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= 0001.0243.p (424 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309600|ref|YP_003773692.1| glycine/D-amino acid oxidase [H... 730 0.0 gi|300310459|ref|YP_003774551.1| glycine/D-amino acid oxidase [H... 446 e-126 gi|300310497|ref|YP_003774589.1| glycine/D-amino acid oxidase [H... 197 2e-51 gi|300310468|ref|YP_003774560.1| glycine/D-amino acid oxidase [H... 68 2e-12 >gi|300309600|ref|YP_003773692.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 425 Score = 730 bits (1885), Expect = 0.0, Method: Compositional matrix adjust. Identities = 364/424 (85%), Positives = 383/424 (90%) Query: 1 MQLKSYWLDTSFPFVSETPDLPAGSCDVLVVGGGITGSAAALALARKGARVVVCEADIVG 60 MQLKSYWLDTS FVS+T LP G+CDV+VVGGGITGSAAALALARKGARVVVCEADIVG Sbjct: 2 MQLKSYWLDTSPAFVSQTQTLPEGACDVVVVGGGITGSAAALALARKGARVVVCEADIVG 61 Query: 61 GAASGRNGGMCNNGFAQDYATLSQRLGRECANRLYLAFDAGVDTVERLVREESIDCSFAR 120 GAASGRNGGMCNNGFAQDYATLSQRLG E ANRLY AFDAGVDTVERLVREESIDCSFAR Sbjct: 62 GAASGRNGGMCNNGFAQDYATLSQRLGVEWANRLYRAFDAGVDTVERLVREESIDCSFAR 121 Query: 121 HGKLKLAAKPEHYDKLARSQELLAGSVDAQTRLLTSTQLRDEVGTDRYFGGLLMQKSAGM 180 HGKLKLAAKPEH DKLARSQELLA VD TRLL+ QLRDE+G+DRY GGLLM KSAGM Sbjct: 122 HGKLKLAAKPEHVDKLARSQELLARHVDGDTRLLSRAQLRDELGSDRYHGGLLMHKSAGM 181 Query: 181 HVGRYVRGLAQAAQRHGVSYLEQTPVLGLQRQSGGYLVRTPRGQLRATQVLLASGISQVG 240 HVGRYVRGLAQAAQR G YLE+TPVLG++ ++G Y VRT G L A QVLLASGISQVG Sbjct: 182 HVGRYVRGLAQAAQRRGALYLERTPVLGIEAKNGRYAVRTSAGVLHAGQVLLASGISQVG 241 Query: 241 PFGWIRRRIVPVGAFLIVTEPLPAALLDQLLPTRRMYTDTKNFVNYFRATPDNRLLFGGR 300 PFGWIRRRIVPVGAFLIVTEPLP ALL QLLPT+RMYTDTKNFVNYFRATPD RLLFGGR Sbjct: 242 PFGWIRRRIVPVGAFLIVTEPLPGALLKQLLPTQRMYTDTKNFVNYFRATPDQRLLFGGR 301 Query: 301 ARFAVSNPKSDAKSGEILRQQMLSVFPQMAGVRIDYCWGGMVDMTVDRLPRAGQRDGVFY 360 ARFA SNP+SDA+SGEILR QML VFP +A RIDYCWGGMVDMT DRLPRAGQRDG++Y Sbjct: 302 ARFAASNPQSDARSGEILRAQMLEVFPALAQTRIDYCWGGMVDMTTDRLPRAGQRDGLYY 361 Query: 361 SMGYSGHGTHMATLMGTMMAEIMDGRADLNPWKDFAWPAIPGHVGKPWFLPFVGAWYRLK 420 SMGYSGHGTHMATLMG+MMAEIMDG A+LNPWKDF WPAIPGH GKPWFLPFVGAWYRLK Sbjct: 362 SMGYSGHGTHMATLMGSMMAEIMDGHAELNPWKDFDWPAIPGHFGKPWFLPFVGAWYRLK 421 Query: 421 DRLQ 424 DRLQ Sbjct: 422 DRLQ 425 >gi|300310459|ref|YP_003774551.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 430 Score = 446 bits (1147), Expect = e-126, Method: Compositional matrix adjust. Identities = 237/430 (55%), Positives = 305/430 (70%), Gaps = 8/430 (1%) Query: 1 MQLKSYWLDTSFPFVSETPDLPAGSCDVLVVGGGITGSAAALALARKGARVVVCEAD-IV 59 M+L+SYW D++ ++S T DLPA DV +VGGG TG +AALALAR+GA VVV EA V Sbjct: 1 MKLESYWTDSAPLYISPTRDLPA-QVDVAIVGGGFTGLSAALALARRGASVVVLEAGPHV 59 Query: 60 GGAASGRNGGMCNNGFAQDYATLSQRLGRECANRLYLAFDAGVDTVERLVREESIDCSFA 119 ASGRNGG NNG A DYA L+ ++G E A Y A+D VDTV RLV+EE IDC F Sbjct: 60 AAEASGRNGGHVNNGLAVDYAELAAKVGVERARAWYHAYDDAVDTVARLVQEEQIDCDFL 119 Query: 120 RHGKLKLAAKPEHYDKLARSQE-LLAGSVDAQTRLLTSTQLRDEVGTDRYFGGLLMQKSA 178 RHGKLK+A +P D L RS + L+A VD +L + +++ EV ++R+ GGLL ++S Sbjct: 120 RHGKLKMATRPYQMDALQRSADRLIADGVDLDVEILDAQRVQAEVQSERFHGGLLYKRSG 179 Query: 179 GMHVGRYVRGLAQAAQRHGVSYLEQTPVLGLQR--QSGGYLVRTPRGQLRATQVLLASGI 236 MH+GR+ GLA AA+R G + T V L+R Q+ G+ + T RG + A QVLLA+G Sbjct: 180 QMHMGRFAYGLAMAAERQGAAIHTGTEVRRLERIGQTHGHRLHTTRGAVLARQVLLATGA 239 Query: 237 SQ---VGPFGWIRRRIVPVGAFLIVTEPLPAALLDQLLPTRRMYTDTKNFVNYFRATPDN 293 S+ G FGW+RRRIVP+G+F++VTEPL A LL +R YT N +YFR TPD Sbjct: 240 SRHGAYGSFGWLRRRIVPIGSFIVVTEPLGAQRAATLLKHQRTYTTVANIHHYFRMTPDT 299 Query: 294 RLLFGGRARFAVSNPKSDAKSGEILRQQMLSVFPQMAGVRIDYCWGGMVDMTVDRLPRAG 353 RL+FGGRARFA+S+P+SDA SGE+LR+ + FPQ+ VR+DYCWGG+VD+T DRLP+AG Sbjct: 300 RLVFGGRARFAISSPQSDAASGEVLRRGLHETFPQLGQVRLDYCWGGLVDVTRDRLPQAG 359 Query: 354 QRDGVFYSMGYSGHGTHMATLMGTMMAEIMDGRADLNPWKDFAWPAIPGHVGKPWFLPFV 413 +RDG++YSMGYSGHGT M+ MG MA++M G A NPW++ WPAIPGH G PWFLP V Sbjct: 360 ERDGLYYSMGYSGHGTQMSVHMGQCMAKVMAGDALANPWREREWPAIPGHFGAPWFLPLV 419 Query: 414 GAWYRLKDRL 423 G +YRLKD+L Sbjct: 420 GLYYRLKDKL 429 >gi|300310497|ref|YP_003774589.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 433 Score = 197 bits (501), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 141/426 (33%), Positives = 212/426 (49%), Gaps = 12/426 (2%) Query: 5 SYWLDTSFPFVSETPDLPAGSCDVLVVGGGITGSAAALALARKGARVVVCEADIVGGAAS 64 S W T+ F P + DV +VG G TG + AL LA+ G V V +A G AS Sbjct: 12 SLWAATAGEFSGAPPLQASARYDVAIVGAGYTGLSTALHLAQAGVSVCVLDAHAPGWGAS 71 Query: 65 GRNGGMCNNGFAQDYATLSQRLGRECANRLYLAFDAGVDTVERLVREESIDCSFARHGKL 124 GRNGG G D L G A+ L A + DTV L+ I+C R G + Sbjct: 72 GRNGGQVIPGLKYDPDQLRVMFGSAVADPLIAAIGSAADTVFDLIARHGIECEAQRAGWI 131 Query: 125 KLAAKPEHYDKL-ARSQELLAGSVDAQTRLLTSTQLRDEVGTDRYFGGLLMQKSAGMHVG 183 + P+ L AR+++ +A AQ L+ ++ +GT Y GG +++ +H Sbjct: 132 QPTHSPKMMRALEARARQWMAEGAPAQ--LMDGAEVTRRIGTGAYVGGWKDERAGSLHPL 189 Query: 184 RYVRGLAQAAQRHGVSYLEQTPVLGLQRQSGGYLVRTPRGQ----LRATQVLLASGISQV 239 +Y RGLAQAAQR GV T V L+R+ GG+ + P G+ + A +V+LA+ Sbjct: 190 KYCRGLAQAAQRLGVVIHGDTRVTRLERRQGGWRLHGPSGEQGPHIDAERVVLATNGYTD 249 Query: 240 GPFGWIRRRIVPVGAFLIVTEPLPAALLDQLLPTRRMYTDTKNFVNYFRATPDNRLLFGG 299 + +R+ ++ +F++ T PLP AL +LP + +D++ + Y+R RLL GG Sbjct: 250 DLWPHLRQSVIAANSFIVATRPLPPALGASILPGGEVTSDSRRLLLYYRRDAQGRLLMGG 309 Query: 300 RARFAVSNPKSDAKSGEILRQQMLSVFPQMAGVRIDYCWGGMVDMTVDRLPRAGQ-RDGV 358 R F P+ A + R L +FPQ+AGV +Y W G V +T D LP + G+ Sbjct: 310 RGPF--GEPQGPADFAHLERSVAL-LFPQLAGVEYEYRWSGRVAITRDFLPHVHEPAPGL 366 Query: 359 FYSMGYSGHGTHMATLMGTMMAEIMDGRADLN-PWKDFAWPAIPGHVGKPWFLPFVGAWY 417 ++GY+G G MAT+MG +A+ + G A P+ IP H + +++ AWY Sbjct: 367 SIALGYNGRGIAMATMMGQRLAQRLIGPAGTAFPFPVSTIAPIPLHGLQRFYIAAGVAWY 426 Query: 418 RLKDRL 423 + DR Sbjct: 427 SVLDRF 432 >gi|300310468|ref|YP_003774560.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 441 Score = 67.8 bits (164), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 104/436 (23%), Positives = 167/436 (38%), Gaps = 75/436 (17%) Query: 11 SFPFVS-ETPDLPAGSCDVLVVGGGITGSAAALALARKGARVVVCEADIVGGAASGRNGG 69 S P V ++P +P S DV+V+GGGI G A LA++G V V E +G S RN G Sbjct: 2 SPPLVQVQSPTIPPASADVVVIGGGIIGIFTAYFLAKRGISVAVVEKGRIGAEQSSRNWG 61 Query: 70 MCNNGFAQDYATLSQRLGRECANRLYLAFDAGVDTVERLVREESIDCSFARHGKLKLAAK 129 C R RE L +A + +D E+ E D F R G L L+ Sbjct: 62 WCRQ---------QNRDARE----LPMATKS-IDLWEQFSAETGEDTGFNRCGLLYLSND 107 Query: 130 PEHYDKLARSQELLAGSVDAQTRLLTSTQL--RDEVGTDRYFGGLLMQKSAGMHVGRYVR 187 E + A + A + T +L S Q R + GG+ G+ Sbjct: 108 EEEIARWAAWGD-FAKTAGVTTYMLDSKQAAERGHATGRAWKGGVFSPTDGTADPGKAAP 166 Query: 188 GLAQAAQRHGVSYLEQTPVLGLQRQSGGYL-VRTPRGQLRATQVLLASG------ISQVG 240 +A+A + G ++Q G+ + G V T G ++ ++A G Q+G Sbjct: 167 AVARAIMKLGGHVIQQCAARGIDTEGGRVSGVITEAGVIKTKVAVMAGGAWASSFCHQLG 226 Query: 241 ---PFGWIRRRIVPVGAFLIVTEPLPAALLDQLLPTRRMYTDTKNF-----------VNY 286 P +R+ I+ V + PLP AL + R + + + Sbjct: 227 IRFPQASVRQSIMSVAP---MEAPLPGALYTSGVAVTRRSDGSYALAISGRARVDPTMQF 283 Query: 287 FRATPDNRLLFGGR------------------------------ARFAVSNPKSDAKSGE 316 R +P +F R R + + +D S Sbjct: 284 LRFSPQFLPMFAKRWRSLSPGGLEAWRSGHETLSRWRMDAPTPMERMRILDASADPASIR 343 Query: 317 ILRQQMLSVFPQMAGVRIDYCWGGMVDMTVDRLPRAG---QRDGVFYSMGYSGHGTHMAT 373 ++ + + PQ+A ++ + W G VD T D +P G Q G+ + G+SGHG + Sbjct: 344 ATHRRAVELLPQLAQAKVTHTWAGYVDSTPDGVPGIGELPQTPGLILAAGFSGHGFGIGP 403 Query: 374 LMGTMMAEIMDGRADL 389 G ++A++ G A + Sbjct: 404 GAGHLIADLASGAAPI 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 0.323 0.138 0.425 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: 1,322,220 Number of extensions: 54893 Number of successful extensions: 186 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 178 Number of HSP's successfully gapped: 4 Length of query: 424 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 336 Effective length of database: 1,203,190 Effective search space: 404271840 Effective search space used: 404271840 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)