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= 0007.0133.p (426 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... 584 e-168 gi|300313415|ref|YP_003777507.1| phenylacetic acid degradation N... 108 1e-24 gi|300310642|ref|YP_003774734.1| electron transfer component of ... 79 6e-16 gi|300313278|ref|YP_003777370.1| vanillate O-demethylase (vanill... 69 6e-13 gi|300309798|ref|YP_003773890.1| flavodoxin reductases (ferredox... 64 2e-11 >gi|300311823|ref|YP_003775915.1| nitric oxide dioxygenase [Herbaspirillum seropedicae SmR1] Length = 397 Score = 584 bits (1506), Expect = e-168, Method: Compositional matrix adjust. Identities = 286/397 (72%), Positives = 325/397 (81%), Gaps = 4/397 (1%) Query: 21 MLSDVHRAIVKSTVPLLESGGEALTTHFYKMLMRDYPQVIPLFNKAHQGSGDQQRALANG 80 ML+D AIVKSTVPLLESGGEALTTHFYKMLMRDYPQV PLFN+AHQ SGDQ RALANG Sbjct: 1 MLTDAQLAIVKSTVPLLESGGEALTTHFYKMLMRDYPQVRPLFNRAHQASGDQPRALANG 60 Query: 81 VLMYARHIDRLEQLGGLVTTIINKHVALQIQPEHYPMVGDCLLRAIREVLGAEIATDQVI 140 VLMYARHIDRLE+LG L IINKHVA+Q+ PEHYPMVGDCLLRAIREVLGAEIATD VI Sbjct: 61 VLMYARHIDRLEELGPLAAQIINKHVAVQVLPEHYPMVGDCLLRAIREVLGAEIATDAVI 120 Query: 141 EAWGAAYGQLAEILIGAEEGIYQATEKADGGWRGLRKFIVVRRVDESEEITSFYFAPEDG 200 +AW AAYGQLA+ILIGAE Y+A +A GGW G R FIV R+V ESEEITSF+F P+DG Sbjct: 121 DAWAAAYGQLADILIGAERQQYEAKAQAPGGWSGARNFIVSRKVAESEEITSFHFVPQDG 180 Query: 201 KAILEYHPGQYIGLCVTVDGEEMRRQYSLSA----APNSKMYRISVKREPNGKVSNFLHD 256 +L++ PGQYIGL + VDGEE RRQYSLSA A YRISVKREP GKVS LHD Sbjct: 181 GELLDFAPGQYIGLRMVVDGEEQRRQYSLSALLRQAGQPPQYRISVKREPGGKVSRQLHD 240 Query: 257 HMTVGKQIDLMPPSGEFTLTQSERPLVLISGGVGITPMLAMLDAALPGKRPVVFIHAARH 316 + VG ++L PP+GEFTL S++PL LISGGVGITPM++ML AALP RP+ FIHAARH Sbjct: 241 QIHVGSVVELFPPAGEFTLMASDKPLALISGGVGITPMMSMLAAALPSGRPIHFIHAARH 300 Query: 317 GGVHAFGKKIADLAQEYPQLQHFFCYEQTREQDPAPHATGYLDRDKLSRWLPESMDVDAY 376 GGVHAF +++ +LA +PQLQ FCYEQ R+ D APHATG ++R L +WLP + D+DAY Sbjct: 301 GGVHAFRRQLEELAARHPQLQLRFCYEQPRQGDAAPHATGLIERSLLQQWLPGNPDLDAY 360 Query: 377 FVGPKSFMKAVKRHLHELGVPAAQARYEFFGPASSLD 413 FVGPKSFMKA+KR L ELGVPAAQ+RYEFFGPA+SLD Sbjct: 361 FVGPKSFMKAIKRQLAELGVPAAQSRYEFFGPAASLD 397 >gi|300313415|ref|YP_003777507.1| phenylacetic acid degradation NADH oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 356 Score = 108 bits (269), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 67/234 (28%), Positives = 118/234 (50%), Gaps = 14/234 (5%) Query: 188 EEITSFYFAPEDGKAILEYHPGQYIGLCVTVDGEEMRRQYSLSAAPNSKMYRISVKREPN 247 + I + P + + Y GQ++ L ++GE++RR YS+ +A + R+++KR P Sbjct: 18 DTIVVSFAVPAELQDTFSYQQGQHLTLRSEINGEDLRRSYSICSAVQERQLRVAIKRAPG 77 Query: 248 GKVSNFLHDHMTVGKQIDLMPPSGEFTL---TQSERPLVLISGGVGITPMLAMLDAALPG 304 G SN+ ++ G++ID+MPP G F + + + + + G GITPM++++ L Sbjct: 78 GLFSNWANESFVPGQRIDVMPPMGHFNVPLEAGNRKHYLAFAAGSGITPMMSIIKTTLLS 137 Query: 305 K--RPVVFIHAARHGGVHAFGKKIADLAQEYPQLQHF-FCYEQTREQDPAPHATGYLDRD 361 + ++A R F +++ DL Y L+ F Y +REQ G +DR Sbjct: 138 EPHSHFTLVYANRASSSVIFKEELTDLKDAY--LERFNVVYVMSREQQDVELFNGRIDRA 195 Query: 362 K----LSRWLPESMDVDAYFV-GPKSFMKAVKRHLHELGVPAAQARYEFFGPAS 410 K + W+ + DVDA F+ GP+ ++AV L G+P Q + E F ++ Sbjct: 196 KCDAFFASWI-DLKDVDAAFLCGPEEMVQAVAASLQAHGLPKTQIKTELFAAST 248 >gi|300310642|ref|YP_003774734.1| electron transfer component of chlorobenzoate 1,2-dioxygenase [Herbaspirillum seropedicae SmR1] Length = 351 Score = 79.3 bits (194), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 61/217 (28%), Positives = 100/217 (46%), Gaps = 20/217 (9%) Query: 196 APEDGKAILEYHPGQYIGLCVTVDGEEMRRQYSLSAAPNSKMYRISVKREPNGKVSNFLH 255 AP + A L PGQY+ + V G R YS S+ + +K P G +SN+L Sbjct: 129 APANAPAFL---PGQYVN--IGVPGSGQHRSYSFSSPSGASRMSFLIKNVPGGLMSNWLA 183 Query: 256 DHMTVGKQIDLMPPSGEFTLTQSERPLVLISGGVGITPMLAMLD--AALPGKRPVVFIHA 313 + G ++L P G F L +RP+++++GG G+ P L+ML+ A +PV I+ Sbjct: 184 G-ASEGATLELTGPLGSFYLRPVKRPVLMLAGGTGLAPFLSMLEELAQQGLDQPVHLIYG 242 Query: 314 ARHGGVHAFGKKIADLAQEYPQLQHFFCYEQTREQDPAPHATGYLDRDKLSRWLPESM-- 371 +++ LA P C DP AT + + +++ +P ++ Sbjct: 243 VTRDQDLVLVERLQALADRLPGFSFTTCVA-----DP---ATTHARQGYVTQHMPAAVLH 294 Query: 372 --DVDAYFVGPKSFMKAVKRHLHELGVPAAQARYEFF 406 +VD Y GP ++AV++H G+ A YE F Sbjct: 295 DGNVDVYLCGPPPMVEAVQKHFQATGMQPASFYYEKF 331 >gi|300313278|ref|YP_003777370.1| vanillate O-demethylase (vanillate degradation ferredoxin-like) oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 318 Score = 69.3 bits (168), Expect = 6e-13, Method: Compositional matrix adjust. Identities = 63/232 (27%), Positives = 105/232 (45%), Gaps = 18/232 (7%) Query: 180 VVRRVDESEEITSFYFAPEDGKAILEYHPGQYIGLCVTVDGEEMRRQYSLSAAPNSK-MY 238 V R +E+ +I + DG A+ + G +I V + G + RQYSL AP+ + Y Sbjct: 8 VAARREEAHDIIALELVAVDGAALPAFTAGAHID--VHLPGG-LVRQYSLCNAPHEQHRY 64 Query: 239 RISVKREPNGKVSNF-LHDHMTVGKQIDLMPPSGEFTLTQSERPLVLISGGVGITPMLAM 297 +I V R+ N + + +H+ + +G + + P +F L ++ L L++GG+G+TP+L M Sbjct: 65 QIGVLRDVNSRGGSVAVHEALKLGDILTISAPRNQFALVPAQHSL-LLAGGIGVTPILCM 123 Query: 298 LDAALPGKRPVVFIHAARHGGVHAFGKKIADLAQEYPQLQHFFCYEQTREQDPAPHATGY 357 +A + AR AF ++IA + H+ E ++ Sbjct: 124 AEALAAAGASFEMHYCARSPARQAFRERIAASGFAARVVHHYDDGEAAQK---------- 173 Query: 358 LDRDKLSRWLPESMDVDAYFVGPKSFMKAVKRHLHELGVPAAQARYEFFGPA 409 LD D L + + Y GP F+ V G P AQ +E+FG A Sbjct: 174 LDLDALLAQADPATHL--YVCGPAGFIAHVVDTARARGWPEAQVHFEYFGAA 223 >gi|300309798|ref|YP_003773890.1| flavodoxin reductases (ferredoxin-NADPH reductases) family 1 protein [Herbaspirillum seropedicae SmR1] Length = 339 Score = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 46/130 (35%), Positives = 70/130 (53%), Gaps = 7/130 (5%) Query: 181 VRRVDES-EEITSFYFAPEDGKAILEYHPGQYIGLCVTVDGEEMRRQYSLSAAPNSK-MY 238 VR V ++ ++I +DG A+ + PG ++ L + DG + R YSL P + Y Sbjct: 20 VRAVRQAAQDIRLLELVSQDGAALPPWTPGAHLRLQLQ-DG--LVRAYSLCNTPQQRDCY 76 Query: 239 RISVKREPNGKV-SNFLHDHMTVGKQIDLMPPSGEFTLTQSERPLVLISGGVGITPMLAM 297 I+VKREP+ + S FLH+ + G I PP F L R +L++ G+GITP+ AM Sbjct: 77 LIAVKREPDSRGGSAFLHEQVQEGTTISASPPVNAFPLIADVRAPLLLAAGIGITPLHAM 136 Query: 298 -LDAALPGKR 306 + A G+R Sbjct: 137 AAELATQGRR 146 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 0.138 0.410 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: 1,414,165 Number of extensions: 62089 Number of successful extensions: 172 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 165 Number of HSP's successfully gapped: 7 Length of query: 426 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 338 Effective length of database: 1,203,190 Effective search space: 406678220 Effective search space used: 406678220 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: 132 (55.5 bits)