G+ V+++D + + A TS GN + SY P A P + Sbjct: 1 MHICVMGAGVIGVTTAYRLLQDGHQVSLIDERDQPGAGTSQGNGAQLSYSYVAPLADPSV 60 Query: 61 KGKSLKWSLQSWLGMESALRFTPRLDRHQWRWLGQFLSQCNADRYAVNKARMGRLARYSH 120 K W+ +S L P L+ Q+RWL FL CNA + +LA YS Sbjct: 61 WSK---WAY-YLFSKDSPLTIKPTLEAAQYRWLAGFLRYCNAGSVRQTTIDLLQLAFYSR 116 Query: 121 TQLKDIRERLGIEYEQTTVGNLQLFRTQEGMDNAGLAARVLAEAGVAYELLDAGACVTFD 180 QL RL + ++ G L +F +G++ A R A+ G E+LDA C+ + Sbjct: 117 DQLTQWNGRLKLSFDHQRSGKLVMFTDAQGLEAAAGQVRFQAQYGCQQEVLDAAQCIRIE 176 Query: 181 PALRAARDQLVGGMLLPQDETGNCPLFARALAGWLQTQ-GVGFELGTSVQQIEYAGGAVT 239 PAL ++ VGG+ +E G+CP F RAL +Q F G + + G A++ Sbjct: 177 PALGRSQRDWVGGVYTRSEEAGDCPAFCRALVAAMQADPNFRFIGGARITAVRRQGSALS 236 Query: 240 GLRTANGMLKADAYVVACASASVALVKPLGLQLPVYPVKGYAITVPVADATAAPGPXRAP 299 ++ N + A +V+A + S + L L+LP+YP+KGY+ITVP+ D + AP Sbjct: 237 AVQAGNEWISAQRFVLALGADSADFARQLDLRLPLYPLKGYSITVPLEDEASRAA---AP 293 Query: 300 KSGVMDEYYKVAITRMGSHIRAAGTAEIGSWDTKVTPRDCATAVKSLSSLFPG---GADM 356 + + D K+ R+G +R AG E+ D + PR A + + LFP G D Sbjct: 294 QVSITDIARKIVYARLGQRLRVAGRIELVGQDRSIPPRAIAELKQGMRELFPDCVLGED- 352 Query: 357 SGISYWAGLRPMTPDGAPLIGATAFSNLYLNAGHGSNGWTTACGSSRLIADKIAGVATEI 416 + +S W G RP TP G P++GA NLYLN G G+ GWT ACGS+ LIAD+IAG I Sbjct: 353 ARLSPWMGFRPATPSGVPIVGACPVDNLYLNIGQGALGWTLACGSAALIADQIAGRPCSI 412 Query: 417 ISDDLSPLR 425 D +P R Sbjct: 413 ---DDTPFR 418 >gi|300311555|ref|YP_003775647.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 194 bits (494), Expect = 8e-51, Method: Compositional matrix adjust. Identities = 132/429 (30%), Positives = 209/429 (48%), Gaps = 24/429 (5%) Query: 2 HIIVIGAGIVGVTTAYFLHEKGYTVTVVDRQPEVAAETSVGNAGHVCPSYATPWAAPG-M 60 I VIG G+ G+ +AYFL KGY V V++R+ VA E + G++G + P A P PG + Sbjct: 7 QIAVIGGGLSGICSAYFLATKGYEVAVIERRAHVAEEATFGDSGLLAPGTAMPLTLPGAL 66 Query: 61 KGKSLKWSLQSWLGMESALRFTPRLDRHQWRWLGQFLSQCNADRYAVNKARMGRLARYSH 120 + ++ + + + S F R RW+ + +A +K + RL+ Y Sbjct: 67 ATFACRFQDEPRVLLASGADFGRR------RWM-RATRAAQQHHFAQHKLILSRLSAYGQ 119 Query: 121 TQLKDIRERLGIEYEQTTVGNLQLFRTQEGMDNAGLAARVLAEAGVAYE--LLDAGACVT 178 + ++ +E+E + G LFR + + A L A A + Y+ LDA Sbjct: 120 DLTQQLQAHYNMEHE-NSAGVFHLFR--QSAEAARLPALQEAASQCEYKQLTLDAAGIRA 176 Query: 179 FDPALRAARDQLVGGMLLPQDETGNCPLFARALAGWLQTQGVGFELGTSVQQI--EYAGG 236 +PA ++ L G + P D GN LFA+ + Q GV F ++V I E+ G Sbjct: 177 LEPAF-SSEAALAGALYYPDDIAGNSVLFAKQMRNAAQALGVSFHFNSTVSSIRSEFGGR 235 Query: 237 AVTGLRTAN--GMLKADAYVVACASASVALVKPLGLQLPVYPVKGYAITVPVADATAAPG 294 +++ + L DA VVA AS AL++PL LP+ ++ Y+ VPV + Sbjct: 236 VTLEVQSPHLASHLTMDAVVVAAGMASAALLQPLDTSLPLRALQSYSALVPVKN------ 289 Query: 295 PXRAPKSGVMDEYYKVAITRMGSHIRAAGTAEIGSWDTKVTPRDCATAVKSLSSLFPGGA 354 P AP + D+ YKVA+TR+GS IR +G + P+ +K +P A Sbjct: 290 PDDAPTMALYDDSYKVAMTRLGSRIRISGLLGFVPASQTLPPKALRNLLKIAGDYYPNAA 349 Query: 355 DMSGISYWAGLRPMTPDGAPLIGATAFSNLYLNAGHGSNGWTTACGSSRLIADKIAGVAT 414 + + +W+ M P G P++G T N+++N GHG GW + GS+RL++D +AG T Sbjct: 350 NYNQAHFWSNSIAMMPTGLPVVGPTRQGNIFVNVGHGVTGWAASVGSARLLSDMMAGEET 409 Query: 415 EIISDDLSP 423 EI + L P Sbjct: 410 EIATAGLLP 418 >gi|300313873|ref|YP_003777965.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 428 Score = 121 bits (304), Expect = 8e-29, Method: Compositional matrix adjust. Identities = 123/439 (28%), Positives = 187/439 (42%), Gaps = 38/439 (8%) Query: 2 HIIVIGAGIVGVTTAYFLHEKGYTVTVVDRQPEVAAET-SVGNAGHVCPSYATPWAAPGM 60 H +VIGAG VG+ +A ++G V+++D P + E S GNAG + P PGM Sbjct: 12 HAVVIGAGAVGLMSAIHALDQGLEVSLLDFNPVGSEEAASYGNAGWLSSHSVIPPVEPGM 71 Query: 61 KGKSLKWSLQSWLGMESALRFTPRLDRHQWRWLGQFLSQCNADRYAVNKARMGRLARYSH 120 K + + + R+ PRL WL + L+ +R + L + Sbjct: 72 WKKVPGYLMDPIGPLSIRWRYLPRLTP----WLLRNLASARRERIRATARALRTLVVDAR 127 Query: 121 TQLKDIRERLGIEYEQTTVGNLQLFRTQEGMDNAGLAARVLAEAGVAYELLDAGACVTFD 180 T DI R G+ + T G L ++R+++ + V E G+ + L+A A + Sbjct: 128 TLHLDIARRAGVAHLIDTSGVLHVYRSRQQFEGDAFGWSVRRELGIQWSELEAEALRRRE 187 Query: 181 PALRAARDQLVGGMLLPQDETGNCPLFARALAGWLQTQGVGFELGTSVQQIEYAGGAVTG 240 P L A G + DE G+C + A +LQ + L +I+ TG Sbjct: 188 PDLDPA-----FGFAVQVDEAGHC----KNPAAYLQALQ-AYALARGAHRID---ARATG 234 Query: 241 LRTANGMLKA----------DAYVVACASASVALVKPLGLQLPVYPVKGYAITVPVADAT 290 R G LKA DA V+ + S AL G ++ + +GY + + Sbjct: 235 FRIEEGRLKAVLTETGEVACDAAVICAGARSKALAAQAGDRVQLESERGYHALIRGHEQA 294 Query: 291 AAPGPXRAPKSGVMDEYYKVAITRMGSHIRAAGTAEIGSWDTKVTPRDCATAVKSLSSLF 350 A RA ++ +M +KV T+M + +R AG E S++ R LF Sbjct: 295 A-----RA-RTPMMLSEFKVIATQMETGLRIAGQVEFASFEAAPDWRRGEIMRDIALKLF 348 Query: 351 PG---GADMSGISYWAGLRPMTPDGAPLIG-ATAFSNLYLNAGHGSNGWTTACGSSRLIA 406 PG + + YW G RP TPDG P IG A A S++ GHG G + + R++A Sbjct: 349 PGLPRDLPAADVRYWLGRRPSTPDGMPCIGYARASSDIVHAYGHGHIGLGCSARTGRIVA 408 Query: 407 DKIAGVATEIISDDLSPLR 425 +AG EI SP R Sbjct: 409 QLLAGQTPEIDLAPFSPQR 427 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 0.319 0.134 0.408 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: 1,360,527 Number of extensions: 59060 Number of successful extensions: 202 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 187 Number of HSP's successfully gapped: 5 Length of query: 428 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 340 Effective length of database: 1,203,190 Effective search space: 409084600 Effective search space used: 409084600 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: 132 (55.5 bits)