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= 0022.0298.p (438 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313873|ref|YP_003777965.1| glycine/D-amino acid oxidase [H... 859 0.0 gi|300311013|ref|YP_003775105.1| glycine/D-amino acid oxidase [H... 130 2e-31 gi|300309666|ref|YP_003773758.1| D-amino acid dehydrogenase smal... 109 5e-25 gi|300310779|ref|YP_003774871.1| D-amino acid dehydrogenase smal... 108 8e-25 gi|300311555|ref|YP_003775647.1| D-amino acid dehydrogenase smal... 64 3e-11 >gi|300313873|ref|YP_003777965.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 428 Score = 859 bits (2220), Expect = 0.0, Method: Compositional matrix adjust. Identities = 426/428 (99%), Positives = 427/428 (99%) Query: 11 MSTLPEISFPRHAVVIGAGAVGLMSAIHALDQGLEVSLLDFNPVGSEEAASYGNAGWLSS 70 MSTLP+ISFPRHAVVIGAGAVGLMSAIHALDQGLEVSLLDFNPVGSEEAASYGNAGWLSS Sbjct: 1 MSTLPDISFPRHAVVIGAGAVGLMSAIHALDQGLEVSLLDFNPVGSEEAASYGNAGWLSS 60 Query: 71 HSVIPPVEPGMWKKVPGYLMDPIGPLSIRWRYLPRLTPWLLRNLASARRERIRATARALR 130 HSVIPPVEPGMWKKVPGYLMDPIGPLSIRWRYLPRLTPWLLRNLASARRERIRATARALR Sbjct: 61 HSVIPPVEPGMWKKVPGYLMDPIGPLSIRWRYLPRLTPWLLRNLASARRERIRATARALR 120 Query: 131 TLVVDARTLHLDIARRAGVAHLIDTSGVLHVYRSRQQFEGDAFGWSVRRELGIQWSELEA 190 TLVVDARTLHLDIARRAGVAHLIDTSGVLHVYRSRQQFEGDAFGWSVRRELGIQWSELEA Sbjct: 121 TLVVDARTLHLDIARRAGVAHLIDTSGVLHVYRSRQQFEGDAFGWSVRRELGIQWSELEA 180 Query: 191 EALRRREPDLDPAFGFAVQVDEAGHCKNPAAYLQALQAYALARGAHRIDARATGFRIEEG 250 EALRRREPDLDPAFGFAVQVDEAGHCKNPAAYLQALQAYALARGAHRIDARATGFRIEEG Sbjct: 181 EALRRREPDLDPAFGFAVQVDEAGHCKNPAAYLQALQAYALARGAHRIDARATGFRIEEG 240 Query: 251 RLKAVLTETGEVACDAAVISAGARSKALAAQAGDRVQLESERGYHALIRGHEQAARARTP 310 RLKAVLTETGEVACDAAVI AGARSKALAAQAGDRVQLESERGYHALIRGHEQAARARTP Sbjct: 241 RLKAVLTETGEVACDAAVICAGARSKALAAQAGDRVQLESERGYHALIRGHEQAARARTP 300 Query: 311 MMLSEFKVIATQMETGLRIAGQVEFASFEAAPDWRRGEIMRDIALKLFPGLPRDLPAADV 370 MMLSEFKVIATQMETGLRIAGQVEFASFEAAPDWRRGEIMRDIALKLFPGLPRDLPAADV Sbjct: 301 MMLSEFKVIATQMETGLRIAGQVEFASFEAAPDWRRGEIMRDIALKLFPGLPRDLPAADV 360 Query: 371 RYWLGRRPSTPDGMPCIGYARASSDIVHAYGHGHIGLGCSARTGRIVAQLLAGQTPEIDL 430 RYWLGRRPSTPDGMPCIGYARASSDIVHAYGHGHIGLGCSARTGRIVAQLLAGQTPEIDL Sbjct: 361 RYWLGRRPSTPDGMPCIGYARASSDIVHAYGHGHIGLGCSARTGRIVAQLLAGQTPEIDL 420 Query: 431 APFSPQRF 438 APFSPQRF Sbjct: 421 APFSPQRF 428 >gi|300311013|ref|YP_003775105.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 433 Score = 130 bits (327), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 106/422 (25%), Positives = 187/422 (44%), Gaps = 14/422 (3%) Query: 24 VVIGAGAVGLMSAIHALDQGLEVSLLDFNPVGSEEAASYGNAGWLSSHSVIPPVEPGMWK 83 V++G+G +G+ SA + G +V++LD P G S+GNAG +S P PG+ Sbjct: 4 VILGSGVIGVTSAWYLARAGHDVTVLDRQP-GPALETSFGNAGQISPGYASPWAAPGIPL 62 Query: 84 KVPGYLMDPIGPLSIRWRYLPRLTPWLLRNLASARRERIRATARALRTLVVDARTLHLDI 143 K ++ PL+IR W+ + L + ER + L +R D+ Sbjct: 63 KAIKWMFQEHAPLAIRLDGSFNQLRWMWQMLRNCNAERYAVNKERMVRLAEYSRDCLRDL 122 Query: 144 ARRAGVAHLIDTSGVLHVYRSRQQFEGDAFGWSVRRELGIQWSELEAEALRRREPDLDP- 202 G+ + G L ++RS++Q EG A +V +E G+ + L + L EP L Sbjct: 123 RADVGIPYEGRQQGTLQLFRSQEQLEGAAKDIAVLKEAGVPFELLTPDQLGNAEPALAKV 182 Query: 203 ----AFGFAVQVDEAGHCKNPAAYLQALQAYALARGAHRIDARATGFRIEEGRLKAVLTE 258 G + DE G C+ L + + + +D A + G++ V+ Sbjct: 183 RDKLTGGLRLPNDETGDCQLFTTRLATMAEQIGVKFRYGVDIDA--LAMAGGKIAGVVCG 240 Query: 259 TGEVACDAAVISAGARSKALAAQAGD--RVQLESERGYHALIRGHEQAARARTPMMLSEF 316 V D+ V++ G+ S L + + + +GY + + +A + ++ + Sbjct: 241 KELVQADSYVVALGSYSPQLLGEVPGLPAIPVYPLKGYSITVPITDASAAPVSTILDETY 300 Query: 317 KVIATQMETGLRIAGQVEFASFEAAPDWRRGEIMRDIALKLFPGLPRDLPAADVRYWLGR 376 K+ T+ + +R+ G E ++ A +R + + LFPG A +W G Sbjct: 301 KIAVTRFDDRIRVGGMAEIVGYDTALKAKRRATLELVVNDLFPGAGD---TAQASFWTGL 357 Query: 377 RPSTPDGMPCIGYARASSDIVHAYGHGHIGLGCSARTGRIVAQLLAGQTPEIDLAPFSPQ 436 RP TPDG P +G A S++ GHG +G S +G+++A L++G+ P I S + Sbjct: 358 RPMTPDGTPVVG-ATPVSNLYINTGHGTLGWTMSCGSGQLLADLISGRRPAIAHEDLSVE 416 Query: 437 RF 438 R+ Sbjct: 417 RY 418 >gi|300309666|ref|YP_003773758.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 421 Score = 109 bits (272), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 116/424 (27%), Positives = 180/424 (42%), Gaps = 20/424 (4%) Query: 22 HAVVIGAGAVGLMSAIHALDQGLEVSLLDFNPVGSEEAASYGNAGWLSSHSVIPPVEPGM 81 H V+GAG +G+ +A L G +VSL+D S GN LS V P +P + Sbjct: 2 HICVMGAGVIGVTTAYRLLQDGHQVSLIDERD-QPGAGTSQGNGAQLSYSYVAPLADPSV 60 Query: 82 WKKVPGYLMDPIGPLSIRWRYLPRLTPWLLRNLASARRERIRATARALRTLVVDARTLHL 141 W K YL PL+I+ WL L +R T L L +R Sbjct: 61 WSKWAYYLFSKDSPLTIKPTLEAAQYRWLAGFLRYCNAGSVRQTTIDLLQLAFYSRDQLT 120 Query: 142 DIARRAGVAHLIDTSGVLHVYRSRQQFEGDAFGWSVRRELGIQWSELEAEALRRREPDL- 200 R ++ SG L ++ Q E A + + G Q L+A R EP L Sbjct: 121 QWNGRLKLSFDHQRSGKLVMFTDAQGLEAAAGQVRFQAQYGCQQEVLDAAQCIRIEPALG 180 Query: 201 ----DPAFGFAVQVDEAGHCKNPAAYLQALQAYALARGAHRI--DARATGFRIEEGRLKA 254 D G + +EAG C A+ +AL A A R AR T R + L A Sbjct: 181 RSQRDWVGGVYTRSEEAGDCP---AFCRALVAAMQADPNFRFIGGARITAVRRQGSALSA 237 Query: 255 VLTETGEVACDAAVISAGARSKALAAQAGDRVQLESERGYHALIRGHEQAARARTPMM-L 313 V ++ V++ GA S A Q R+ L +GY + ++A+RA P + + Sbjct: 238 VQAGNEWISAQRFVLALGADSADFARQLDLRLPLYPLKGYSITVPLEDEASRAAAPQVSI 297 Query: 314 SEF--KVIATQMETGLRIAGQVEFASFEAAPDWRRGEIMRDIALKLFPGLPRDLPAADVR 371 ++ K++ ++ LR+AG++E + + R ++ +LFP + D R Sbjct: 298 TDIARKIVYARLGQRLRVAGRIELVGQDRSIPPRAIAELKQGMRELFPDC---VLGEDAR 354 Query: 372 Y--WLGRRPSTPDGMPCIGYARASSDIVHAYGHGHIGLGCSARTGRIVAQLLAGQTPEID 429 W+G RP+TP G+P +G A ++ G G +G + + ++A +AG+ ID Sbjct: 355 LSPWMGFRPATPSGVPIVG-ACPVDNLYLNIGQGALGWTLACGSAALIADQIAGRPCSID 413 Query: 430 LAPF 433 PF Sbjct: 414 DTPF 417 >gi|300310779|ref|YP_003774871.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 436 Score = 108 bits (270), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 112/434 (25%), Positives = 179/434 (41%), Gaps = 45/434 (10%) Query: 24 VVIGAGAVGLMSAIHALDQGLEVSLLDFNPVGSEEAASYGNAGWLSSHSVIPPVEPGMWK 83 +V+GAG +G SA QG +V+++D P G+ + S+ N +S P P Sbjct: 4 IVLGAGIIGTASAWFLKKQGYDVTVIDRQP-GAAQETSFANGCQISVSHAEPWANPAAPM 62 Query: 84 KVPGYLMDPIGPLSIRWRYLPRLTPW-----LLRNLASARRERIRATARALRTLVVDART 138 KV +L PL R+R P W LR +AR + R + L +R Sbjct: 63 KVLKWLGKEDAPLLYRFR--PEWLQWKWAVAFLRECTAARTDE---NIRNIVALCEYSRQ 117 Query: 139 LHLDIARRAGVAHLIDTSGVLHVYRSRQQFEGDAFGWSVRRELGIQWSELEAEALRRREP 198 + G+ + T G+LH Y ++F+ + R+LG + A+ + R EP Sbjct: 118 TLQAVRAETGIQYDHLTRGILHFYTEEKEFQDSLPAAKLMRDLGCPRESIGADEVVRIEP 177 Query: 199 DL-----DPAFGFAVQVDEAGHCKNPAAYLQALQAYA-------------LARGAHRIDA 240 L G DE+G L A A + GA A Sbjct: 178 ALASIRNKIVGGDFTATDESGDVFKLTTGLAKKSAEAGVEFRYSTTITRLITEGAGAA-A 236 Query: 241 RATGFRI--EEGRLKAVLTETGEVACDAAVISAGARSKALAAQAGDRVQLESERGYHALI 298 R TG I +GR + + D V++ G+ S+ L G + L +GY A Sbjct: 237 RVTGVEIINPDGRHEVL-------KADTFVVAMGSFSQQLVKPLGIDLLLYPGKGYSATY 289 Query: 299 RGHEQAARARTPMMLSEFKVIATQMETGLRIAGQVEFASFEAAPDWRRGEIMRDIALKLF 358 + A + +K++ +++ LR+AG E + + R E + +LF Sbjct: 290 QITNPDAAPTVSLTDDGYKLVVSRLGDRLRVAGTCELNGYTRELNTTRCEAITRRTRELF 349 Query: 359 P-GLPRDLPAADVRYWLGRRPSTPDGMPCIGYARASSDIVHAYGHGHIGLGCSARTGRIV 417 P G + P YW G RP TP +P +G + ++ ++ GHG +G +GR + Sbjct: 350 PDGCDYENPT----YWTGLRPLTPSNVPYVGKTKFANLYLNT-GHGTLGWTMGCGSGRAI 404 Query: 418 AQLLAGQTPEIDLA 431 A+++AG PEID A Sbjct: 405 AEIVAGHVPEIDFA 418 >gi|300311555|ref|YP_003775647.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 63.5 bits (153), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 101/438 (23%), Positives = 176/438 (40%), Gaps = 46/438 (10%) Query: 21 RHAVVIGAGAVGLMSAIHALDQGLEVSLLDFNPVGSEEAASYGNAGWLSSHSVIPPVEPG 80 R VIG G G+ SA +G EV++++ +EEA ++G++G L+ + +P PG Sbjct: 6 RQIAVIGGGLSGICSAYFLATKGYEVAVIERRAHVAEEA-TFGDSGLLAPGTAMPLTLPG 64 Query: 81 MWKKVPGYLMDPIGPLSIRWRYLPRLTPWLLRNLASARRERIRATARA-----------L 129 + + R++ PR+ L RR +RAT A L Sbjct: 65 -----------ALATFACRFQDEPRV--LLASGADFGRRRWMRATRAAQQHHFAQHKLIL 111 Query: 130 RTLVVDARTLHLDIARRAGVAHLIDTSGVLHVYRSRQQFEGDAFGWSVRRELGIQWSELE 189 L + L + + H +++GV H++R + + + L+ Sbjct: 112 SRLSAYGQDLTQQLQAHYNMEHE-NSAGVFHLFRQSAEAARLPALQEAASQCEYKQLTLD 170 Query: 190 AEALRRREPDLDPAFGFAVQV----DEAGHCKNPAAYLQALQAYALARG-AHRIDARATG 244 A +R EP A + D AG N + + ++ A A G + ++ + Sbjct: 171 AAGIRALEPAFSSEAALAGALYYPDDIAG---NSVLFAKQMRNAAQALGVSFHFNSTVSS 227 Query: 245 FRIEEGRLKAVLTETGEVAC----DAAVISAGARSKALAAQAGDRVQLESERGYHALIRG 300 R E G + ++ +A DA V++AG S AL + L + + Y AL+ Sbjct: 228 IRSEFGGRVTLEVQSPHLASHLTMDAVVVAAGMASAALLQPLDTSLPLRALQSYSALVPV 287 Query: 301 HEQAARARTPMMLSEFKVIATQMETGLRIAGQVEF--ASFEAAPDWRRGEIMRDIALKLF 358 + +KV T++ + +RI+G + F AS P R + IA + Sbjct: 288 KNPDDAPTMALYDDSYKVAMTRLGSRIRISGLLGFVPASQTLPPKALRN--LLKIAGDYY 345 Query: 359 PGLPRDLPAADVRYWLGRRPSTPDGMPCIGYARASSDIVHAYGHGHIGLGCSARTGRIVA 418 P A +W P G+P +G R + V+ GHG G S + R+++ Sbjct: 346 PNAANYNQA---HFWSNSIAMMPTGLPVVGPTRQGNIFVNV-GHGVTGWAASVGSARLLS 401 Query: 419 QLLAGQTPEIDLAPFSPQ 436 ++AG+ EI A P+ Sbjct: 402 DMMAGEETEIATAGLLPR 419 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 0.322 0.136 0.411 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: 1,347,742 Number of extensions: 55855 Number of successful extensions: 276 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 266 Number of HSP's successfully gapped: 6 Length of query: 438 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 350 Effective length of database: 1,203,190 Effective search space: 421116500 Effective search space used: 421116500 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: 132 (55.5 bits)