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= 0036.0366.p (373 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311404|ref|YP_003775496.1| pyridoxal phosphate-dependent a... 734 0.0 gi|300313484|ref|YP_003777576.1| DegT/DnrJ/EryC1/StrS aminotrans... 196 2e-51 gi|300312168|ref|YP_003776260.1| pyridoxal phosphate-dependent a... 162 4e-41 gi|300313482|ref|YP_003777574.1| lipopolysaccharide biosynthesis... 157 1e-39 gi|300313698|ref|YP_003777790.1| CDP-4-keto-6-deoxy-D-glucose-3-... 122 6e-29 >gi|300311404|ref|YP_003775496.1| pyridoxal phosphate-dependent aminotransferase [Herbaspirillum seropedicae SmR1] Length = 373 Score = 734 bits (1895), Expect = 0.0, Method: Compositional matrix adjust. Identities = 351/373 (94%), Positives = 365/373 (97%) Query: 1 MSLPFLPFSKPTIDDATIAAVGEVLRSGWITSGPKVQAFEKALSDYLGGRIVRTFNSGTC 60 MSLPFLPF+KPTID+ TIAAVGEVLRSGWITSGPKVQAFEKALSDYLGGRIVRTFNSGTC Sbjct: 1 MSLPFLPFAKPTIDEPTIAAVGEVLRSGWITSGPKVQAFEKALSDYLGGRIVRTFNSGTC 60 Query: 61 TMEIALRIAGIGAGDEVITTPISWVATANVILETGATPVFADIDPVTRNIDLDRLEAAIT 120 TMEIALRIAG+G GDEVITTPISWVATANVILETGATPVFADIDP+TRNIDLD+LEAAIT Sbjct: 61 TMEIALRIAGVGPGDEVITTPISWVATANVILETGATPVFADIDPITRNIDLDKLEAAIT 120 Query: 121 PRTKAIIPVYLAGLPLDMDRLYAIAAKHNLRVVEDAAQALGSTWKGKRIGAFGDFVSFSL 180 PRTKA+IPVYL+GLP+DMDRLYAIAAKH LRVVEDAAQALGSTW GKRIGAFGDFVSFSL Sbjct: 121 PRTKAVIPVYLSGLPVDMDRLYAIAAKHKLRVVEDAAQALGSTWNGKRIGAFGDFVSFSL 180 Query: 181 QANKNITSSEGGFLVLNNAEEARLAEKYRLQGVTRSGFDGLEVDVLGGKFNMTDVAAAIG 240 QANKNITSSEGGFLVLNNAEEARLAEKYRLQGVTRSGFDGLEVDVLGGKFNMTDVAAAIG Sbjct: 181 QANKNITSSEGGFLVLNNAEEARLAEKYRLQGVTRSGFDGLEVDVLGGKFNMTDVAAAIG 240 Query: 241 LGQFAHIDAVTAHRKELARHYFACFGSDFEASFGAQLPVADFENSNWHMFQLVLPERITR 300 LGQFAHIDA+TAHRKELARHYFACFGSDFE+ +GAQLPVADFENSNWHMFQLVLPERITR Sbjct: 241 LGQFAHIDAITAHRKELARHYFACFGSDFESRYGAQLPVADFENSNWHMFQLVLPERITR 300 Query: 301 AAFMEKMMEKQVGIGYHYPSIHLLKLYRERGFKEGMFPVAERVGQRIVSLPMFNAMSKED 360 AAFMEKMMEKQ+GIGYHYP+IHLLKLYRERGF EGMFPVAERVGQRIVSLPMFN MSK+D Sbjct: 301 AAFMEKMMEKQIGIGYHYPAIHLLKLYRERGFGEGMFPVAERVGQRIVSLPMFNTMSKDD 360 Query: 361 VERSVETVKSVLG 373 V RSVETVKSVLG Sbjct: 361 VVRSVETVKSVLG 373 >gi|300313484|ref|YP_003777576.1| DegT/DnrJ/EryC1/StrS aminotransferase family protein [Herbaspirillum seropedicae SmR1] Length = 388 Score = 196 bits (499), Expect = 2e-51, Method: Compositional matrix adjust. Identities = 127/384 (33%), Positives = 186/384 (48%), Gaps = 22/384 (5%) Query: 6 LPFSKPTIDDATIAAVGEVLRSGWITSGPKVQAFEKALSDYLGGRIVRTFNSGTCTMEIA 65 +P ++ ++ +A I +V L +GW+ GPKV+ FE+ S + G R S T + ++ Sbjct: 3 VPIARTSLTEAEIQSVLAPLSNGWLVQGPKVREFEEKWSAFTGARHSIAVTSCTTALHLS 62 Query: 66 LRIAGIGAGDEVITTPISWVATANVILETGATPVFADIDPVTRNIDLDRLEAAITPRTKA 125 L G G GDE I +W+ATANVI G VF DID T N+D+ L + IT RTKA Sbjct: 63 LAALGFGPGDEAIVPAFTWIATANVIEHLGGKVVFCDIDLNTFNLDVAALRSKITSRTKA 122 Query: 126 IIPVYLAGLPLDMDRLYAIAAKHNLRVVEDAAQALGSTWKGKRIGAFGDFVSFSLQANKN 185 I+PV+L GL +MD++ +A +H L VVEDAA GS + GK +G GD FS K Sbjct: 123 ILPVHLFGLAAEMDQINDVAKQHGLWVVEDAACGFGSRYHGKHVGVLGDTGCFSFHPRKA 182 Query: 186 ITSSEGGFLVLNNAEEARLAEKYRLQGVTRSGFDG-------LEVDVLGGKFN--MTDVA 236 IT+ EGG + +N A + R G + L D +N MTD+ Sbjct: 183 ITTGEGGMITTDNDALAEKLRRLRDHGAAMTDLQRHLGARPYLLADHPDAGYNQRMTDIQ 242 Query: 237 AAIGLGQFAHIDAVTAHRKELARHYFACFGSDFEASFGAQLPVADFENSNWHMFQLVLPE 296 AA+G Q D + A R+ LA Y A F A V E+ L PE Sbjct: 243 AALGAAQMERADDIIAERRRLAERYDAAFADLSWLRTPAH--VDGLEHGYQSYPCLFQPE 300 Query: 297 RIT----------RAAFMEKMMEKQVGIGYHYPSIHLLKLYRER-GFKEGMFPVAERVGQ 345 + R A+M+ + + + ++H+L YRE+ K FP A Sbjct: 301 PVNTDSIERINAARNAWMDSLQQAGISTRPATHAVHMLTFYREKYALKPADFPNAWAAND 360 Query: 346 RIVSLPMFNAMSKEDVERSVETVK 369 +SLP+F+ M++ + + +E V+ Sbjct: 361 CSISLPLFHGMTQAEQDFVIEQVR 384 >gi|300312168|ref|YP_003776260.1| pyridoxal phosphate-dependent aminotransferase [Herbaspirillum seropedicae SmR1] Length = 382 Score = 162 bits (410), Expect = 4e-41, Method: Compositional matrix adjust. Identities = 110/375 (29%), Positives = 182/375 (48%), Gaps = 12/375 (3%) Query: 1 MSLPFLPFSKPTIDDATIAAVGEVLRSGWITSGPKVQAFEKALSDYLGGRIVRTFNSGTC 60 M ++ S P + + AV VL S +++GP V++FE + YLG SGT Sbjct: 1 MEQEWIKLSDPDVSTRELEAVTRVLVSSGLSAGPVVESFENEFASYLGRTYGVAAASGTV 60 Query: 61 TMEIALRIAGIGAGDEVITTPISWVATANVILETGATPVFADIDPVTRNIDLDRLEAAIT 120 + +ALR GI AGDEVI + SW + I GATPVFADID + N+ ++ I+ Sbjct: 61 ALMLALRAMGIRAGDEVIASAYSWHQIVHAITLVGATPVFADIDYWSGNLAPHKVADKIS 120 Query: 121 PRTKAIIPVYLAGLPLDMDRLYAIAAKHNLRVVEDAAQALGSTWKGKRIGAFGDFVSFSL 180 RT+AI+ G P +A H LR++ED+++A+GS ++G+ +G FGD F Sbjct: 121 QRTRAIVVGNCNGHPAAWTEFRQLAQAHGLRLIEDSSEAIGSRYQGRVVGNFGDIAIFDF 180 Query: 181 QANKNITSSEGGFLVLNNAEEARLAEKYRLQGVTRSGFDGLEV-DVLGGKFNMTDVAAAI 239 + EG LV ++ E A +E + ++ S + V + + +M+D++AAI Sbjct: 181 SQPSALCCGEGAMLVTDDPELA--SELHYMRNRNLSDRQSIAVASRVPMQGSMSDLSAAI 238 Query: 240 GLGQFAHIDAVTAHRKELARHYFACFGSDFEASFGAQLPV--ADFENSNWHMFQLVLPER 297 G+ Q +D + RK++ +Y FE G + P D E W ++ + L R Sbjct: 239 GIAQLERLDEILMRRKQVEAYYLEHV-QFFE---GIKPPYIGPDVEEVYWMLYLVHLGTR 294 Query: 298 ITRA---AFMEKMMEKQVGIGYHYPSIHLLKLYRERGFKEGMFPVAERVGQRIVSLPMFN 354 TR +E + ++V +H Y K G + E++ R ++LP+ Sbjct: 295 FTRTMRNQIIEDLASQEVEAAAWCQPLHQQFYYSRFDCKRGDLLLTEKIADRCIALPLHG 354 Query: 355 AMSKEDVERSVETVK 369 ++ ++V V+ K Sbjct: 355 HLNTDEVHFIVQAAK 369 >gi|300313482|ref|YP_003777574.1| lipopolysaccharide biosynthesis protein [Herbaspirillum seropedicae SmR1] Length = 366 Score = 157 bits (397), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 119/362 (32%), Positives = 184/362 (50%), Gaps = 15/362 (4%) Query: 13 IDDATIAAVGEVLRSGWITSGPKVQAFEKALSDYLGGRIVRTFNSGTCTMEIALRIAGIG 72 + DA + + +VL G GP+V+ E AL Y G + T SGT + I+L I Sbjct: 17 LKDAINSRIQKVLDHGQYIMGPEVRELEAALEAYTGAKHCITVASGTEALLISLMALDIK 76 Query: 73 AGDEVITTPISWVATANVILETGATPVFADIDPVTRNIDLDRLEAAITPRTKAIIPVYLA 132 GDE+ITTP ++VATA V++ GA PVF D++P T NID+ +EA IT +TKAI+PV L Sbjct: 77 PGDEIITTPFTFVATAEVMVLLGAKPVFVDVEPDTGNIDVRLIEARITSKTKAIMPVSLY 136 Query: 133 GLPLDMDRLYAIAAKH-NLRVVEDAAQALGSTWKGKRIGAFGDFVSFSLQANKNI-TSSE 190 G DMD + AIAA+H NL V+EDAAQ+ G+T+KG++ G S +K + + Sbjct: 137 GQAADMDEINAIAARHGNLPVIEDAAQSFGATYKGRKSGNLSSIGCTSFFPSKPLGCYGD 196 Query: 191 GGFLVLNNAEEARLAEKYRLQGVTRSGFDGLEVDVLGGKFNMTDVAAAIGLGQFAHIDAV 250 GG + N+ A + R+ G ++ + V V GG+ M + AI L + D Sbjct: 197 GGAIFTNDDAIALACRQIRVHGQSQR-YVHTRVGV-GGR--MDTLQCAIVLAKLERFDWE 252 Query: 251 TAHRKELARHYFACFGSDFEASFGAQLPVADFENSNWHMFQLVLPERITRAAFMEKMMEK 310 R L Y S +A+ A++ +S + + ++L R A + Sbjct: 253 IEQRLALGSRY----NSLLDAAGIARIQQRPDRDSVFAQYTVLLD---NREAVQAALQNA 305 Query: 311 QVGIGYHYP-SIHLLKLYRERGFKEGMFPVAERVGQRIVSLPMFNAMSKEDVERSVETVK 369 + HYP ++ YR G + PVA+++ R++SLPM + + V ++ Sbjct: 306 GIPTAVHYPVPLNRQPAYRHLGDPD-QTPVADQLAARVMSLPMSPDLEHTAQDSIVAALR 364 Query: 370 SV 371 S+ Sbjct: 365 SI 366 >gi|300313698|ref|YP_003777790.1| CDP-4-keto-6-deoxy-D-glucose-3-dehydrase [Herbaspirillum seropedicae SmR1] Length = 390 Score = 122 bits (305), Expect = 6e-29, Method: Compositional matrix adjust. Identities = 94/326 (28%), Positives = 157/326 (48%), Gaps = 34/326 (10%) Query: 7 PFSKPTIDDATIAAVGEVLRSG--WITSGPKVQAFEKALSDYLGGRIVRTFNSGTCTMEI 64 P + I + AV E LR +T+GP V+AFEK S++LG + NSG + Sbjct: 5 PLMRNNILREDLDAVIEHLRQDDPILTNGPNVRAFEKEWSEWLGVKYSVFVNSGASANLL 64 Query: 65 ALRIAGI--GAGDEVITTPISWVATANVILETGATPVFADIDPVTRNIDLDRLEAAITPR 122 ++ + + G EVI P++W++ +++ G TPVFADIDP + + +++ A IT R Sbjct: 65 SMAVLKLRHPEGGEVIVPPLTWISDVATVIQNGFTPVFADIDPRSLAMAPEQILAKITER 124 Query: 123 TKAIIPVYLAGLPLDMDRLYAIAAKHNLRVVEDAAQALGSTWKGKRIGAFGDFVSFSLQA 182 T+A+ ++ G D L A + N+ ++ED ++ G+T G+R+G+FG +FS Sbjct: 125 TRAVFLTHVQGFDGLTDELLAELERRNIPLIEDVCESHGATHNGQRLGSFGWMSNFSFYY 184 Query: 183 NKNITSSEGGFLVLNNAEEARLAEKYRLQGVTRSGFDG------------LEVDVLGG-- 228 ++++ EGG + N+ E + R G+ R D L D + Sbjct: 185 AHHMSTIEGGMVCTNDPEVYQQVRMLRSHGMVREATDDDLKLGYRQDNPQLNPDFIFAFP 244 Query: 229 KFNM--TDVAAAIGLGQFAHIDAVTAHRK-ELARHYFACFGSDFEASFGAQLPVADF--E 283 +N+ T++ A +G Q +DA A R + R F +Q DF E Sbjct: 245 AYNVRNTEIGAIMGRSQLKRLDANCARRTANMMR---------FLDQIDSQRYRVDFKTE 295 Query: 284 NSNWHMFQLVLPERITRAAFMEKMME 309 S+ + F LVL E F+E++M+ Sbjct: 296 GSSNYAFNLVLRE--ADDVFVERLMQ 319 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 0.399 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: 1,197,733 Number of extensions: 52390 Number of successful extensions: 153 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 145 Number of HSP's successfully gapped: 5 Length of query: 373 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 286 Effective length of database: 1,207,925 Effective search space: 345466550 Effective search space used: 345466550 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)