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= 0028.0012.p (337 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313415|ref|YP_003777507.1| phenylacetic acid degradation N... 635 0.0 gi|300313278|ref|YP_003777370.1| vanillate O-demethylase (vanill... 76 3e-15 gi|300311823|ref|YP_003775915.1| nitric oxide dioxygenase [Herba... 68 1e-12 gi|300310642|ref|YP_003774734.1| electron transfer component of ... 57 1e-09 >gi|300313415|ref|YP_003777507.1| phenylacetic acid degradation NADH oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 356 Score = 635 bits (1638), Expect = 0.0, Method: Compositional matrix adjust. Identities = 306/356 (85%), Positives = 322/356 (90%), Gaps = 19/356 (5%) Query: 1 MSKFYPLTISGVKQETRDTIVVSFAVPPELQDTFSYQQGQHLTLRSHIEGEELRRSYSIC 60 MSKFYPLTIS VKQETRDTIVVSFAVP ELQDTFSYQQGQHLTLRS I GE+LRRSYSIC Sbjct: 1 MSKFYPLTISDVKQETRDTIVVSFAVPAELQDTFSYQQGQHLTLRSEINGEDLRRSYSIC 60 Query: 61 AATQEKQ-------------------XVVPGQSIEVMPPMGHFNVPLDAANRKHYLAFAA 101 +A QE+Q VPGQ I+VMPPMGHFNVPL+A NRKHYLAFAA Sbjct: 61 SAVQERQLRVAIKRAPGGLFSNWANESFVPGQRIDVMPPMGHFNVPLEAGNRKHYLAFAA 120 Query: 102 GSGITPMISIIKTTLLAEPHSRFTLVYANRASSSVIFKEDITDLKDAYLERLNVIWVMSR 161 GSGITPM+SIIKTTLL+EPHS FTLVYANRASSSVIFKE++TDLKDAYLER NV++VMSR Sbjct: 121 GSGITPMMSIIKTTLLSEPHSHFTLVYANRASSSVIFKEELTDLKDAYLERFNVVYVMSR 180 Query: 162 EQQDVELFNGRIDRSKCDAFFASWIDLKDVDAAFLCGPEEMVQAVSDSLQAHGLPKTQIK 221 EQQDVELFNGRIDR+KCDAFFASWIDLKDVDAAFLCGPEEMVQAV+ SLQAHGLPKTQIK Sbjct: 181 EQQDVELFNGRIDRAKCDAFFASWIDLKDVDAAFLCGPEEMVQAVAASLQAHGLPKTQIK 240 Query: 222 TELFAASAPTRAHASRPVVGKKECEVTVIVDGYHNVFTMDKEKESVLDAGLKHGIDLRYS 281 TELFAAS P RAHA+R VVGK+ECEVTVIVDGYHNVFTMDKEKESVL+AGLKHGIDLRYS Sbjct: 241 TELFAASTPPRAHAARTVVGKQECEVTVIVDGYHNVFTMDKEKESVLEAGLKHGIDLRYS 300 Query: 282 CKGGVCATCRCKVVEGKVDMDANYALEDYEIARGFVLSCQSFPVSDKLLLDFDQDN 337 CKGGVCATCRCKVVEGKVDMDANYALEDYEIARGFVLSCQSFPVSDKLLLDFDQDN Sbjct: 301 CKGGVCATCRCKVVEGKVDMDANYALEDYEIARGFVLSCQSFPVSDKLLLDFDQDN 356 >gi|300313278|ref|YP_003777370.1| vanillate O-demethylase (vanillate degradation ferredoxin-like) oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 318 Score = 76.3 bits (186), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 84/344 (24%), Positives = 145/344 (42%), Gaps = 48/344 (13%) Query: 7 LTISGVKQETRDTIVVSFAVPPELQDTFSYQQGQHLTLRSHIEGEELRRSYSICAATQEK 66 + ++ ++E D I + V + ++ G H+ + H+ G L R YS+C A E+ Sbjct: 6 VKVAARREEAHDIIALEL-VAVDGAALPAFTAGAHIDV--HLPGG-LVRQYSLCNAPHEQ 61 Query: 67 QXV---------VPGQSIEVMPPMGHFNVPLDAANR--------KHYLAFAAGSGITPMI 109 G S+ V + ++ +A R +H L A G G+TP++ Sbjct: 62 HRYQIGVLRDVNSRGGSVAVHEALKLGDILTISAPRNQFALVPAQHSLLLAGGIGVTPIL 121 Query: 110 SIIKTTLLAEPHSRFTLVYANRASSSVIFKEDITDLKDAYLERLNVIWVMSREQQDVELF 169 + + A + F + Y R+ + F+E I + R+ + Q ++L Sbjct: 122 CMAEALAAAG--ASFEMHYCARSPARQAFRERIA--ASGFAARVVHHYDDGEAAQKLDL- 176 Query: 170 NGRIDRSKCDAFFASWIDLKDVDAAFLCGPEEMVQAVSDSLQAHGLPKTQIKTELFAASA 229 DA A + ++CGP + V D+ +A G P+ Q+ E F A A Sbjct: 177 ---------DALLAQADPATHL---YVCGPAGFIAHVVDTARARGWPEAQVHFEYFGA-A 223 Query: 230 PTRAHASRPVVGKKECEVTVIVDGYHNVFTMDKEKESVLDAGLKHGIDLRYSCKGGVCAT 289 P +A G EV + G V+T+ E+ +V+ +HG+D+ SC+ G+C T Sbjct: 224 PVKAD------GNGAFEVKLASSG--QVYTIPPER-TVIQVLCEHGVDVPVSCEQGICGT 274 Query: 290 CRCKVVEGKVDMDANYALEDYEIARGFVLSCQSFPVSDKLLLDF 333 C +V+EG+ D Y ++ A C S S L+LD Sbjct: 275 CLTRVLEGEPDHRDQYLTDEERAANDQFTPCCSRARSALLVLDL 318 >gi|300311823|ref|YP_003775915.1| nitric oxide dioxygenase [Herbaspirillum seropedicae SmR1] Length = 397 Score = 67.8 bits (164), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 58/229 (25%), Positives = 95/229 (41%), Gaps = 35/229 (15%) Query: 26 VPPELQDTFSYQQGQHLTLRSHIEGEELRRSYSICA----ATQEKQXVVP---------- 71 VP + + + GQ++ LR ++GEE RR YS+ A A Q Q + Sbjct: 176 VPQDGGELLDFAPGQYIGLRMVVDGEEQRRQYSLSALLRQAGQPPQYRISVKREPGGKVS 235 Query: 72 ---------GQSIEVMPPMGHFNVPLDAANRKHYLAFAAGSGITPMISIIKTTLLAEPHS 122 G +E+ PP G F + A+ K + G GITPM+S++ L P Sbjct: 236 RQLHDQIHVGSVVELFPPAGEFTL---MASDKPLALISGGVGITPMMSMLAAAL---PSG 289 Query: 123 R-FTLVYANRASSSVIFKEDITDLKDAYLE-RLNVIWVMSREQQDVELFNGRIDRSKCDA 180 R ++A R F+ + +L + + +L + R+ G I+RS Sbjct: 290 RPIHFIHAARHGGVHAFRRQLEELAARHPQLQLRFCYEQPRQGDAAPHATGLIERSLLQQ 349 Query: 181 FFASWIDLKDVDAAFLCGPEEMVQAVSDSLQAHGLPKTQIKTELFAASA 229 + DL A+ GP+ ++A+ L G+P Q + E F +A Sbjct: 350 WLPGNPDLD----AYFVGPKSFMKAIKRQLAELGVPAAQSRYEFFGPAA 394 >gi|300310642|ref|YP_003774734.1| electron transfer component of chlorobenzoate 1,2-dioxygenase [Herbaspirillum seropedicae SmR1] Length = 351 Score = 57.4 bits (137), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 29/67 (43%), Positives = 37/67 (55%), Gaps = 3/67 (4%) Query: 264 KESVLDAGLKHGIDLRYSCKGGVCATCRCKVVEGKVDMDANY---ALEDYEIARGFVLSC 320 KE VLDA ++ I+L C GVC TC+C+ G D+ +Y AL E G VL+C Sbjct: 23 KEKVLDAAFRNRINLPMDCSDGVCGTCKCRAESGLYDLGDDYIDDALSSDEAGAGMVLTC 82 Query: 321 QSFPVSD 327 Q P SD Sbjct: 83 QMVPQSD 89 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 0.320 0.134 0.395 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: 997,576 Number of extensions: 38076 Number of successful extensions: 97 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 96 Number of HSP's successfully gapped: 4 Length of query: 337 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 251 Effective length of database: 1,212,660 Effective search space: 304377660 Effective search space used: 304377660 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)