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= 0002.0088.p (339 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309798|ref|YP_003773890.1| flavodoxin reductases (ferredox... 536 e-153 gi|300313278|ref|YP_003777370.1| vanillate O-demethylase (vanill... 207 7e-55 gi|300310671|ref|YP_003774763.1| flavodoxin reductases (ferredox... 203 2e-53 gi|300313415|ref|YP_003777507.1| phenylacetic acid degradation N... 74 2e-14 gi|300311823|ref|YP_003775915.1| nitric oxide dioxygenase [Herba... 59 5e-10 >gi|300309798|ref|YP_003773890.1| flavodoxin reductases (ferredoxin-NADPH reductases) family 1 protein [Herbaspirillum seropedicae SmR1] Length = 339 Score = 536 bits (1380), Expect = e-153, Method: Compositional matrix adjust. Identities = 293/339 (86%), Positives = 304/339 (89%) Query: 1 MNAVTDRFNGNAATTLRLRVRAVRHAAEGIRLFELVAQEGAALPPWTPGAHLRLHLQDGL 60 MNAV DRFNG+AATTL LRVRAVR AA+ IRL ELV+Q+GAALPPWTPGAHLRL LQDGL Sbjct: 1 MNAVADRFNGSAATTLMLRVRAVRQAAQDIRLLELVSQDGAALPPWTPGAHLRLQLQDGL 60 Query: 61 VRAYSLCNTPQQRDCYVIAVKRESDSRGGSAFLHEQVQEGMAISASPPVNAFPLIADSRA 120 VRAYSLCNTPQQRDCY+IAVKRE DSRGGSAFLHEQVQEG ISASPPVNAFPLIAD RA Sbjct: 61 VRAYSLCNTPQQRDCYLIAVKREPDSRGGSAFLHEQVQEGTTISASPPVNAFPLIADVRA 120 Query: 121 PLLLAAGIGITPLHAMAAEMAAQGRRHRLHYFARSLAHAAFFHELAACSQGMSLHLGLDG 180 PLLLAAGIGITPLHAMAAE+A QGRRHRLHYFARSLAHAAFFHELAA SQGMSLHLGLDG Sbjct: 121 PLLLAAGIGITPLHAMAAELATQGRRHRLHYFARSLAHAAFFHELAAGSQGMSLHLGLDG 180 Query: 181 IETERAIAAALVAVPSSSPLYVCGPAPFIEAARRHAQLAGWREQDVHFELFAAPLMANAE 240 ETE AIAAAL A P SSPLYVCGP+PFI+AARRHAQLAGWREQD+HFE FAAP M AE Sbjct: 181 AETEHAIAAALAAAPRSSPLYVCGPSPFIDAARRHAQLAGWREQDIHFERFAAPAMPAAE 240 Query: 241 PPSAAQAQAEEHVFELVLHRSGLRCEVQPGQSIVAAAAQVGVVIGTSCGEGFCGSCESTV 300 A QA + FELVL RSGLRC+V PGQSIVAAAAQVGVVIGTSCGEGFCGSCESTV Sbjct: 241 ADPARPVQAPDSTFELVLQRSGLRCQVLPGQSIVAAAAQVGVVIGTSCGEGFCGSCESTV 300 Query: 301 LEGQPLHCDSVLSDAERASGRRILPCVSRCAGTRLVLDL 339 LEGQP H DSVLS AERASGRRILPCVSRCAGTRLVLDL Sbjct: 301 LEGQPWHRDSVLSAAERASGRRILPCVSRCAGTRLVLDL 339 >gi|300313278|ref|YP_003777370.1| vanillate O-demethylase (vanillate degradation ferredoxin-like) oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 318 Score = 207 bits (528), Expect = 7e-55, Method: Compositional matrix adjust. Identities = 137/329 (41%), Positives = 185/329 (56%), Gaps = 15/329 (4%) Query: 14 TTLRLRVRAVRHAAEGIRLFELVAQEGAALPPWTPGAHLRLHLQDGLVRAYSLCNTPQQR 73 TTL+++V A R A I ELVA +GAALP +T GAH+ +HL GLVR YSLCN P ++ Sbjct: 2 TTLQVKVAARREEAHDIIALELVAVDGAALPAFTAGAHIDVHLPGGLVRQYSLCNAPHEQ 61 Query: 74 DCYVIAVKRESDSRGGSAFLHEQVQEGMAISASPPVNAFPLIADSRAPLLLAAGIGITPL 133 Y I V R+ +SRGGS +HE ++ G ++ S P N F L+ ++ LLLA GIG+TP+ Sbjct: 62 HRYQIGVLRDVNSRGGSVAVHEALKLGDILTISAPRNQFALVP-AQHSLLLAGGIGVTPI 120 Query: 134 HAMAAEMAAQGRRHRLHYFARSLAHAAFFHELAACS-QGMSLHLGLDGIETERAIAAALV 192 MA +AA G +HY ARS A AF +AA +H DG ++ AL+ Sbjct: 121 LCMAEALAAAGASFEMHYCARSPARQAFRERIAASGFAARVVHHYDDGEAAQKLDLDALL 180 Query: 193 A-VPSSSPLYVCGPAPFIEAARRHAQLAGWREQDVHFELF-AAPLMANAEPPSAAQAQAE 250 A ++ LYVCGPA FI A+ GW E VHFE F AAP+ A+ Sbjct: 181 AQADPATHLYVCGPAGFIAHVVDTARARGWPEAQVHFEYFGAAPVKADGNG--------- 231 Query: 251 EHVFELVLHRSGLRCEVQPGQSIVAAAAQVGVVIGTSCGEGFCGSCESTVLEGQPLHCDS 310 FE+ L SG + P ++++ + GV + SC +G CG+C + VLEG+P H D Sbjct: 232 --AFEVKLASSGQVYTIPPERTVIQVLCEHGVDVPVSCEQGICGTCLTRVLEGEPDHRDQ 289 Query: 311 VLSDAERASGRRILPCVSRCAGTRLVLDL 339 L+D ERA+ + PC SR LVLDL Sbjct: 290 YLTDEERAANDQFTPCCSRARSALLVLDL 318 >gi|300310671|ref|YP_003774763.1| flavodoxin reductases (ferredoxin-NADPH reductases) family 1 protein [Herbaspirillum seropedicae SmR1] Length = 318 Score = 203 bits (516), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 132/326 (40%), Positives = 177/326 (54%), Gaps = 10/326 (3%) Query: 16 LRLRVRAVRHAAEGIRLFELVAQEGAALPPWTPGAHLRLHLQDGLVRAYSLCNTPQQRDC 75 ++L V + IR F LV +GA LP + PGAH+ + G++R YSLC + R Sbjct: 1 MKLIVDTLTDETGDIRSFRLVRADGAPLPAYEPGAHIDVTGPTGIMRQYSLCGPLEDRCG 60 Query: 76 YVIAVKRESDSRGGSAFLHEQVQEGMAISASPPVNAFPLIADSRAPLLLAAGIGITPLHA 135 Y IAVKRES SRGGSA LH+ V+ GM + P N F L A + LL AGIG+TPL A Sbjct: 61 YTIAVKRESASRGGSAALHDVVKAGMELEVGTPRNLFALDASAPEHLLFGAGIGVTPLLA 120 Query: 136 MAAEMAAQGRRHRLHYFARSLAHAAF--FHELAACSQGMSLHLGLDGIETERAIAAALVA 193 MA + A+ +R LHYF R+ HAAF E A + + H + + E + L A Sbjct: 121 MAYRLWAEEKRFTLHYFVRAREHAAFADLLENAPFAAHVRFHYAVMPAQMEHYLTVCLEA 180 Query: 194 VPSSSPLYVCGPAPFIEAARRHAQLAGWREQDVHFELFAAPLMANAEPPSAAQAQAEEHV 253 + +Y CGPAPF++A + A A E+ +H E F A +A A + Sbjct: 181 GSKEAHVYTCGPAPFMDAVVKCAS-ATRSEEAIHLEHFQAAP-------AAPAAAGGDGA 232 Query: 254 FELVLHRSGLRCEVQPGQSIVAAAAQVGVVIGTSCGEGFCGSCESTVLEGQPLHCDSVLS 313 FE+ L SG ++ G IV A+ G+VI TSC EG CG+C +LEG+P H D+ LS Sbjct: 233 FEVKLASSGKVVQIPVGIPIVDILAREGIVIDTSCREGICGTCVVPLLEGEPDHRDNCLS 292 Query: 314 DAERASGRRILPCVSRCAGTRLVLDL 339 E+A+ +I CVSR LVLDL Sbjct: 293 KKEKAANDQICTCVSRARSGMLVLDL 318 >gi|300313415|ref|YP_003777507.1| phenylacetic acid degradation NADH oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 356 Score = 73.9 bits (180), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 82/322 (25%), Positives = 134/322 (41%), Gaps = 33/322 (10%) Query: 46 WTPGAHLRLHLQ---DGLVRAYSLCNTPQQRDCYVIAVKRESDSRGG--SAFLHEQVQEG 100 + G HL L + + L R+YS+C+ Q+R V A+KR + GG S + +E G Sbjct: 36 YQQGQHLTLRSEINGEDLRRSYSICSAVQERQLRV-AIKR---APGGLFSNWANESFVPG 91 Query: 101 MAISASPPVNAF--PLIADSRAPLL-LAAGIGITPLHAM-AAEMAAQGRRHRLHYFARSL 156 I PP+ F PL A +R L AAG GITP+ ++ + ++ H +A Sbjct: 92 QRIDVMPPMGHFNVPLEAGNRKHYLAFAAGSGITPMMSIIKTTLLSEPHSHFTLVYANRA 151 Query: 157 AHAAFFHE------------------LAACSQGMSLHLGLDGIETERAIAAALVAVPSSS 198 + + F E ++ Q + L G A A+ + + Sbjct: 152 SSSVIFKEELTDLKDAYLERFNVVYVMSREQQDVELFNGRIDRAKCDAFFASWIDLKDVD 211 Query: 199 PLYVCGPAPFIEAARRHAQLAGWREQDVHFELFAAPLMANAEPPSAAQAQAEEHVFELVL 258 ++CGP ++A Q G + + ELFAA A + E V +V Sbjct: 212 AAFLCGPEEMVQAVAASLQAHGLPKTQIKTELFAASTPPRAHAARTVVGKQECEVTVIVD 271 Query: 259 HRSGLRCEVQPGQSIVAAAAQVGVVIGTSCGEGFCGSCESTVLEGQ-PLHCDSVLSDAER 317 + + +S++ A + G+ + SC G C +C V+EG+ + + L D E Sbjct: 272 GYHNVFTMDKEKESVLEAGLKHGIDLRYSCKGGVCATCRCKVVEGKVDMDANYALEDYEI 331 Query: 318 ASGRRILPCVSRCAGTRLVLDL 339 A G +L C S +L+LD Sbjct: 332 ARG-FVLSCQSFPVSDKLLLDF 352 >gi|300311823|ref|YP_003775915.1| nitric oxide dioxygenase [Herbaspirillum seropedicae SmR1] Length = 397 Score = 59.3 bits (142), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 64/226 (28%), Positives = 93/226 (41%), Gaps = 23/226 (10%) Query: 27 AEGIRLFELVAQEGAALPPWTPGAHLRLHLQ-DG--LVRAYSLC---NTPQQRDCYVIAV 80 +E I F V Q+G L + PG ++ L + DG R YSL Q Y I+V Sbjct: 167 SEEITSFHFVPQDGGELLDFAPGQYIGLRMVVDGEEQRRQYSLSALLRQAGQPPQYRISV 226 Query: 81 KRESDSRGGSAFLHEQVQEGMAISASPPVNAFPLIADSRAPLLLAAGIGITPLHAMAAEM 140 KRE + S LH+Q+ G + PP F L+A + L++ G+GITP+ +M A Sbjct: 227 KREPGGKV-SRQLHDQIHVGSVVELFPPAGEFTLMASDKPLALISGGVGITPMMSMLAAA 285 Query: 141 AAQGRRHRLHYFARSLAHAAF---FHELAACSQGMSLHLGLD------------GIETER 185 GR + AR AF ELAA + L + G+ ER Sbjct: 286 LPSGRPIHFIHAARHGGVHAFRRQLEELAARHPQLQLRFCYEQPRQGDAAPHATGL-IER 344 Query: 186 AIAAALVAVPSSSPLYVCGPAPFIEAARRHAQLAGWREQDVHFELF 231 ++ + Y GP F++A +R G +E F Sbjct: 345 SLLQQWLPGNPDLDAYFVGPKSFMKAIKRQLAELGVPAAQSRYEFF 390 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 0.134 0.404 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: 848,988 Number of extensions: 29162 Number of successful extensions: 133 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 123 Number of HSP's successfully gapped: 6 Length of query: 339 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 253 Effective length of database: 1,212,660 Effective search space: 306802980 Effective search space used: 306802980 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 (22.0 bits) S2: 131 (55.1 bits)