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= 0028.0008.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... 738 0.0 gi|300310459|ref|YP_003774551.1| glycine/D-amino acid oxidase [H... 439 e-124 gi|300310497|ref|YP_003774589.1| glycine/D-amino acid oxidase [H... 177 2e-45 gi|300310468|ref|YP_003774560.1| glycine/D-amino acid oxidase [H... 69 9e-13 >gi|300309600|ref|YP_003773692.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 425 Score = 738 bits (1904), Expect = 0.0, Method: Compositional matrix adjust. Identities = 362/424 (85%), Positives = 386/424 (91%) Query: 1 MQLKSYWLDTSSPFVSTHTALPGDGCDVLVVGGGITGSTAALALARKGARVVVCEADIVG 60 MQLKSYWLDTS FVS LP CDV+VVGGGITGS AALALARKGARVVVCEADIVG Sbjct: 2 MQLKSYWLDTSPAFVSQTQTLPEGACDVVVVGGGITGSAAALALARKGARVVVCEADIVG 61 Query: 61 GAASGRNGGMCNNGFAQDYAALSQRLGTEWANRLYRAFDAGVDMVERLVREESIDCSFAR 120 GAASGRNGGMCNNGFAQDYA LSQRLG EWANRLYRAFDAGVD VERLVREESIDCSFAR Sbjct: 62 GAASGRNGGMCNNGFAQDYATLSQRLGVEWANRLYRAFDAGVDTVERLVREESIDCSFAR 121 Query: 121 YGKLKLAAKPEHVDKLARSQALLAANVDADTRLITRAELRDELGSDRYYGGLLMEKSAGM 180 +GKLKLAAKPEHVDKLARSQ LLA +VD DTRL++RA+LRDELGSDRY+GGLLM KSAGM Sbjct: 122 HGKLKLAAKPEHVDKLARSQELLARHVDGDTRLLSRAQLRDELGSDRYHGGLLMHKSAGM 181 Query: 181 HVGRYVRGLAHAAQRRGAIYLEHTPVLGLKAQGGGYQVQTRAGSLRASQVLVSSGISQVG 240 HVGRYVRGLA AAQRRGA+YLE TPVLG++A+ G Y V+T AG L A QVL++SGISQVG Sbjct: 182 HVGRYVRGLAQAAQRRGALYLERTPVLGIEAKNGRYAVRTSAGVLHAGQVLLASGISQVG 241 Query: 241 PFGWIRRRIVPVGAFLIVTEPLPAELLAQLLPTRRMYTDTKNFVNYFRATPDNRLLFGGR 300 PFGWIRRRIVPVGAFLIVTEPLP LL QLLPT+RMYTDTKNFVNYFRATPD RLLFGGR Sbjct: 242 PFGWIRRRIVPVGAFLIVTEPLPGALLKQLLPTQRMYTDTKNFVNYFRATPDQRLLFGGR 301 Query: 301 ARFAVSNPQSDARSGEILRSQMLEVFPQLAKVRIDYCWGGMVDMTVDRLPRAGQRDGVFY 360 ARFA SNPQSDARSGEILR+QMLEVFP LA+ RIDYCWGGMVDMT DRLPRAGQRDG++Y Sbjct: 302 ARFAASNPQSDARSGEILRAQMLEVFPALAQTRIDYCWGGMVDMTTDRLPRAGQRDGLYY 361 Query: 361 SMGYSGHGTHMASLMGTLMAEVMDGRADLNPWKDFDWPAIPGHLGKPWFLPLVGAWYRLK 420 SMGYSGHGTHMA+LMG++MAE+MDG A+LNPWKDFDWPAIPGH GKPWFLP VGAWYRLK Sbjct: 362 SMGYSGHGTHMATLMGSMMAEIMDGHAELNPWKDFDWPAIPGHFGKPWFLPFVGAWYRLK 421 Query: 421 DWLQ 424 D LQ Sbjct: 422 DRLQ 425 >gi|300310459|ref|YP_003774551.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 430 Score = 439 bits (1129), Expect = e-124, Method: Compositional matrix adjust. Identities = 235/430 (54%), Positives = 305/430 (70%), Gaps = 8/430 (1%) Query: 1 MQLKSYWLDTSSPFVSTHTALPGDGCDVLVVGGGITGSTAALALARKGARVVVCEA-DIV 59 M+L+SYW D++ ++S LP DV +VGGG TG +AALALAR+GA VVV EA V Sbjct: 1 MKLESYWTDSAPLYISPTRDLPAQ-VDVAIVGGGFTGLSAALALARRGASVVVLEAGPHV 59 Query: 60 GGAASGRNGGMCNNGFAQDYAALSQRLGTEWANRLYRAFDAGVDMVERLVREESIDCSFA 119 ASGRNGG NNG A DYA L+ ++G E A Y A+D VD V RLV+EE IDC F Sbjct: 60 AAEASGRNGGHVNNGLAVDYAELAAKVGVERARAWYHAYDDAVDTVARLVQEEQIDCDFL 119 Query: 120 RYGKLKLAAKPEHVDKLARS-QALLAANVDADTRLITRAELRDELGSDRYYGGLLMEKSA 178 R+GKLK+A +P +D L RS L+A VD D ++ ++ E+ S+R++GGLL ++S Sbjct: 120 RHGKLKMATRPYQMDALQRSADRLIADGVDLDVEILDAQRVQAEVQSERFHGGLLYKRSG 179 Query: 179 GMHVGRYVRGLAHAAQRRGAIYLEHTPVLGLK--AQGGGYQVQTRAGSLRASQVLVSSGI 236 MH+GR+ GLA AA+R+GA T V L+ Q G+++ T G++ A QVL+++G Sbjct: 180 QMHMGRFAYGLAMAAERQGAAIHTGTEVRRLERIGQTHGHRLHTTRGAVLARQVLLATGA 239 Query: 237 SQ---VGPFGWIRRRIVPVGAFLIVTEPLPAELLAQLLPTRRMYTDTKNFVNYFRATPDN 293 S+ G FGW+RRRIVP+G+F++VTEPL A+ A LL +R YT N +YFR TPD Sbjct: 240 SRHGAYGSFGWLRRRIVPIGSFIVVTEPLGAQRAATLLKHQRTYTTVANIHHYFRMTPDT 299 Query: 294 RLLFGGRARFAVSNPQSDARSGEILRSQMLEVFPQLAKVRIDYCWGGMVDMTVDRLPRAG 353 RL+FGGRARFA+S+PQSDA SGE+LR + E FPQL +VR+DYCWGG+VD+T DRLP+AG Sbjct: 300 RLVFGGRARFAISSPQSDAASGEVLRRGLHETFPQLGQVRLDYCWGGLVDVTRDRLPQAG 359 Query: 354 QRDGVFYSMGYSGHGTHMASLMGTLMAEVMDGRADLNPWKDFDWPAIPGHLGKPWFLPLV 413 +RDG++YSMGYSGHGT M+ MG MA+VM G A NPW++ +WPAIPGH G PWFLPLV Sbjct: 360 ERDGLYYSMGYSGHGTQMSVHMGQCMAKVMAGDALANPWREREWPAIPGHFGAPWFLPLV 419 Query: 414 GAWYRLKDWL 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 = 177 bits (448), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 134/424 (31%), Positives = 208/424 (49%), Gaps = 12/424 (2%) Query: 5 SYWLDTSSPFVSTHTALPGDGCDVLVVGGGITGSTAALALARKGARVVVCEADIVGGAAS 64 S W T+ F DV +VG G TG + AL LA+ G V V +A G AS Sbjct: 12 SLWAATAGEFSGAPPLQASARYDVAIVGAGYTGLSTALHLAQAGVSVCVLDAHAPGWGAS 71 Query: 65 GRNGGMCNNGFAQDYAALSQRLGTEWANRLYRAFDAGVDMVERLVREESIDCSFARYGKL 124 GRNGG G D L G+ A+ L A + D V L+ I+C R G + Sbjct: 72 GRNGGQVIPGLKYDPDQLRVMFGSAVADPLIAAIGSAADTVFDLIARHGIECEAQRAGWI 131 Query: 125 KLAAKPEHVDKL-ARSQALLAANVDADTRLITRAELRDELGSDRYYGGLLMEKSAGMHVG 183 + P+ + L AR++ +A A +L+ AE+ +G+ Y GG E++ +H Sbjct: 132 QPTHSPKMMRALEARARQWMAEG--APAQLMDGAEVTRRIGTGAYVGGWKDERAGSLHPL 189 Query: 184 RYVRGLAHAAQRRGAIYLEHTPVLGLKAQGGGYQVQTRAGS----LRASQVLVSSGISQV 239 +Y RGLA AAQR G + T V L+ + GG+++ +G + A +V++++ Sbjct: 190 KYCRGLAQAAQRLGVVIHGDTRVTRLERRQGGWRLHGPSGEQGPHIDAERVVLATNGYTD 249 Query: 240 GPFGWIRRRIVPVGAFLIVTEPLPAELLAQLLPTRRMYTDTKNFVNYFRATPDNRLLFGG 299 + +R+ ++ +F++ T PLP L A +LP + +D++ + Y+R RLL GG Sbjct: 250 DLWPHLRQSVIAANSFIVATRPLPPALGASILPGGEVTSDSRRLLLYYRRDAQGRLLMGG 309 Query: 300 RARFAVSNPQSDARSGEILRSQMLEVFPQLAKVRIDYCWGGMVDMTVDRLPRAGQ-RDGV 358 R F PQ A + RS L +FPQLA V +Y W G V +T D LP + G+ Sbjct: 310 RGPFG--EPQGPADFAHLERSVAL-LFPQLAGVEYEYRWSGRVAITRDFLPHVHEPAPGL 366 Query: 359 FYSMGYSGHGTHMASLMGTLMAEVMDGRADLN-PWKDFDWPAIPGHLGKPWFLPLVGAWY 417 ++GY+G G MA++MG +A+ + G A P+ IP H + +++ AWY Sbjct: 367 SIALGYNGRGIAMATMMGQRLAQRLIGPAGTAFPFPVSTIAPIPLHGLQRFYIAAGVAWY 426 Query: 418 RLKD 421 + D Sbjct: 427 SVLD 430 >gi|300310468|ref|YP_003774560.1| glycine/D-amino acid oxidase [Herbaspirillum seropedicae SmR1] Length = 441 Score = 68.6 bits (166), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 100/436 (22%), Positives = 164/436 (37%), Gaps = 75/436 (17%) Query: 11 SSPFVSTHT-ALPGDGCDVLVVGGGITGSTAALALARKGARVVVCEADIVGGAASGRNGG 69 S P V + +P DV+V+GGGI G A LA++G V V E +G S RN G Sbjct: 2 SPPLVQVQSPTIPPASADVVVIGGGIIGIFTAYFLAKRGISVAVVEKGRIGAEQSSRNWG 61 Query: 70 MCNNGFAQDYAALSQRLGTEWANRLYRAFDAGVDMVERLVREESIDCSFARYGKLKLAAK 129 C Q+ A + T+ +D+ E+ E D F R G L L+ Sbjct: 62 WCRQ---QNRDARELPMATK-----------SIDLWEQFSAETGEDTGFNRCGLLYLSND 107 Query: 130 PEHVDKLARSQALLAANVDADTRLI--TRAELRDELGSDRYYGGLLMEKSAGMHVGRYVR 187 E + + A + A T ++ +A R + GG+ G+ Sbjct: 108 EEEIARWA-AWGDFAKTAGVTTYMLDSKQAAERGHATGRAWKGGVFSPTDGTADPGKAAP 166 Query: 188 GLAHAAQRRGAIYLEHTPVLGLKAQGGGYQ-VQTRAGSLRASQVLVSSG------ISQVG 240 +A A + G ++ G+ +GG V T AG ++ +++ G Q+G Sbjct: 167 AVARAIMKLGGHVIQQCAARGIDTEGGRVSGVITEAGVIKTKVAVMAGGAWASSFCHQLG 226 Query: 241 ---PFGWIRRRIVPVGAFLIVTEPLPAELLAQLLPTRRMYTDTKNF-----------VNY 286 P +R+ I+ V + PLP L + R + + + Sbjct: 227 IRFPQASVRQSIMSVAP---MEAPLPGALYTSGVAVTRRSDGSYALAISGRARVDPTMQF 283 Query: 287 FRATPDNRLLFGGR------------------------------ARFAVSNPQSDARSGE 316 R +P +F R R + + +D S Sbjct: 284 LRFSPQFLPMFAKRWRSLSPGGLEAWRSGHETLSRWRMDAPTPMERMRILDASADPASIR 343 Query: 317 ILRSQMLEVFPQLAKVRIDYCWGGMVDMTVDRLPRAG---QRDGVFYSMGYSGHGTHMAS 373 + +E+ PQLA+ ++ + W G VD T D +P G Q G+ + G+SGHG + Sbjct: 344 ATHRRAVELLPQLAQAKVTHTWAGYVDSTPDGVPGIGELPQTPGLILAAGFSGHGFGIGP 403 Query: 374 LMGTLMAEVMDGRADL 389 G L+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 0.322 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: 1,340,401 Number of extensions: 56630 Number of successful extensions: 220 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 212 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)