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= 0037.0180.p (422 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... 579 e-166 gi|300311013|ref|YP_003775105.1| glycine/D-amino acid oxidase [H... 263 3e-71 gi|300310779|ref|YP_003774871.1| D-amino acid dehydrogenase smal... 241 1e-64 gi|300311555|ref|YP_003775647.1| D-amino acid dehydrogenase smal... 139 5e-34 gi|300313873|ref|YP_003777965.1| glycine/D-amino acid oxidase [H... 133 3e-32 >gi|300309666|ref|YP_003773758.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 421 Score = 579 bits (1492), Expect = e-166, Method: Compositional matrix adjust. Identities = 286/420 (68%), Positives = 335/420 (79%), Gaps = 1/420 (0%) Query: 1 MQICVLGAGVIGVTSAYRLLEDGHQVTLLDARAQAGAGTSLGNGAQLSYSYVAPLADPSV 60 M ICV+GAGVIGVT+AYRLL+DGHQV+L+D R Q GAGTS GNGAQLSYSYVAPLADPSV Sbjct: 1 MHICVMGAGVIGVTTAYRLLQDGHQVSLIDERDQPGAGTSQGNGAQLSYSYVAPLADPSV 60 Query: 61 WTHWPHYLFSADSPLTLKPKLDPAQWRWLIRFLAASNAARVQRTTIELLQLAFYSRDEMT 120 W+ W +YLFS DSPLT+KP L+ AQ+RWL FL NA V++TTI+LLQLAFYSRD++T Sbjct: 61 WSKWAYYLFSKDSPLTIKPTLEAAQYRWLAGFLRYCNAGSVRQTTIDLLQLAFYSRDQLT 120 Query: 121 HVLQAAPVEFNHRTAGKLVMYTDPAGLASARKQIAFQAQHGCQQEVIDAARCLEIEPALG 180 + F+H+ +GKLVM+TD GL +A Q+ FQAQ+GCQQEV+DAA+C+ IEPALG Sbjct: 121 QWNGRLKLSFDHQRSGKLVMFTDAQGLEAAAGQVRFQAQYGCQQEVLDAAQCIRIEPALG 180 Query: 181 KARRNWAGGVYTPSEEAGDCAQFCQALVERMQANPNFRFLPSTTVTGVTLRDGAIQSVGT 240 +++R+W GGVYT SEEAGDC FC+ALV MQA+PNFRF+ +T V + A+ +V Sbjct: 181 RSQRDWVGGVYTRSEEAGDCPAFCRALVAAMQADPNFRFIGGARITAVRRQGSALSAVQA 240 Query: 241 GSGPIDADAFVLALGANSADFARRAGFSLPLYPLKGYSITVPLDDALSQAAAPQVSITDI 300 G+ I A FVLALGA+SADFAR+ LPLYPLKGYSITVPL+D S+AAAPQVSITDI Sbjct: 241 GNEWISAQRFVLALGADSADFARQLDLRLPLYPLKGYSITVPLEDEASRAAAPQVSITDI 300 Query: 301 SRKIVYARLGNRLRVAGRVELVGMDTSIPQRAIDELSNGADELFPGSIHAGNAARLSPWA 360 +RKIVYARLG RLRVAGR+ELVG D SIP RAI EL G ELFP + G ARLSPW Sbjct: 301 ARKIVYARLGQRLRVAGRIELVGQDRSIPPRAIAELKQGMRELFPDCV-LGEDARLSPWM 359 Query: 361 GFRPATPSGVPVIGASPVRNLYLNIGQGALGWTLACGSAALLAAQIGGRKTAIDDAPFRY 420 GFRPATPSGVP++GA PV NLYLNIGQGALGWTLACGSAAL+A QI GR +IDD PFRY Sbjct: 360 GFRPATPSGVPIVGACPVDNLYLNIGQGALGWTLACGSAALIADQIAGRPCSIDDTPFRY 419 >gi|300311013|ref|YP_003775105.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 433 Score = 263 bits (671), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 157/415 (37%), Positives = 222/415 (53%), Gaps = 9/415 (2%) Query: 1 MQICVLGAGVIGVTSAYRLLEDGHQVTLLDARAQAGAGTSLGNGAQLSYSYVAPLADPSV 60 M++ +LG+GVIGVTSA+ L GH VT+LD + TS GN Q+S Y +P A P + Sbjct: 1 MRVVILGSGVIGVTSAWYLARAGHDVTVLDRQPGPALETSFGNAGQISPGYASPWAAPGI 60 Query: 61 WTHWPHYLFSADSPLTLKPKLDPAQWRWLIRFLAASNAARVQRTTIELLQLAFYSRDEMT 120 ++F +PL ++ Q RW+ + L NA R +++LA YSRD + Sbjct: 61 PLKAIKWMFQEHAPLAIRLDGSFNQLRWMWQMLRNCNAERYAVNKERMVRLAEYSRDCLR 120 Query: 121 HVLQAAPVEFNHRTAGKLVMYTDPAGLASARKQIAFQAQHGCQQEVIDAARCLEIEPALG 180 + + + R G L ++ L A K IA + G E++ + EPAL Sbjct: 121 DLRADVGIPYEGRQQGTLQLFRSQEQLEGAAKDIAVLKEAGVPFELLTPDQLGNAEPALA 180 Query: 181 KARRNWAGGVYTPSEEAGDCAQFCQALVERMQANPNFRFLPSTTVTGVTLRDGAIQSVGT 240 K R GG+ P++E GDC F L M +F + + + G I V Sbjct: 181 KVRDKLTGGLRLPNDETGDCQLFTTRLAT-MAEQIGVKFRYGVDIDALAMAGGKIAGVVC 239 Query: 241 GSGPIDADAFVLALGANSAD-FARRAGF-SLPLYPLKGYSITVPLDDALSQAAAPQVSIT 298 G + AD++V+ALG+ S G ++P+YPLKGYSITVP+ DA +AAP +I Sbjct: 240 GKELVQADSYVVALGSYSPQLLGEVPGLPAIPVYPLKGYSITVPITDA---SAAPVSTIL 296 Query: 299 DISRKIVYARLGNRLRVAGRVELVGMDTSIPQRAIDELSNGADELFPGSIHAGNAARLSP 358 D + KI R +R+RV G E+VG DT++ + L ++LFPG AG+ A+ S Sbjct: 297 DETYKIAVTRFDDRIRVGGMAEIVGYDTALKAKRRATLELVVNDLFPG---AGDTAQASF 353 Query: 359 WAGFRPATPSGVPVIGASPVRNLYLNIGQGALGWTLACGSAALLAAQIGGRKTAI 413 W G RP TP G PV+GA+PV NLY+N G G LGWT++CGS LLA I GR+ AI Sbjct: 354 WTGLRPMTPDGTPVVGATPVSNLYINTGHGTLGWTMSCGSGQLLADLISGRRPAI 408 >gi|300310779|ref|YP_003774871.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 436 Score = 241 bits (614), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 149/426 (34%), Positives = 213/426 (50%), Gaps = 18/426 (4%) Query: 1 MQICVLGAGVIGVTSAYRLLEDGHQVTLLDARAQAGAGTSLGNGAQLSYSYVAPLADPSV 60 M++ VLGAG+IG SA+ L + G+ VT++D + A TS NG Q+S S+ P A+P+ Sbjct: 1 MKVIVLGAGIIGTASAWFLKKQGYDVTVIDRQPGAAQETSFANGCQISVSHAEPWANPAA 60 Query: 61 WTHWPHYLFSADSPLTLKPKLDPAQWRWLIRFLAASNAARVQRTTIELLQLAFYSRDEMT 120 +L D+PL + + + QW+W + FL AAR ++ L YSR + Sbjct: 61 PMKVLKWLGKEDAPLLYRFRPEWLQWKWAVAFLRECTAARTDENIRNIVALCEYSRQTLQ 120 Query: 121 HVLQAAPVEFNHRTAGKLVMYTDPAGLASARKQIAFQAQHGCQQEVIDAARCLEIEPALG 180 V ++++H T G L YT+ + GC +E I A + IEPAL Sbjct: 121 AVRAETGIQYDHLTRGILHFYTEEKEFQDSLPAAKLMRDLGCPRESIGADEVVRIEPALA 180 Query: 181 KARRNWAGGVYTPSEEAGDCAQFCQALVER-MQANPNFRFLPSTTVTGVTLRDGAIQSVG 239 R GG +T ++E+GD + L ++ +A FR+ STT+T + + Sbjct: 181 SIRNKIVGGDFTATDESGDVFKLTTGLAKKSAEAGVEFRY--STTITRLITEGAGAAARV 238 Query: 240 TGSGPID---------ADAFVLALGANSADFARRAGFSLPLYPLKGYSITVPLDDALSQA 290 TG I+ AD FV+A+G+ S + G L LYP KGYS T + + Sbjct: 239 TGVEIINPDGRHEVLKADTFVVAMGSFSQQLVKPLGIDLLLYPGKGYSATYQITNP---D 295 Query: 291 AAPQVSITDISRKIVYARLGNRLRVAGRVELVGMDTSIPQRAIDELSNGADELFPGSIHA 350 AAP VS+TD K+V +RLG+RLRVAG EL G + + ++ ELFP Sbjct: 296 AAPTVSLTDDGYKLVVSRLGDRLRVAGTCELNGYTRELNTTRCEAITRRTRELFPDGCDY 355 Query: 351 GNAARLSPWAGFRPATPSGVPVIGASPVRNLYLNIGQGALGWTLACGSAALLAAQIGGRK 410 N + W G RP TPS VP +G + NLYLN G G LGWT+ CGS +A + G Sbjct: 356 ENP---TYWTGLRPLTPSNVPYVGKTKFANLYLNTGHGTLGWTMGCGSGRAIAEIVAGHV 412 Query: 411 TAIDDA 416 ID A Sbjct: 413 PEIDFA 418 >gi|300311555|ref|YP_003775647.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 139 bits (350), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 125/426 (29%), Positives = 203/426 (47%), Gaps = 29/426 (6%) Query: 2 QICVLGAGVIGVTSAYRLLEDGHQVTLLDARAQAGAGTSLGNGAQLSYSYVAPLADPSVW 61 QI V+G G+ G+ SAY L G++V +++ RA + G+ L+ PL P Sbjct: 7 QIAVIGGGLSGICSAYFLATKGYEVAVIERRAHVAEEATFGDSGLLAPGTAMPLTLPGAL 66 Query: 62 THWPHYLFSADSPLTLKPKLDPAQWRWLIRFLAASNAARVQRTTIELLQLAFYSRDEMTH 121 + F + + L D + RW+ AA Q I L +L+ Y +D +T Sbjct: 67 ATFA-CRFQDEPRVLLASGADFGRRRWMRATRAAQQHHFAQHKLI-LSRLSAYGQD-LTQ 123 Query: 122 VLQAAPVEFNHRTAGKLVMYTDPAGLAS--ARKQIAFQAQHGCQQEVIDAARCLEIEPAL 179 LQA + +AG ++ A A A ++ A Q ++ +Q +DAA +EPA Sbjct: 124 QLQAHYNMEHENSAGVFHLFRQSAEAARLPALQEAASQCEY--KQLTLDAAGIRALEPAF 181 Query: 180 GKARRNWAGGVYTPSEEAGDCAQFCQALVERMQA-NPNFRFLPSTTVTGVTLRDGA---- 234 + AG +Y P + AG+ F + + QA +F F ++TV+ + G Sbjct: 182 -SSEAALAGALYYPDDIAGNSVLFAKQMRNAAQALGVSFHF--NSTVSSIRSEFGGRVTL 238 Query: 235 -IQSVGTGSGPIDADAFVLALGANSADFARRAGFSLPLYPLKGYSITVPL---DDALSQA 290 +QS S + DA V+A G SA + SLPL L+ YS VP+ DDA Sbjct: 239 EVQSPHLASH-LTMDAVVVAAGMASAALLQPLDTSLPLRALQSYSALVPVKNPDDA---- 293 Query: 291 AAPQVSITDISRKIVYARLGNRLRVAGRVELVGMDTSIPQRAIDELSNGADELFPGSIHA 350 P +++ D S K+ RLG+R+R++G + V ++P +A+ L A + +P +A Sbjct: 294 --PTMALYDDSYKVAMTRLGSRIRISGLLGFVPASQTLPPKALRNLLKIAGDYYP---NA 348 Query: 351 GNAARLSPWAGFRPATPSGVPVIGASPVRNLYLNIGQGALGWTLACGSAALLAAQIGGRK 410 N + W+ P+G+PV+G + N+++N+G G GW + GSA LL+ + G + Sbjct: 349 ANYNQAHFWSNSIAMMPTGLPVVGPTRQGNIFVNVGHGVTGWAASVGSARLLSDMMAGEE 408 Query: 411 TAIDDA 416 T I A Sbjct: 409 TEIATA 414 >gi|300313873|ref|YP_003777965.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 428 Score = 133 bits (334), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 118/420 (28%), Positives = 192/420 (45%), Gaps = 15/420 (3%) Query: 4 CVLGAGVIGVTSAYRLLEDGHQVTLLDAR-AQAGAGTSLGNGAQLSYSYVAPLADPSVWT 62 V+GAG +G+ SA L+ G +V+LLD + S GN LS V P +P +W Sbjct: 14 VVIGAGAVGLMSAIHALDQGLEVSLLDFNPVGSEEAASYGNAGWLSSHSVIPPVEPGMWK 73 Query: 63 HWPHYLFSADSPLTLKPKLDPAQWRWLIRFLAASNAARVQRTTIELLQLAFYSRDEMTHV 122 P YL PL+++ + P WL+R LA++ R++ T L L +R + Sbjct: 74 KVPGYLMDPIGPLSIRWRYLPRLTPWLLRNLASARRERIRATARALRTLVVDARTLHLDI 133 Query: 123 LQAAPVEFNHRTAGKLVMYTDPAGLASARKQIAFQAQHGCQQEVIDAARCLEIEPALGKA 182 + A V T+G L +Y + + + G Q ++A EP L Sbjct: 134 ARRAGVAHLIDTSGVLHVYRSRQQFEGDAFGWSVRRELGIQWSELEAEALRRREPDL--- 190 Query: 183 RRNWAGGVYTPSEEAGDC---AQFCQALVERMQANPNFRFLPSTTVTGVTLRDGAIQSVG 239 + A G +EAG C A + QAL A R TG + +G +++V Sbjct: 191 --DPAFGFAVQVDEAGHCKNPAAYLQALQAYALARGAHRI--DARATGFRIEEGRLKAVL 246 Query: 240 TGSGPIDADAFVLALGANSADFARRAGFSLPLYPLKGYSITVPLDDALSQAAAPQVSITD 299 T +G + DA V+ GA S A +AG + L +GY + + ++A P + +++ Sbjct: 247 TETGEVACDAAVICAGARSKALAAQAGDRVQLESERGYHALIRGHEQAARARTPMM-LSE 305 Query: 300 ISRKIVYARLGNRLRVAGRVELVGMDTSIPQRAIDELSNGADELFPGSIHAGNAARLSPW 359 K++ ++ LR+AG+VE + + R + + + A +LFPG AA + W Sbjct: 306 F--KVIATQMETGLRIAGQVEFASFEAAPDWRRGEIMRDIALKLFPGLPRDLPAADVRYW 363 Query: 360 AGFRPATPSGVPVIG-ASPVRNLYLNIGQGALGWTLACGSAALLAAQIGGRKTAIDDAPF 418 G RP+TP G+P IG A ++ G G +G + + ++A + G+ ID APF Sbjct: 364 LGRRPSTPDGMPCIGYARASSDIVHAYGHGHIGLGCSARTGRIVAQLLAGQTPEIDLAPF 423 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 0.320 0.134 0.406 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: 1,463,218 Number of extensions: 67413 Number of successful extensions: 285 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 269 Number of HSP's successfully gapped: 5 Length of query: 422 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 334 Effective length of database: 1,203,190 Effective search space: 401865460 Effective search space used: 401865460 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)