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= 0026.0097.p (426 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310779|ref|YP_003774871.1| D-amino acid dehydrogenase smal... 759 0.0 gi|300311013|ref|YP_003775105.1| glycine/D-amino acid oxidase [H... 346 2e-96 gi|300309666|ref|YP_003773758.1| D-amino acid dehydrogenase smal... 248 9e-67 gi|300311555|ref|YP_003775647.1| D-amino acid dehydrogenase smal... 171 9e-44 gi|300313873|ref|YP_003777965.1| glycine/D-amino acid oxidase [H... 114 2e-26 >gi|300310779|ref|YP_003774871.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 436 Score = 759 bits (1960), Expect = 0.0, Method: Compositional matrix adjust. Identities = 359/424 (84%), Positives = 396/424 (93%), Gaps = 9/424 (2%) Query: 1 MKVIVLGAGIIGTASAWFLKREGHDVTVIDRQPGAAQETSFANGCQISVSHAEPWANPSA 60 MKVIVLGAGIIGTASAWFLK++G+DVTVIDRQPGAAQETSFANGCQISVSHAEPWANP+A Sbjct: 1 MKVIVLGAGIIGTASAWFLKKQGYDVTVIDRQPGAAQETSFANGCQISVSHAEPWANPAA 60 Query: 61 PLKVLKWLGKEDAPLLYRFRPEWLQWKWAVSFLRECTPARTDANIRQIVALCEYSRQTLV 120 P+KVLKWLGKEDAPLLYRFRPEWLQWKWAV+FLRECT ARTD NIR IVALCEYSRQTL Sbjct: 61 PMKVLKWLGKEDAPLLYRFRPEWLQWKWAVAFLRECTAARTDENIRNIVALCEYSRQTLQ 120 Query: 121 ALRAETGIQYDHLNKGILHFYTEEKEFELSLPAAKLMRDLGCQRDSISADEVIKIEPALA 180 A+RAETGIQYDHL +GILHFYTEEKEF+ SLPAAKLMRDLGC R+SI ADEV++IEPALA Sbjct: 121 AVRAETGIQYDHLTRGILHFYTEEKEFQDSLPAAKLMRDLGCPRESIGADEVVRIEPALA 180 Query: 181 SIRDKIVGGDFTASDESGDVYKLTTGLAQKAENAGVDFQFNTTITRLLTEGA-------- 232 SIR+KIVGGDFTA+DESGDV+KLTTGLA+K+ AGV+F+++TTITRL+TEGA Sbjct: 181 SIRNKIVGGDFTATDESGDVFKLTTGLAKKSAEAGVEFRYSTTITRLITEGAGAAARVTG 240 Query: 233 -EXIDGAGRHKVLRADAFVVAMGSFSEPLLRPLGINLLLYPGKGYSATYKVTNPDAAPTV 291 E I+ GRH+VL+AD FVVAMGSFS+ L++PLGI+LLLYPGKGYSATY++TNPDAAPTV Sbjct: 241 VEIINPDGRHEVLKADTFVVAMGSFSQQLVKPLGIDLLLYPGKGYSATYQITNPDAAPTV 300 Query: 292 SLTDDGYKLVVSRLGDRLRVAGTCELNGYTRELNTTRCDAITRRTRELFPDGCDYDNPVY 351 SLTDDGYKLVVSRLGDRLRVAGTCELNGYTRELNTTRC+AITRRTRELFPDGCDY+NP Y Sbjct: 301 SLTDDGYKLVVSRLGDRLRVAGTCELNGYTRELNTTRCEAITRRTRELFPDGCDYENPTY 360 Query: 352 WTGLRPLTPSNIPYVGKTRFSNLYLNTGHGTLGWTMGCGSGRAIAEIIAGRQPEIDFGFT 411 WTGLRPLTPSN+PYVGKT+F+NLYLNTGHGTLGWTMGCGSGRAIAEI+AG PEIDF FT Sbjct: 361 WTGLRPLTPSNVPYVGKTKFANLYLNTGHGTLGWTMGCGSGRAIAEIVAGHVPEIDFAFT 420 Query: 412 GLPR 415 GLPR Sbjct: 421 GLPR 424 >gi|300311013|ref|YP_003775105.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 433 Score = 346 bits (887), Expect = 2e-96, Method: Compositional matrix adjust. Identities = 176/408 (43%), Positives = 247/408 (60%), Gaps = 2/408 (0%) Query: 1 MKVIVLGAGIIGTASAWFLKREGHDVTVIDRQPGAAQETSFANGCQISVSHAEPWANPSA 60 M+V++LG+G+IG SAW+L R GHDVTV+DRQPG A ETSF N QIS +A PWA P Sbjct: 1 MRVVILGSGVIGVTSAWYLARAGHDVTVLDRQPGPALETSFGNAGQISPGYASPWAAPGI 60 Query: 61 PLKVLKWLGKEDAPLLYRFRPEWLQWKWAVSFLRECTPARTDANIRQIVALCEYSRQTLV 120 PLK +KW+ +E APL R + Q +W LR C R N ++V L EYSR L Sbjct: 61 PLKAIKWMFQEHAPLAIRLDGSFNQLRWMWQMLRNCNAERYAVNKERMVRLAEYSRDCLR 120 Query: 121 ALRAETGIQYDHLNKGILHFYTEEKEFELSLPAAKLMRDLGCQRDSISADEVIKIEPALA 180 LRA+ GI Y+ +G L + +++ E + ++++ G + ++ D++ EPALA Sbjct: 121 DLRADVGIPYEGRQQGTLQLFRSQEQLEGAAKDIAVLKEAGVPFELLTPDQLGNAEPALA 180 Query: 181 SIRDKIVGGDFTASDESGDVYKLTTGLAQKAENAGVDFQFNTTITRLLTEGAEXIDGAGR 240 +RDK+ GG +DE+GD TT LA AE GV F++ I L G + Sbjct: 181 KVRDKLTGGLRLPNDETGDCQLFTTRLATMAEQIGVKFRYGVDIDALAMAGGKIAGVVCG 240 Query: 241 HKVLRADAFVVAMGSFSEPLLRPL-GINLL-LYPGKGYSATYKVTNPDAAPTVSLTDDGY 298 ++++AD++VVA+GS+S LL + G+ + +YP KGYS T +T+ AAP ++ D+ Y Sbjct: 241 KELVQADSYVVALGSYSPQLLGEVPGLPAIPVYPLKGYSITVPITDASAAPVSTILDETY 300 Query: 299 KLVVSRLGDRLRVAGTCELNGYTRELNTTRCDAITRRTRELFPDGCDYDNPVYWTGLRPL 358 K+ V+R DR+RV G E+ GY L R + +LFP D +WTGLRP+ Sbjct: 301 KIAVTRFDDRIRVGGMAEIVGYDTALKAKRRATLELVVNDLFPGAGDTAQASFWTGLRPM 360 Query: 359 TPSNIPYVGKTRFSNLYLNTGHGTLGWTMGCGSGRAIAEIIAGRQPEI 406 TP P VG T SNLY+NTGHGTLGWTM CGSG+ +A++I+GR+P I Sbjct: 361 TPDGTPVVGATPVSNLYINTGHGTLGWTMSCGSGQLLADLISGRRPAI 408 >gi|300309666|ref|YP_003773758.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 421 Score = 248 bits (632), Expect = 9e-67, Method: Compositional matrix adjust. Identities = 155/416 (37%), Positives = 216/416 (51%), Gaps = 12/416 (2%) Query: 1 MKVIVLGAGIIGTASAWFLKREGHDVTVIDR--QPGAAQETSFANGCQISVSHAEPWANP 58 M + V+GAG+IG +A+ L ++GH V++ID QPGA TS NG Q+S S+ P A+P Sbjct: 1 MHICVMGAGVIGVTTAYRLLQDGHQVSLIDERDQPGAG--TSQGNGAQLSYSYVAPLADP 58 Query: 59 SAPLKVLKWLGKEDAPLLYRFRPEWLQWKWAVSFLRECTPARTDANIRQIVALCEYSRQT 118 S K +L +D+PL + E Q++W FLR C ++ L YSR Sbjct: 59 SVWSKWAYYLFSKDSPLTIKPTLEAAQYRWLAGFLRYCNAGSVRQTTIDLLQLAFYSRDQ 118 Query: 119 LVALRAETGIQYDHLNKGILHFYTEEKEFELSLPAAKLMRDLGCQRDSISADEVIKIEPA 178 L + +DH G L +T+ + E + + GCQ++ + A + I+IEPA Sbjct: 119 LTQWNGRLKLSFDHQRSGKLVMFTDAQGLEAAAGQVRFQAQYGCQQEVLDAAQCIRIEPA 178 Query: 179 LASIRDKIVGGDFTASDESGDVYKLTTGLAQKAENAGVDFQF--NTTITRLLTEGAEXID 236 L + VGG +T S+E+GD L A A +F+F IT + +G+ Sbjct: 179 LGRSQRDWVGGVYTRSEEAGDCPAFCRALV-AAMQADPNFRFIGGARITAVRRQGSALSA 237 Query: 237 GAGRHKVLRADAFVVAMGSFSEPLLRPLGINLLLYPGKGYSATYKVTNP---DAAPTVSL 293 ++ + A FV+A+G+ S R L + L LYP KGYS T + + AAP VS+ Sbjct: 238 VQAGNEWISAQRFVLALGADSADFARQLDLRLPLYPLKGYSITVPLEDEASRAAAPQVSI 297 Query: 294 TDDGYKLVVSRLGDRLRVAGTCELNGYTRELNTTRCDAITRRTRELFPDGCDYDNPVY-- 351 TD K+V +RLG RLRVAG EL G R + + + RELFPD ++ Sbjct: 298 TDIARKIVYARLGQRLRVAGRIELVGQDRSIPPRAIAELKQGMRELFPDCVLGEDARLSP 357 Query: 352 WTGLRPLTPSNIPYVGKTRFSNLYLNTGHGTLGWTMGCGSGRAIAEIIAGRQPEID 407 W G RP TPS +P VG NLYLN G G LGWT+ CGS IA+ IAGR ID Sbjct: 358 WMGFRPATPSGVPIVGACPVDNLYLNIGQGALGWTLACGSAALIADQIAGRPCSID 413 >gi|300311555|ref|YP_003775647.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 171 bits (433), Expect = 9e-44, Method: Compositional matrix adjust. Identities = 115/414 (27%), Positives = 208/414 (50%), Gaps = 18/414 (4%) Query: 2 KVIVLGAGIIGTASAWFLKREGHDVTVIDRQPGAAQETSFANGCQISVSHAEPWANPSAP 61 ++ V+G G+ G SA+FL +G++V VI+R+ A+E +F + ++ A P P A Sbjct: 7 QIAVIGGGLSGICSAYFLATKGYEVAVIERRAHVAEEATFGDSGLLAPGTAMPLTLPGA- 65 Query: 62 LKVLKWLGKEDAPLLYRFRPEWLQWKWAVSFLRECTPARTD--ANIRQIVA-LCEYSRQT 118 L +++ +L ++ + +W +R A+ A + I++ L Y + Sbjct: 66 LATFACRFQDEPRVLLASGADFGRRRW----MRATRAAQQHHFAQHKLILSRLSAYGQDL 121 Query: 119 LVALRAETGIQYDHLNKGILHFYTEEKEFELSLPAAKLMRDLGCQRDSISADE--VIKIE 176 L+A +++++ + G+ H + + E LPA + C+ ++ D + +E Sbjct: 122 TQQLQAHYNMEHEN-SAGVFHLFRQSAE-AARLPALQEAAS-QCEYKQLTLDAAGIRALE 178 Query: 177 PALASIRDKIVGGDFTASDESGDVYKLTTGLAQKAENAGVDFQFNTTITRLLTE--GAEX 234 PA +S + G + D +G+ + A+ GV F FN+T++ + +E G Sbjct: 179 PAFSS-EAALAGALYYPDDIAGNSVLFAKQMRNAAQALGVSFHFNSTVSSIRSEFGGRVT 237 Query: 235 IDGAGRHKV--LRADAFVVAMGSFSEPLLRPLGINLLLYPGKGYSATYKVTNPDAAPTVS 292 ++ H L DA VVA G S LL+PL +L L + YSA V NPD APT++ Sbjct: 238 LEVQSPHLASHLTMDAVVVAAGMASAALLQPLDTSLPLRALQSYSALVPVKNPDDAPTMA 297 Query: 293 LTDDGYKLVVSRLGDRLRVAGTCELNGYTRELNTTRCDAITRRTRELFPDGCDYDNPVYW 352 L DD YK+ ++RLG R+R++G ++ L + + + +P+ +Y+ +W Sbjct: 298 LYDDSYKVAMTRLGSRIRISGLLGFVPASQTLPPKALRNLLKIAGDYYPNAANYNQAHFW 357 Query: 353 TGLRPLTPSNIPYVGKTRFSNLYLNTGHGTLGWTMGCGSGRAIAEIIAGRQPEI 406 + + P+ +P VG TR N+++N GHG GW GS R +++++AG + EI Sbjct: 358 SNSIAMMPTGLPVVGPTRQGNIFVNVGHGVTGWAASVGSARLLSDMMAGEETEI 411 >gi|300313873|ref|YP_003777965.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 428 Score = 114 bits (284), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 109/424 (25%), Positives = 177/424 (41%), Gaps = 36/424 (8%) Query: 4 IVLGAGIIGTASAWFLKREGHDVTVIDRQP-GAAQETSFANGCQISVSHAEPWANPSAPL 62 +V+GAG +G SA +G +V+++D P G+ + S+ N +S P P Sbjct: 14 VVIGAGAVGLMSAIHALDQGLEVSLLDFNPVGSEEAASYGNAGWLSSHSVIPPVEPGMWK 73 Query: 63 KVLKWLGKEDAPLLYRFRPEWLQWKWAVSFLRECTPARTDANIRQIVALCEYSRQTLVAL 122 KV +L PL R+R W + L R A R + L +R + + Sbjct: 74 KVPGYLMDPIGPLSIRWRYLPRLTPWLLRNLASARRERIRATARALRTLVVDARTLHLDI 133 Query: 123 RAETGIQYDHLNKGILHFYTEEKEFELSLPAAKLMRDLGCQRDSISADEVIKIEPALASI 182 G+ + G+LH Y ++FE + R+LG Q + A+ + + EP L Sbjct: 134 ARRAGVAHLIDTSGVLHVYRSRQQFEGDAFGWSVRRELGIQWSELEAEALRRREPDL--- 190 Query: 183 RDKIVGGDFTASDESG------------DVYKLTTGLAQKAENAGVDFQFNT-TITRLLT 229 D G DE+G Y L G A + + F+ + +LT Sbjct: 191 -DPAFGFAVQV-DEAGHCKNPAAYLQALQAYALARG-AHRIDARATGFRIEEGRLKAVLT 247 Query: 230 EGAEXIDGAGRHKVLRADAFVVAMGSFSEPLLRPLGINLLLYPGKGYSATYKVTNPDAAP 289 E E + DA V+ G+ S+ L G + L +GY A + A Sbjct: 248 ETGE----------VACDAAVICAGARSKALAAQAGDRVQLESERGYHALIRGHEQAARA 297 Query: 290 TVSLTDDGYKLVVSRLGDRLRVAGTCELNGYTRELNTTRCDAITRRTRELFPDGCDYDNP 349 + +K++ +++ LR+AG E + + R + + +LFP G D P Sbjct: 298 RTPMMLSEFKVIATQMETGLRIAGQVEFASFEAAPDWRRGEIMRDIALKLFP-GLPRDLP 356 Query: 350 V----YWTGLRPLTPSNIPYVGKTRFSNLYLNT-GHGTLGWTMGCGSGRAIAEIIAGRQP 404 YW G RP TP +P +G R S+ ++ GHG +G +GR +A+++AG+ P Sbjct: 357 AADVRYWLGRRPSTPDGMPCIGYARASSDIVHAYGHGHIGLGCSARTGRIVAQLLAGQTP 416 Query: 405 EIDF 408 EID Sbjct: 417 EIDL 420 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 0.137 0.419 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: 1,375,508 Number of extensions: 57689 Number of successful extensions: 229 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 219 Number of HSP's successfully gapped: 6 Length of query: 426 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 338 Effective length of database: 1,203,190 Effective search space: 406678220 Effective search space used: 406678220 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 (21.7 bits) S2: 132 (55.5 bits)