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= 0030.0087.p (397 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311823|ref|YP_003775915.1| nitric oxide dioxygenase [Herba... 800 0.0 gi|300313415|ref|YP_003777507.1| phenylacetic acid degradation N... 91 2e-19 gi|300310642|ref|YP_003774734.1| electron transfer component of ... 76 5e-15 gi|300313278|ref|YP_003777370.1| vanillate O-demethylase (vanill... 66 5e-12 gi|300309798|ref|YP_003773890.1| flavodoxin reductases (ferredox... 62 9e-11 >gi|300311823|ref|YP_003775915.1| nitric oxide dioxygenase [Herbaspirillum seropedicae SmR1] Length = 397 Score = 800 bits (2067), Expect = 0.0, Method: Compositional matrix adjust. Identities = 393/397 (98%), Positives = 395/397 (99%) Query: 1 MLTDAQLAIVKSTVPLLESGGEALTTHFYKMLMRDYPQVRPLFNRAHQASGDQPRALANG 60 MLTDAQLAIVKSTVPLLESGGEALTTHFYKMLMRDYPQVRPLFNRAHQASGDQPRALANG Sbjct: 1 MLTDAQLAIVKSTVPLLESGGEALTTHFYKMLMRDYPQVRPLFNRAHQASGDQPRALANG 60 Query: 61 VLMYARHIDRLEELGPLAAQIINKHVAVQVLPEHYPMVGDCLLRAIREVLGAEIATDAVI 120 VLMYARHIDRLEELGPLAAQIINKHVAVQVLPEHYPMVGDCLLRAIREVLGAEIATDAVI Sbjct: 61 VLMYARHIDRLEELGPLAAQIINKHVAVQVLPEHYPMVGDCLLRAIREVLGAEIATDAVI 120 Query: 121 DAWAAAYGQLADILIGAERQQYEAKAQAPGGWNGARNFIVSRKVAESEEITSFHFVPQDG 180 DAWAAAYGQLADILIGAERQQYEAKAQAPGGW+GARNFIVSRKVAESEEITSFHFVPQDG Sbjct: 121 DAWAAAYGQLADILIGAERQQYEAKAQAPGGWSGARNFIVSRKVAESEEITSFHFVPQDG 180 Query: 181 GELLDFTPGQYIGLRMVVDGEEQRRQYSLSALLRQAGQPPQYRISVKREPGGKVSRQLHD 240 GELLDF PGQYIGLRMVVDGEEQRRQYSLSALLRQAGQPPQYRISVKREPGGKVSRQLHD Sbjct: 181 GELLDFAPGQYIGLRMVVDGEEQRRQYSLSALLRQAGQPPQYRISVKREPGGKVSRQLHD 240 Query: 241 QIHVGSVVELFPPAGEFTLTASDKPLALISGGVGITPMMSMLAAALPSGRPIHFIHAARH 300 QIHVGSVVELFPPAGEFTL ASDKPLALISGGVGITPMMSMLAAALPSGRPIHFIHAARH Sbjct: 241 QIHVGSVVELFPPAGEFTLMASDKPLALISGGVGITPMMSMLAAALPSGRPIHFIHAARH 300 Query: 301 GGVHAFRRQLEELAARHPQLQVRFCYEQPRQGDAAPHATGLIERSLLQQWLPGNPDLDAY 360 GGVHAFRRQLEELAARHPQLQ+RFCYEQPRQGDAAPHATGLIERSLLQQWLPGNPDLDAY Sbjct: 301 GGVHAFRRQLEELAARHPQLQLRFCYEQPRQGDAAPHATGLIERSLLQQWLPGNPDLDAY 360 Query: 361 FVGPKSFMKAIKRQLAELGVPAAQSRYEFFGPAASLD 397 FVGPKSFMKAIKRQLAELGVPAAQSRYEFFGPAASLD Sbjct: 361 FVGPKSFMKAIKRQLAELGVPAAQSRYEFFGPAASLD 397 >gi|300313415|ref|YP_003777507.1| phenylacetic acid degradation NADH oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 356 Score = 90.5 bits (223), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 64/228 (28%), Positives = 107/228 (46%), Gaps = 14/228 (6%) Query: 176 VPQDGGELLDFTPGQYIGLRMVVDGEEQRRQYSLSALLRQAGQPPQYRISVKREPGGKVS 235 VP + + + GQ++ LR ++GE+ RR YS+ + A Q Q R+++KR PGG S Sbjct: 26 VPAELQDTFSYQQGQHLTLRSEINGEDLRRSYSICS----AVQERQLRVAIKRAPGGLFS 81 Query: 236 RQLHDQIHVGSVVELFPPAGEFT--LTASDKPLAL-ISGGVGITPMMSMLAAALPSGRPI 292 ++ G +++ PP G F L A ++ L + G GITPMMS++ L S Sbjct: 82 NWANESFVPGQRIDVMPPMGHFNVPLEAGNRKHYLAFAAGSGITPMMSIIKTTLLSEPHS 141 Query: 293 HF--IHAARHGGVHAFRRQLEELAARHPQLQVRFCYEQPRQGDAAPHATGLIERSLLQQW 350 HF ++A R F+ +L +L + + + Y R+ G I+R+ + Sbjct: 142 HFTLVYANRASSSVIFKEELTDLKDAYLE-RFNVVYVMSREQQDVELFNGRIDRAKCDAF 200 Query: 351 LPGNPDLD----AYFVGPKSFMKAIKRQLAELGVPAAQSRYEFFGPAA 394 DL A+ GP+ ++A+ L G+P Q + E F + Sbjct: 201 FASWIDLKDVDAAFLCGPEEMVQAVAASLQAHGLPKTQIKTELFAAST 248 >gi|300310642|ref|YP_003774734.1| electron transfer component of chlorobenzoate 1,2-dioxygenase [Herbaspirillum seropedicae SmR1] Length = 351 Score = 76.3 bits (186), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 59/211 (27%), Positives = 91/211 (43%), Gaps = 21/211 (9%) Query: 186 FTPGQYIGLRMVVDGEEQRRQYSLSALLRQAGQPPQYRISVKREPGGKVSRQLHDQIHVG 245 F PGQY+ + V G Q R YS S+ + +K PGG +S L G Sbjct: 136 FLPGQYVNIG--VPGSGQHRSYSFSS----PSGASRMSFLIKNVPGGLMSNWLAGASE-G 188 Query: 246 SVVELFPPAGEFTLTASDKPLALISGGVGITPMMSMLAAALPSG--RPIHFIHAARHGGV 303 + +EL P G F L +P+ +++GG G+ P +SML G +P+H I+ Sbjct: 189 ATLELTGPLGSFYLRPVKRPVLMLAGGTGLAPFLSMLEELAQQGLDQPVHLIYGVTRDQD 248 Query: 304 HAFRRQLEELAARHPQLQVRFCYEQPRQGDAAPHATGLIERSLLQQWLPG----NPDLDA 359 +L+ LA R P C P A HA + + Q +P + ++D Sbjct: 249 LVLVERLQALADRLPGFSFTTCVADP----ATTHA----RQGYVTQHMPAAVLHDGNVDV 300 Query: 360 YFVGPKSFMKAIKRQLAELGVPAAQSRYEFF 390 Y GP ++A+++ G+ A YE F Sbjct: 301 YLCGPPPMVEAVQKHFQATGMQPASFYYEKF 331 >gi|300313278|ref|YP_003777370.1| vanillate O-demethylase (vanillate degradation ferredoxin-like) oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 318 Score = 66.2 bits (160), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 69/240 (28%), Positives = 110/240 (45%), Gaps = 30/240 (12%) Query: 160 VSRKVAESEEITSFHFVPQDGGELLDFTPGQYIGLRM---VVDGEEQRRQYSLSALLRQA 216 V+ + E+ +I + V DG L FT G +I + + +V RQYSL Sbjct: 8 VAARREEAHDIIALELVAVDGAALPAFTAGAHIDVHLPGGLV------RQYSLC---NAP 58 Query: 217 GQPPQYRISVKREP---GGKVSRQLHDQIHVGSVVELFPPAGEFTLTASDKPLALISGGV 273 + +Y+I V R+ GG V+ +H+ + +G ++ + P +F L + L L++GG+ Sbjct: 59 HEQHRYQIGVLRDVNSRGGSVA--VHEALKLGDILTISAPRNQFALVPAQHSL-LLAGGI 115 Query: 274 GITPMMSMLAAALPSGRPIHFIHAARHGGVHAFRRQLEELAARHPQLQVRFCYEQPRQGD 333 G+TP++ M A +G + AR AFR E +AA +V Y+ G+ Sbjct: 116 GVTPILCMAEALAAAGASFEMHYCARSPARQAFR---ERIAASGFAARVVHHYD---DGE 169 Query: 334 AAPHATGLIERSLLQQWLPGNPDLDAYFVGPKSFMKAIKRQLAELGVPAAQSRYEFFGPA 393 A A L +LL Q +P Y GP F+ + G P AQ +E+FG A Sbjct: 170 A---AQKLDLDALLAQ---ADPATHLYVCGPAGFIAHVVDTARARGWPEAQVHFEYFGAA 223 >gi|300309798|ref|YP_003773890.1| flavodoxin reductases (ferredoxin-NADPH reductases) family 1 protein [Herbaspirillum seropedicae SmR1] Length = 339 Score = 62.0 bits (149), Expect = 9e-11, Method: Compositional matrix adjust. Identities = 52/152 (34%), Positives = 74/152 (48%), Gaps = 16/152 (10%) Query: 167 SEEITSFHFVPQDGGELLDFTPGQYIGLRMVVDGEEQRRQYSLSALLRQAGQPPQYRISV 226 +++I V QDG L +TPG ++ L++ DG R YSL +Q Y I+V Sbjct: 27 AQDIRLLELVSQDGAALPPWTPGAHLRLQLQ-DGLV--RAYSLCNTPQQRDC---YLIAV 80 Query: 227 KREPGGKV-SRQLHDQIHVGSVVELFPPAGEFTLTASDKPLALISGGVGITPMMSMLAAA 285 KREP + S LH+Q+ G+ + PP F L A + L++ G+GITP+ +M A Sbjct: 81 KREPDSRGGSAFLHEQVQEGTTISASPPVNAFPLIADVRAPLLLAAGIGITPLHAMAAEL 140 Query: 286 LPSGRPIHFIHAARHGGVHAFRRQLEELAARH 317 GR RH +H F R L A H Sbjct: 141 ATQGR--------RH-RLHYFARSLAHAAFFH 163 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 0.137 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: 1,333,920 Number of extensions: 59282 Number of successful extensions: 197 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 189 Number of HSP's successfully gapped: 7 Length of query: 397 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 310 Effective length of database: 1,207,925 Effective search space: 374456750 Effective search space used: 374456750 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: 131 (55.1 bits)