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= 0033.0099.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|300313873|ref|YP_003777965.1| glycine/D-amino acid oxidase [H... 767 0.0 gi|300311013|ref|YP_003775105.1| glycine/D-amino acid oxidase [H... 116 3e-27 gi|300310779|ref|YP_003774871.1| D-amino acid dehydrogenase smal... 107 1e-24 gi|300309666|ref|YP_003773758.1| D-amino acid dehydrogenase smal... 100 3e-22 gi|300311555|ref|YP_003775647.1| D-amino acid dehydrogenase smal... 63 4e-11 >gi|300313873|ref|YP_003777965.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 428 Score = 767 bits (1980), Expect = 0.0, Method: Compositional matrix adjust. Identities = 370/428 (86%), Positives = 399/428 (93%) Query: 1 MSTSSAIAFPRHAVIIGTGVVGLMTAIHALDQGLQVTLLDFNPAGSEEASSYGNAGWLSS 60 MST I+FPRHAV+IG G VGLM+AIHALDQGL+V+LLDFNP GSEEA+SYGNAGWLSS Sbjct: 1 MSTLPDISFPRHAVVIGAGAVGLMSAIHALDQGLEVSLLDFNPVGSEEAASYGNAGWLSS 60 Query: 61 HSVIPPVEPGMWKKVPGYLMDPLGPLSIRWRYLPRLTPWLLRNLASARRDRIRTTARALR 120 HSVIPPVEPGMWKKVPGYLMDP+GPLSIRWRYLPRLTPWLLRNLASARR+RIR TARALR Sbjct: 61 HSVIPPVEPGMWKKVPGYLMDPIGPLSIRWRYLPRLTPWLLRNLASARRERIRATARALR 120 Query: 121 TLVADARRLHLEVAQRAGVAHLIDTSGVLHVYRSRQHFDNDAFGWGVRRELGIEWQEVEG 180 TLV DAR LHL++A+RAGVAHLIDTSGVLHVYRSRQ F+ DAFGW VRRELGI+W E+E Sbjct: 121 TLVVDARTLHLDIARRAGVAHLIDTSGVLHVYRSRQQFEGDAFGWSVRRELGIQWSELEA 180 Query: 181 AALREREPDLDPAFGFAVQVGEAGHCRNPAAYLQALQAHALARGASRVEGRATGFRVEQG 240 ALR REPDLDPAFGFAVQV EAGHC+NPAAYLQALQA+ALARGA R++ RATGFR+E+G Sbjct: 181 EALRRREPDLDPAFGFAVQVDEAGHCKNPAAYLQALQAYALARGAHRIDARATGFRIEEG 240 Query: 241 RLKAVLTEQGEIACDAAVICAGARSKALAAAAGDQVQLESERGYHAVIGGHDQEARARTP 300 RLKAVLTE GE+ACDAAVICAGARSKALAA AGD+VQLESERGYHA+I GH+Q ARARTP Sbjct: 241 RLKAVLTETGEVACDAAVICAGARSKALAAQAGDRVQLESERGYHALIRGHEQAARARTP 300 Query: 301 MMVSEFKVIATQMETGLRIAGQVEFASFEAAPDWRRGEIMRDIALKLFPGLPRTLPAEDV 360 MM+SEFKVIATQMETGLRIAGQVEFASFEAAPDWRRGEIMRDIALKLFPGLPR LPA DV Sbjct: 301 MMLSEFKVIATQMETGLRIAGQVEFASFEAAPDWRRGEIMRDIALKLFPGLPRDLPAADV 360 Query: 361 KYWLGRRPSTPDGMPCIGPASASADIIHAYGHGHIGLGCSARTGRIAAQLLAGEVPEIDL 420 +YWLGRRPSTPDGMPCIG A AS+DI+HAYGHGHIGLGCSARTGRI AQLLAG+ PEIDL Sbjct: 361 RYWLGRRPSTPDGMPCIGYARASSDIVHAYGHGHIGLGCSARTGRIVAQLLAGQTPEIDL 420 Query: 421 APFSPQRF 428 APFSPQRF Sbjct: 421 APFSPQRF 428 >gi|300311013|ref|YP_003775105.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 433 Score = 116 bits (291), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 102/422 (24%), Positives = 180/422 (42%), Gaps = 14/422 (3%) Query: 14 VIIGTGVVGLMTAIHALDQGLQVTLLDFNPAGSEEASSYGNAGWLSSHSVIPPVEPGMWK 73 VI+G+GV+G+ +A + G VT+LD P + E +S+GNAG +S P PG+ Sbjct: 4 VILGSGVIGVTSAWYLARAGHDVTVLDRQPGPALE-TSFGNAGQISPGYASPWAAPGIPL 62 Query: 74 KVPGYLMDPLGPLSIRWRYLPRLTPWLLRNLASARRDRIRTTARALRTLVADARRLHLEV 133 K ++ PL+IR W+ + L + +R + L +R ++ Sbjct: 63 KAIKWMFQEHAPLAIRLDGSFNQLRWMWQMLRNCNAERYAVNKERMVRLAEYSRDCLRDL 122 Query: 134 AQRAGVAHLIDTSGVLHVYRSRQHFDNDAFGWGVRRELGIEWQEVEGAALREREPDLDP- 192 G+ + G L ++RS++ + A V +E G+ ++ + L EP L Sbjct: 123 RADVGIPYEGRQQGTLQLFRSQEQLEGAAKDIAVLKEAGVPFELLTPDQLGNAEPALAKV 182 Query: 193 ----AFGFAVQVGEAGHCRNPAAYLQALQAHALARGASRVEGRATGFRVEQGRLKAVLTE 248 G + E G C+ L + + V+ A + G++ V+ Sbjct: 183 RDKLTGGLRLPNDETGDCQLFTTRLATMAEQIGVKFRYGVDIDA--LAMAGGKIAGVVCG 240 Query: 249 QGEIACDAAVICAGARSKALAAAAGD--QVQLESERGYHAVIGGHDQEARARTPMMVSEF 306 + + D+ V+ G+ S L + + +GY + D A + ++ + Sbjct: 241 KELVQADSYVVALGSYSPQLLGEVPGLPAIPVYPLKGYSITVPITDASAAPVSTILDETY 300 Query: 307 KVIATQMETGLRIAGQVEFASFEAAPDWRRGEIMRDIALKLFPGLPRTLPAEDVKYWLGR 366 K+ T+ + +R+ G E ++ A +R + + LFPG T A +W G Sbjct: 301 KIAVTRFDDRIRVGGMAEIVGYDTALKAKRRATLELVVNDLFPGAGDTAQA---SFWTGL 357 Query: 367 RPSTPDGMPCIGPASASADIIHAYGHGHIGLGCSARTGRIAAQLLAGEVPEIDLAPFSPQ 426 RP TPDG P +G S I+ GHG +G S +G++ A L++G P I S + Sbjct: 358 RPMTPDGTPVVGATPVSNLYINT-GHGTLGWTMSCGSGQLLADLISGRRPAIAHEDLSVE 416 Query: 427 RF 428 R+ Sbjct: 417 RY 418 >gi|300310779|ref|YP_003774871.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 436 Score = 107 bits (268), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 106/425 (24%), Positives = 171/425 (40%), Gaps = 27/425 (6%) Query: 14 VIIGTGVVGLMTAIHALDQGLQVTLLDFNPAGSEEASSYGNAGWLSSHSVIPPVEPGMWK 73 +++G G++G +A QG VT++D P ++E +S+ N +S P P Sbjct: 4 IVLGAGIIGTASAWFLKKQGYDVTVIDRQPGAAQE-TSFANGCQISVSHAEPWANPAAPM 62 Query: 74 KVPGYLMDPLGPLSIRWRYLPRLTPW-----LLRNLASARRDRIRTTARALRTLVADARR 128 KV +L PL R+R P W LR +AR D R + L +R+ Sbjct: 63 KVLKWLGKEDAPLLYRFR--PEWLQWKWAVAFLRECTAARTDE---NIRNIVALCEYSRQ 117 Query: 129 LHLEVAQRAGVAHLIDTSGVLHVYRSRQHFDNDAFGWGVRRELGIEWQEVEGAALREREP 188 V G+ + T G+LH Y + F + + R+LG + + + EP Sbjct: 118 TLQAVRAETGIQYDHLTRGILHFYTEEKEFQDSLPAAKLMRDLGCPRESIGADEVVRIEP 177 Query: 189 DL-----DPAFGFAVQVGEAGHCRNPAAYLQALQAHA-----LARGASRV--EGRATGFR 236 L G E+G L A A + +R+ EG R Sbjct: 178 ALASIRNKIVGGDFTATDESGDVFKLTTGLAKKSAEAGVEFRYSTTITRLITEGAGAAAR 237 Query: 237 VEQGRLKAVLTEQGEIACDAAVICAGARSKALAAAAGDQVQLESERGYHAVIGGHDQEAR 296 V + + D V+ G+ S+ L G + L +GY A + +A Sbjct: 238 VTGVEIINPDGRHEVLKADTFVVAMGSFSQQLVKPLGIDLLLYPGKGYSATYQITNPDAA 297 Query: 297 ARTPMMVSEFKVIATQMETGLRIAGQVEFASFEAAPDWRRGEIMRDIALKLFPGLPRTLP 356 + +K++ +++ LR+AG E + + R E + +LFP Sbjct: 298 PTVSLTDDGYKLVVSRLGDRLRVAGTCELNGYTRELNTTRCEAITRRTRELFPD---GCD 354 Query: 357 AEDVKYWLGRRPSTPDGMPCIGPASASADIIHAYGHGHIGLGCSARTGRIAAQLLAGEVP 416 E+ YW G RP TP +P +G + A++ GHG +G +GR A+++AG VP Sbjct: 355 YENPTYWTGLRPLTPSNVPYVG-KTKFANLYLNTGHGTLGWTMGCGSGRAIAEIVAGHVP 413 Query: 417 EIDLA 421 EID A Sbjct: 414 EIDFA 418 >gi|300309666|ref|YP_003773758.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 421 Score = 100 bits (248), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 111/424 (26%), Positives = 177/424 (41%), Gaps = 20/424 (4%) Query: 12 HAVIIGTGVVGLMTAIHALDQGLQVTLLDFNPAGSEEASSYGNAGWLSSHSVIPPVEPGM 71 H ++G GV+G+ TA L G QV+L+D +S GN LS V P +P + Sbjct: 2 HICVMGAGVIGVTTAYRLLQDGHQVSLIDERDQPG-AGTSQGNGAQLSYSYVAPLADPSV 60 Query: 72 WKKVPGYLMDPLGPLSIRWRYLPRLTPWLLRNLASARRDRIRTTARALRTLVADARRLHL 131 W K YL PL+I+ WL L +R T L L +R Sbjct: 61 WSKWAYYLFSKDSPLTIKPTLEAAQYRWLAGFLRYCNAGSVRQTTIDLLQLAFYSRDQLT 120 Query: 132 EVAQRAGVAHLIDTSGVLHVYRSRQHFDNDAFGWGVRRELGIEWQEVEGAALREREPDL- 190 + R ++ SG L ++ Q + A + + G + + ++ A EP L Sbjct: 121 QWNGRLKLSFDHQRSGKLVMFTDAQGLEAAAGQVRFQAQYGCQQEVLDAAQCIRIEPALG 180 Query: 191 ----DPAFGFAVQVGEAGHCRNPAAYLQALQAHALARGASRVEG--RATGFRVEQGRLKA 244 D G + EAG C A+ +AL A A R G R T R + L A Sbjct: 181 RSQRDWVGGVYTRSEEAGDC---PAFCRALVAAMQADPNFRFIGGARITAVRRQGSALSA 237 Query: 245 VLTEQGEIACDAAVICAGARSKALAAAAGDQVQLESERGYHAVIGGHDQEARARTPMM-V 303 V I+ V+ GA S A ++ L +GY + D+ +RA P + + Sbjct: 238 VQAGNEWISAQRFVLALGADSADFARQLDLRLPLYPLKGYSITVPLEDEASRAAAPQVSI 297 Query: 304 SEF--KVIATQMETGLRIAGQVEFASFEAAPDWRRGEIMRDIALKLFPGLPRTLPAEDVK 361 ++ K++ ++ LR+AG++E + + R ++ +LFP + ED + Sbjct: 298 TDIARKIVYARLGQRLRVAGRIELVGQDRSIPPRAIAELKQGMRELFPD---CVLGEDAR 354 Query: 362 Y--WLGRRPSTPDGMPCIGPASASADIIHAYGHGHIGLGCSARTGRIAAQLLAGEVPEID 419 W+G RP+TP G+P +G A ++ G G +G + + + A +AG ID Sbjct: 355 LSPWMGFRPATPSGVPIVG-ACPVDNLYLNIGQGALGWTLACGSAALIADQIAGRPCSID 413 Query: 420 LAPF 423 PF Sbjct: 414 DTPF 417 >gi|300311555|ref|YP_003775647.1| D-amino acid dehydrogenase small subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 63.2 bits (152), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 98/442 (22%), Positives = 173/442 (39%), Gaps = 54/442 (12%) Query: 11 RHAVIIGTGVVGLMTAIHALDQGLQVTLLDFNPAGSEEASSYGNAGWLSSHSVIPPVEPG 70 R +IG G+ G+ +A +G +V +++ +EEA+ +G++G L+ + +P PG Sbjct: 6 RQIAVIGGGLSGICSAYFLATKGYEVAVIERRAHVAEEAT-FGDSGLLAPGTAMPLTLPG 64 Query: 71 MWKKVPGYLMDPLGPLSIRWRYLPRLTPWLLRNLASARRDRIRTTARA------------ 118 L + R++ PR+ LL + A R R RA Sbjct: 65 -----------ALATFACRFQDEPRV---LLASGADFGRRRWMRATRAAQQHHFAQHKLI 110 Query: 119 LRTLVADARRLHLEVAQRAGVAHLIDTSGVLHVYRSRQHFDNDAFGWGVRRELGIEWQEV 178 L L A + L ++ + H +++GV H++R + + + Sbjct: 111 LSRLSAYGQDLTQQLQAHYNMEHE-NSAGVFHLFRQSAEAARLPALQEAASQCEYKQLTL 169 Query: 179 EGAALREREPDLDPAFGFAVQVGEAGHCR-------NPAAYLQALQAHALARGAS-RVEG 230 + A +R EP F+ + AG N + + ++ A A G S Sbjct: 170 DAAGIRALEP------AFSSEAALAGALYYPDDIAGNSVLFAKQMRNAAQALGVSFHFNS 223 Query: 231 RATGFRVEQGRLKAVLTEQGEIAC----DAAVICAGARSKALAAAAGDQVQLESERGYHA 286 + R E G + + +A DA V+ AG S AL + L + + Y A Sbjct: 224 TVSSIRSEFGGRVTLEVQSPHLASHLTMDAVVVAAGMASAALLQPLDTSLPLRALQSYSA 283 Query: 287 VIGGHDQEARARTPMMVSEFKVIATQMETGLRIAGQVEF--ASFEAAPDWRRGEIMRDIA 344 ++ + + + +KV T++ + +RI+G + F AS P R + IA Sbjct: 284 LVPVKNPDDAPTMALYDDSYKVAMTRLGSRIRISGLLGFVPASQTLPPKALRN--LLKIA 341 Query: 345 LKLFPGLPRTLPAEDVKYWLGRRPSTPDGMPCIGPASASADIIHAYGHGHIGLGCSARTG 404 +P +W P G+P +GP + +I GHG G S + Sbjct: 342 GDYYPNAANY---NQAHFWSNSIAMMPTGLPVVGP-TRQGNIFVNVGHGVTGWAASVGSA 397 Query: 405 RIAAQLLAGEVPEIDLAPFSPQ 426 R+ + ++AGE EI A P+ Sbjct: 398 RLLSDMMAGEETEIATAGLLPR 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 0.321 0.136 0.416 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: 1,354,149 Number of extensions: 56497 Number of successful extensions: 230 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 221 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 (21.9 bits) S2: 132 (55.5 bits)