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= 0066.0074.p (374 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313482|ref|YP_003777574.1| lipopolysaccharide biosynthesis... 163 2e-41 gi|300311404|ref|YP_003775496.1| pyridoxal phosphate-dependent a... 158 8e-40 gi|300313484|ref|YP_003777576.1| DegT/DnrJ/EryC1/StrS aminotrans... 125 4e-30 gi|300312168|ref|YP_003776260.1| pyridoxal phosphate-dependent a... 114 2e-26 gi|300313698|ref|YP_003777790.1| CDP-4-keto-6-deoxy-D-glucose-3-... 105 5e-24 >gi|300313482|ref|YP_003777574.1| lipopolysaccharide biosynthesis protein [Herbaspirillum seropedicae SmR1] Length = 366 Score = 163 bits (413), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 118/339 (34%), Positives = 179/339 (52%), Gaps = 19/339 (5%) Query: 37 GPYHQRLEAALCDFLGVAHISLFGNGTQALLTALQAADID--GEVITTPYSFIATTHSLL 94 GP + LEAAL + G H +GT+ALL +L A DI E+ITTP++F+AT ++ Sbjct: 37 GPEVRELEAALEAYTGAKHCITVASGTEALLISLMALDIKPGDEIITTPFTFVATAEVMV 96 Query: 95 WNQLKPVFVDIDPQTLNLDPARIEAAITPATKAIMPVHCYGHPCDVHAIRTIADKHG-LK 153 KPVFVD++P T N+D IEA IT TKAIMPV YG D+ I IA +HG L Sbjct: 97 LLGAKPVFVDVEPDTGNIDVRLIEARITSKTKAIMPVSLYGQAADMDEINAIAARHGNLP 156 Query: 154 VIYDAAHAFGVQDAQGSILKYGDLSVL---SFHATKVFNTF-EGGAIVSHDKETKQRIDQ 209 VI DAA +FG A K G+LS + SF +K + +GGAI ++D Q Sbjct: 157 VIEDAAQSFG---ATYKGRKSGNLSSIGCTSFFPSKPLGCYGDGGAIFTNDDAIALACRQ 213 Query: 210 LKNFGFERDGSTVALLGTNGKLSEIHAAFGLLQLKDIGSALQQRQVIDQRYRQKLAAIPG 269 ++ G + +G G++ + A L +L+ ++QR + RY L A G Sbjct: 214 IRVHG-QSQRYVHTRVGVGGRMDTLQCAIVLAKLERFDWEIEQRLALGSRYNSLLDA-AG 271 Query: 270 VTCIEGLNESTANYAYFPILIDEAYPLSRDALFQHLQDKGIYTRRYFYPLISNSPVYCEL 329 + I+ + + +A + +L+D +R+A+ LQ+ GI T ++ ++ P Y L Sbjct: 272 IARIQQRPDRDSVFAQYTVLLD-----NREAVQAALQNAGIPTAVHYPVPLNRQPAYRHL 326 Query: 330 PSADAANLPVATRVANQVICLPIYPGLSEEQVDTVIAAI 368 D PVA ++A +V+ LP+ P L D+++AA+ Sbjct: 327 --GDPDQTPVADQLAARVMSLPMSPDLEHTAQDSIVAAL 363 >gi|300311404|ref|YP_003775496.1| pyridoxal phosphate-dependent aminotransferase [Herbaspirillum seropedicae SmR1] Length = 373 Score = 158 bits (399), Expect = 8e-40, Method: Compositional matrix adjust. Identities = 113/340 (33%), Positives = 170/340 (50%), Gaps = 26/340 (7%) Query: 37 GPYHQRLEAALCDFLGVAHISLFGNGTQALLTALQAADID--GEVITTPYSFIATTHSLL 94 GP Q E AL D+LG + F +GT + AL+ A + EVITTP S++AT + +L Sbjct: 33 GPKVQAFEKALSDYLGGRIVRTFNSGTCTMEIALRIAGVGPGDEVITTPISWVATANVIL 92 Query: 95 WNQLKPVFVDIDPQTLNLDPARIEAAITPATKAIMPVHCYGHPCDVHAIRTIADKHGLKV 154 PVF DIDP T N+D ++EAAITP TKA++PV+ G P D+ + IA KH L+V Sbjct: 93 ETGATPVFADIDPITRNIDLDKLEAAITPRTKAVIPVYLSGLPVDMDRLYAIAAKHKLRV 152 Query: 155 IYDAAHAFGVQDAQGSILKYGDLSVLSFHATKVFNTFEGGAIVSHDKE-----TKQRIDQ 209 + DAA A G I +GD S A K + EGG +V ++ E K R+ Sbjct: 153 VEDAAQALGSTWNGKRIGAFGDFVSFSLQANKNITSSEGGFLVLNNAEEARLAEKYRLQG 212 Query: 210 LKNFGFERDGSTVALLGTNGKLSEIHAAFGLLQLKDIGSALQQRQVIDQRY--------R 261 + GF DG V +LG ++++ AA GL Q I + R+ + + Y Sbjct: 213 VTRSGF--DGLEVDVLGGKFNMTDVAAAIGLGQFAHIDAITAHRKELARHYFACFGSDFE 270 Query: 262 QKLAAIPGVTCIEGLNESTANYAYFPILIDEAYPLSRDALFQHLQDKGIYTRRYFYPLIS 321 + A V E +N+ F +++ E ++R A + + +K I Y YP I Sbjct: 271 SRYGAQLPVADFE-----NSNWHMFQLVLPER--ITRAAFMEKMMEKQIGI-GYHYPAIH 322 Query: 322 NSPVYCELPSADAANLPVATRVANQVICLPIYPGLSEEQV 361 +Y E + PVA RV +++ LP++ +S++ V Sbjct: 323 LLKLYRERGFGEGM-FPVAERVGQRIVSLPMFNTMSKDDV 361 >gi|300313484|ref|YP_003777576.1| DegT/DnrJ/EryC1/StrS aminotransferase family protein [Herbaspirillum seropedicae SmR1] Length = 388 Score = 125 bits (315), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 105/363 (28%), Positives = 166/363 (45%), Gaps = 28/363 (7%) Query: 33 LTNG----GPYHQRLEAALCDFLGVAHISLFGNGTQALLTALQAADID--GEVITTPYSF 86 L+NG GP + E F G H + T AL +L A E I +++ Sbjct: 22 LSNGWLVQGPKVREFEEKWSAFTGARHSIAVTSCTTALHLSLAALGFGPGDEAIVPAFTW 81 Query: 87 IATTHSLLWNQLKPVFVDIDPQTLNLDPARIEAAITPATKAIMPVHCYGHPCDVHAIRTI 146 IAT + + K VF DID T NLD A + + IT TKAI+PVH +G ++ I + Sbjct: 82 IATANVIEHLGGKVVFCDIDLNTFNLDVAALRSKITSRTKAILPVHLFGLAAEMDQINDV 141 Query: 147 ADKHGLKVIYDAAHAFGVQDAQGSILKYGDLSVLSFHATKVFNTFEGGAIVSHDKETKQR 206 A +HGL V+ DAA FG + + GD SFH K T EGG I + + ++ Sbjct: 142 AKQHGLWVVEDAACGFGSRYHGKHVGVLGDTGCFSFHPRKAITTGEGGMITTDNDALAEK 201 Query: 207 IDQLKNFG-----FERD-GSTVALL------GTNGKLSEIHAAFGLLQLKDIGSALQQRQ 254 + +L++ G +R G+ LL G N ++++I AA G Q++ + +R+ Sbjct: 202 LRRLRDHGAAMTDLQRHLGARPYLLADHPDAGYNQRMTDIQAALGAAQMERADDIIAERR 261 Query: 255 VIDQRYRQKLAAIPGVTC---IEGLNESTANYAYF----PILID--EAYPLSRDALFQHL 305 + +RY A + + ++GL +Y P+ D E +R+A L Sbjct: 262 RLAERYDAAFADLSWLRTPAHVDGLEHGYQSYPCLFQPEPVNTDSIERINAARNAWMDSL 321 Query: 306 QDKGIYTRRYFYPLISNSPVYCELPSADAANLPVATRVANQVICLPIYPGLSEEQVDTVI 365 Q GI TR + + Y E + A+ P A + I LP++ G+++ + D VI Sbjct: 322 QQAGISTRPATHA-VHMLTFYREKYALKPADFPNAWAANDCSISLPLFHGMTQAEQDFVI 380 Query: 366 AAI 368 + Sbjct: 381 EQV 383 >gi|300312168|ref|YP_003776260.1| pyridoxal phosphate-dependent aminotransferase [Herbaspirillum seropedicae SmR1] Length = 382 Score = 114 bits (284), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 85/344 (24%), Positives = 156/344 (45%), Gaps = 10/344 (2%) Query: 35 NGGPYHQRLEAALCDFLGVAHISLFGNGTQALLTALQAADIDG--EVITTPYSFIATTHS 92 + GP + E +LG + +GT AL+ AL+A I EVI + YS+ H+ Sbjct: 31 SAGPVVESFENEFASYLGRTYGVAAASGTVALMLALRAMGIRAGDEVIASAYSWHQIVHA 90 Query: 93 LLWNQLKPVFVDIDPQTLNLDPARIEAAITPATKAIMPVHCYGHPCDVHAIRTIADKHGL 152 + PVF DID + NL P ++ I+ T+AI+ +C GHP R +A HGL Sbjct: 91 ITLVGATPVFADIDYWSGNLAPHKVADKISQRTRAIVVGNCNGHPAAWTEFRQLAQAHGL 150 Query: 153 KVIYDAAHAFGVQDAQGSILKYGDLSVLSFHATKVFNTFEGGAIVSHDKETKQRIDQLKN 212 ++I D++ A G + + +GD+++ F EG +V+ D E + ++N Sbjct: 151 RLIEDSSEAIGSRYQGRVVGNFGDIAIFDFSQPSALCCGEGAMLVTDDPELASELHYMRN 210 Query: 213 FGFERDGSTVALLG---TNGKLSEIHAAFGLLQLKDIGSALQQRQVIDQRYRQKLAAIPG 269 D ++A+ G +S++ AA G+ QL+ + L +R+ ++ Y + + G Sbjct: 211 RNLS-DRQSIAVASRVPMQGSMSDLSAAIGIAQLERLDEILMRRKQVEAYYLEHVQFFEG 269 Query: 270 VT--CIEGLNESTANYAYFPILIDEAYPLSRDALFQHLQDKGIYTRRYFYPLISNSPVYC 327 + I E Y L R+ + + L + + + PL + Y Sbjct: 270 IKPPYIGPDVEEVYWMLYLVHLGTRFTRTMRNQIIEDLASQEVEAAAWCQPL--HQQFYY 327 Query: 328 ELPSADAANLPVATRVANQVICLPIYPGLSEEQVDTVIAAISEA 371 +L + ++A++ I LP++ L+ ++V ++ A +A Sbjct: 328 SRFDCKRGDLLLTEKIADRCIALPLHGHLNTDEVHFIVQAAKDA 371 >gi|300313698|ref|YP_003777790.1| CDP-4-keto-6-deoxy-D-glucose-3-dehydrase [Herbaspirillum seropedicae SmR1] Length = 390 Score = 105 bits (263), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 88/343 (25%), Positives = 151/343 (44%), Gaps = 47/343 (13%) Query: 4 KEPIFVTRPVLPPLEEFIPYLQEIWDARILTNGGPYHQRLEAALCDFLGVAHISLFGNGT 63 K P+ + L+ I +L++ D ILTNG P + E ++LGV + +G Sbjct: 3 KYPLMRNNILREDLDAVIEHLRQ--DDPILTNG-PNVRAFEKEWSEWLGVKYSVFVNSGA 59 Query: 64 QALLTALQAADI----DGEVITTPYSFIATTHSLLWNQLKPVFVDIDPQTLNLDPARIEA 119 A L ++ + GEVI P ++I+ +++ N PVF DIDP++L + P +I A Sbjct: 60 SANLLSMAVLKLRHPEGGEVIVPPLTWISDVATVIQNGFTPVFADIDPRSLAMAPEQILA 119 Query: 120 AITPATKAIMPVHCYGHPCDVHAIRTIADKHGLKVIYDAAHAFGVQDAQGSILKYGDLSV 179 IT T+A+ H G + ++ + +I D + G + +G +S Sbjct: 120 KITERTRAVFLTHVQGFDGLTDELLAELERRNIPLIEDVCESHGATHNGQRLGSFGWMSN 179 Query: 180 LSFHATKVFNTFEGGAIVSHDKETKQRIDQLKNFGFERDGS------------------- 220 SF+ +T EGG + ++D E Q++ L++ G R+ + Sbjct: 180 FSFYYAHHMSTIEGGMVCTNDPEVYQQVRMLRSHGMVREATDDDLKLGYRQDNPQLNPDF 239 Query: 221 TVALLGTNGKLSEIHAAFGLLQLKDIGSALQQR---------QVIDQRYRQKLAAIPGVT 271 A N + +EI A G QLK + + +R Q+ QRYR Sbjct: 240 IFAFPAYNVRNTEIGAIMGRSQLKRLDANCARRTANMMRFLDQIDSQRYR---------- 289 Query: 272 CIEGLNESTANYAYFPILIDEAYPLSRDALFQHLQDKGIYTRR 314 ++ E ++NYA F +++ EA + + L Q ++ GI RR Sbjct: 290 -VDFKTEGSSNYA-FNLVLREADDVFVERLMQTMRSNGIEFRR 330 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: 1,182,680 Number of extensions: 49082 Number of successful extensions: 164 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 157 Number of HSP's successfully gapped: 5 Length of query: 374 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 287 Effective length of database: 1,207,925 Effective search space: 346674475 Effective search space used: 346674475 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: 131 (55.1 bits)