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= 0174.0005.p (380 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... 613 e-177 gi|300310779|ref|YP_003774871.1| D-amino acid dehydrogenase smal... 286 2e-78 gi|300309666|ref|YP_003773758.1| D-amino acid dehydrogenase smal... 212 4e-56 gi|300311555|ref|YP_003775647.1| D-amino acid dehydrogenase smal... 156 3e-39 gi|300313873|ref|YP_003777965.1| glycine/D-amino acid oxidase [H... 98 1e-21 >gi|300311013|ref|YP_003775105.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 433 Score = 613 bits (1582), Expect = e-177, Method: Compositional matrix adjust. Identities = 297/366 (81%), Positives = 327/366 (89%), Gaps = 3/366 (0%) Query: 1 MRVVILGSGVIGVTSAYYLAKAGHQVTVLDRQPGPALETSFANAGQISPGYASPWAAPGI 60 MRVVILGSGVIGVTSA+YLA+AGH VTVLDRQPGPALETSF NAGQISPGYASPWAAPGI Sbjct: 1 MRVVILGSGVIGVTSAWYLARAGHDVTVLDRQPGPALETSFGNAGQISPGYASPWAAPGI 60 Query: 61 PLKALKWMFEEHAPLAIRPDGTFQQLRWMWQMLRNCSADRYAVNKERMVRLAEYSRDCFR 120 PLKA+KWMF+EHAPLAIR DG+F QLRWMWQMLRNC+A+RYAVNKERMVRLAEYSRDC R Sbjct: 61 PLKAIKWMFQEHAPLAIRLDGSFNQLRWMWQMLRNCNAERYAVNKERMVRLAEYSRDCLR 120 Query: 121 ELRAATGIDYEGRQQGTLQLFRTQEQFDGAAKDIAVLRQTGVPFELLSRDQLAGAEPALA 180 +LRA GI YEGRQQGTLQLFR+QEQ +GAAKDIAVL++ GVPFELL+ DQL AEPALA Sbjct: 121 DLRADVGIPYEGRQQGTLQLFRSQEQLEGAAKDIAVLKEAGVPFELLTPDQLGNAEPALA 180 Query: 181 KVSHKLTGGLRLPNDETGDCKLFTTKLAKMAEELGVQFRYGVDIQALAVAGDDIDGVVCG 240 KV KLTGGLRLPNDETGDC+LFTT+LA MAE++GV+FRYGVDI ALA+AG I GVVCG Sbjct: 181 KVRDKLTGGLRLPNDETGDCQLFTTRLATMAEQIGVKFRYGVDIDALAMAGGKIAGVVCG 240 Query: 241 KELVRGDAYVVALGSYSANFMRRIVD---IPVYPLKGYSITVPVVDSQAAPVSTILDETY 297 KELV+ D+YVVALGSYS + + IPVYPLKGYSITVP+ D+ AAPVSTILDETY Sbjct: 241 KELVQADSYVVALGSYSPQLLGEVPGLPAIPVYPLKGYSITVPITDASAAPVSTILDETY 300 Query: 298 KIAVTRFDNRIRVGGMAEVVGFNKELNPKRRATLELVVNDLFPGAGNTAQASFWTGLRPM 357 KIAVTRFD+RIRVGGMAE+VG++ L KRRATLELVVNDLFPGAG+TAQASFWTGLRPM Sbjct: 301 KIAVTRFDDRIRVGGMAEIVGYDTALKAKRRATLELVVNDLFPGAGDTAQASFWTGLRPM 360 Query: 358 TPDXPP 363 TPD P Sbjct: 361 TPDGTP 366 >gi|300310779|ref|YP_003774871.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 436 Score = 286 bits (731), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 149/384 (38%), Positives = 218/384 (56%), Gaps = 10/384 (2%) Query: 1 MRVVILGSGVIGVTSAYYLAKAGHQVTVLDRQPGPALETSFANAGQISPGYASPWAAPGI 60 M+V++LG+G+IG SA++L K G+ VTV+DRQPG A ETSFAN QIS +A PWA P Sbjct: 1 MKVIVLGAGIIGTASAWFLKKQGYDVTVIDRQPGAAQETSFANGCQISVSHAEPWANPAA 60 Query: 61 PLKALKWMFEEHAPLAIRPDGTFQQLRWMWQMLRNCSADRYAVNKERMVRLAEYSRDCFR 120 P+K LKW+ +E APL R + Q +W LR C+A R N +V L EYSR + Sbjct: 61 PMKVLKWLGKEDAPLLYRFRPEWLQWKWAVAFLRECTAARTDENIRNIVALCEYSRQTLQ 120 Query: 121 ELRAATGIDYEGRQQGTLQLFRTQEQFDGAAKDIAVLRQTGVPFELLSRDQLAGAEPALA 180 +RA TGI Y+ +G L + +++F + ++R G P E + D++ EPALA Sbjct: 121 AVRAETGIQYDHLTRGILHFYTEEKEFQDSLPAAKLMRDLGCPRESIGADEVVRIEPALA 180 Query: 181 KVSHKLTGGLRLPNDETGDCKLFTTKLAKMAEELGVQFRYGVDIQALAVAGDDIDGVVCG 240 + +K+ GG DE+GD TT LAK + E GV+FRY I L G V G Sbjct: 181 SIRNKIVGGDFTATDESGDVFKLTTGLAKKSAEAGVEFRYSTTITRLITEGAGAAARVTG 240 Query: 241 KELV---------RGDAYVVALGSYSANFMRRI-VDIPVYPLKGYSITVPVVDSQAAPVS 290 E++ + D +VVA+GS+S ++ + +D+ +YP KGYS T + + AAP Sbjct: 241 VEIINPDGRHEVLKADTFVVAMGSFSQQLVKPLGIDLLLYPGKGYSATYQITNPDAAPTV 300 Query: 291 TILDETYKIAVTRFDNRIRVGGMAEVVGFNKELNPKRRATLELVVNDLFPGAGNTAQASF 350 ++ D+ YK+ V+R +R+RV G E+ G+ +ELN R + +LFP + ++ Sbjct: 301 SLTDDGYKLVVSRLGDRLRVAGTCELNGYTRELNTTRCEAITRRTRELFPDGCDYENPTY 360 Query: 351 WTGLRPMTPDXPPPPPPFSFADAF 374 WTGLRP+TP P FA+ + Sbjct: 361 WTGLRPLTPSNVPYVGKTKFANLY 384 >gi|300309666|ref|YP_003773758.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 421 Score = 212 bits (540), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 129/370 (34%), Positives = 193/370 (52%), Gaps = 7/370 (1%) Query: 1 MRVVILGSGVIGVTSAYYLAKAGHQVTVLDRQPGPALETSFANAGQISPGYASPWAAPGI 60 M + ++G+GVIGVT+AY L + GHQV+++D + P TS N Q+S Y +P A P + Sbjct: 1 MHICVMGAGVIGVTTAYRLLQDGHQVSLIDERDQPGAGTSQGNGAQLSYSYVAPLADPSV 60 Query: 61 PLKALKWMFEEHAPLAIRPDGTFQQLRWMWQMLRNCSADRYAVNKERMVRLAEYSRDCFR 120 K ++F + +PL I+P Q RW+ LR C+A +++LA YSRD Sbjct: 61 WSKWAYYLFSKDSPLTIKPTLEAAQYRWLAGFLRYCNAGSVRQTTIDLLQLAFYSRDQLT 120 Query: 121 ELRAATGIDYEGRQQGTLQLFRTQEQFDGAAKDIAVLRQTGVPFELLSRDQLAGAEPALA 180 + + ++ ++ G L +F + + AA + Q G E+L Q EPAL Sbjct: 121 QWNGRLKLSFDHQRSGKLVMFTDAQGLEAAAGQVRFQAQYGCQQEVLDAAQCIRIEPALG 180 Query: 181 KVSHKLTGGLRLPNDETGDCKLFTTKL-AKMAEELGVQFRYGVDIQALAVAGDDIDGVVC 239 + GG+ ++E GDC F L A M + +F G I A+ G + V Sbjct: 181 RSQRDWVGGVYTRSEEAGDCPAFCRALVAAMQADPNFRFIGGARITAVRRQGSALSAVQA 240 Query: 240 GKELVRGDAYVVALGSYSANFMRRI-VDIPVYPLKGYSITVPVVDS---QAAPVSTILDE 295 G E + +V+ALG+ SA+F R++ + +P+YPLKGYSITVP+ D AAP +I D Sbjct: 241 GNEWISAQRFVLALGADSADFARQLDLRLPLYPLKGYSITVPLEDEASRAAAPQVSITDI 300 Query: 296 TYKIAVTRFDNRIRVGGMAEVVGFNKELNPKRRATLELVVNDLFPGA--GNTAQASFWTG 353 KI R R+RV G E+VG ++ + P+ A L+ + +LFP G A+ S W G Sbjct: 301 ARKIVYARLGQRLRVAGRIELVGQDRSIPPRAIAELKQGMRELFPDCVLGEDARLSPWMG 360 Query: 354 LRPMTPDXPP 363 RP TP P Sbjct: 361 FRPATPSGVP 370 >gi|300311555|ref|YP_003775647.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 156 bits (394), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 108/371 (29%), Positives = 183/371 (49%), Gaps = 17/371 (4%) Query: 2 RVVILGSGVIGVTSAYYLAKAGHQVTVLDRQPGPALETSFANAGQISPGYASPWAAPGIP 61 ++ ++G G+ G+ SAY+LA G++V V++R+ A E +F ++G ++PG A P PG Sbjct: 7 QIAVIGGGLSGICSAYFLATKGYEVAVIERRAHVAEEATFGDSGLLAPGTAMPLTLPG-A 65 Query: 62 LKALKWMFEEHAPLAIRPDGTFQQLRWMWQMLRNCSADRYAVNKERMVRLAEYSRDCFRE 121 L F++ + + F + RWM + R +A +K + RL+ Y +D ++ Sbjct: 66 LATFACRFQDEPRVLLASGADFGRRRWM-RATRAAQQHHFAQHKLILSRLSAYGQDLTQQ 124 Query: 122 LRAATGIDYEGRQQGTLQLFRTQEQFDGAAKDIAVLRQTG--VPFELLSRDQ--LAGAEP 177 L+A +++E G LFR + A + L++ ++ L+ D + EP Sbjct: 125 LQAHYNMEHE-NSAGVFHLFRQSAE----AARLPALQEAASQCEYKQLTLDAAGIRALEP 179 Query: 178 ALAKVSHKLTGGLRLPNDETGDCKLFTTKLAKMAEELGVQFRYGVDIQAL-AVAGDDIDG 236 A + + L G L P+D G+ LF ++ A+ LGV F + + ++ + G + Sbjct: 180 AFSSEA-ALAGALYYPDDIAGNSVLFAKQMRNAAQALGVSFHFNSTVSSIRSEFGGRVTL 238 Query: 237 VVCGKELVRG---DAYVVALGSYSANFMRRI-VDIPVYPLKGYSITVPVVDSQAAPVSTI 292 V L DA VVA G SA ++ + +P+ L+ YS VPV + AP + Sbjct: 239 EVQSPHLASHLTMDAVVVAAGMASAALLQPLDTSLPLRALQSYSALVPVKNPDDAPTMAL 298 Query: 293 LDETYKIAVTRFDNRIRVGGMAEVVGFNKELNPKRRATLELVVNDLFPGAGNTAQASFWT 352 D++YK+A+TR +RIR+ G+ V ++ L PK L + D +P A N QA FW+ Sbjct: 299 YDDSYKVAMTRLGSRIRISGLLGFVPASQTLPPKALRNLLKIAGDYYPNAANYNQAHFWS 358 Query: 353 GLRPMTPDXPP 363 M P P Sbjct: 359 NSIAMMPTGLP 369 >gi|300313873|ref|YP_003777965.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 428 Score = 97.8 bits (242), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 86/367 (23%), Positives = 156/367 (42%), Gaps = 12/367 (3%) Query: 4 VILGSGVIGVTSAYYLAKAGHQVTVLDRQP-GPALETSFANAGQISPGYASPWAAPGIPL 62 V++G+G +G+ SA + G +V++LD P G S+ NAG +S P PG+ Sbjct: 14 VVIGAGAVGLMSAIHALDQGLEVSLLDFNPVGSEEAASYGNAGWLSSHSVIPPVEPGMWK 73 Query: 63 KALKWMFEEHAPLAIRPDGTFQQLRWMWQMLRNCSADRYAVNKERMVRLAEYSRDCFREL 122 K ++ + PL+IR + W+ + L + +R + L +R ++ Sbjct: 74 KVPGYLMDPIGPLSIRWRYLPRLTPWLLRNLASARRERIRATARALRTLVVDARTLHLDI 133 Query: 123 RAATGIDYEGRQQGTLQLFRTQEQFDGAAKDIAVLRQTGVPFELLSRDQLAGAEPALAKV 182 G+ + G L ++R+++QF+G A +V R+ G+ + L + L EP L Sbjct: 134 ARRAGVAHLIDTSGVLHVYRSRQQFEGDAFGWSVRRELGIQWSELEAEALRRREPDLDPA 193 Query: 183 SHKLTGGLRLPNDETGDCKLFTTKLAKMAEELGVQFRYGVDIQALAVAGDD--IDGVVCG 240 G + DE G CK L + + + +D +A ++ + V+ Sbjct: 194 F-----GFAVQVDEAGHCKNPAAYLQALQAYALARGAHRIDARATGFRIEEGRLKAVLTE 248 Query: 241 KELVRGDAYVVALGSYSANFMRRIVD-IPVYPLKGYSITVPVVDSQAAPVSTILDETYKI 299 V DA V+ G+ S + D + + +GY + + A + ++ +K+ Sbjct: 249 TGEVACDAAVICAGARSKALAAQAGDRVQLESERGYHALIRGHEQAARARTPMMLSEFKV 308 Query: 300 AVTRFDNRIRVGGMAEVVGFNKELNPKRRATLELVVNDLFPGAGN---TAQASFWTGLRP 356 T+ + +R+ G E F + +R + + LFPG A +W G RP Sbjct: 309 IATQMETGLRIAGQVEFASFEAAPDWRRGEIMRDIALKLFPGLPRDLPAADVRYWLGRRP 368 Query: 357 MTPDXPP 363 TPD P Sbjct: 369 STPDGMP 375 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 0.137 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: 1,202,441 Number of extensions: 52874 Number of successful extensions: 196 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 183 Number of HSP's successfully gapped: 5 Length of query: 380 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 293 Effective length of database: 1,207,925 Effective search space: 353922025 Effective search space used: 353922025 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: 131 (55.1 bits)