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= 0138.0026.p (391 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... 677 0.0 gi|300313484|ref|YP_003777576.1| DegT/DnrJ/EryC1/StrS aminotrans... 190 2e-49 gi|300312168|ref|YP_003776260.1| pyridoxal phosphate-dependent a... 166 3e-42 gi|300313482|ref|YP_003777574.1| lipopolysaccharide biosynthesis... 158 9e-40 gi|300313698|ref|YP_003777790.1| CDP-4-keto-6-deoxy-D-glucose-3-... 128 6e-31 >gi|300311404|ref|YP_003775496.1| pyridoxal phosphate-dependent aminotransferase [Herbaspirillum seropedicae SmR1] Length = 373 Score = 677 bits (1746), Expect = 0.0, Method: Compositional matrix adjust. Identities = 324/372 (87%), Positives = 347/372 (93%) Query: 19 MTQPFLPFSKPTIDEPTIAAVADVLRSGWITSGPKVQAFEKALSDYFDGRIVRTFNSGTC 78 M+ PFLPF+KPTIDEPTIAAV +VLRSGWITSGPKVQAFEKALSDY GRIVRTFNSGTC Sbjct: 1 MSLPFLPFAKPTIDEPTIAAVGEVLRSGWITSGPKVQAFEKALSDYLGGRIVRTFNSGTC 60 Query: 79 TMEIALRIAGIGAGDEVITTPISWVATANVIIETGATPVFADIDPVTRNIDLDKLEAAIT 138 TMEIALRIAG+G GDEVITTPISWVATANVI+ETGATPVFADIDP+TRNIDLDKLEAAIT Sbjct: 61 TMEIALRIAGVGPGDEVITTPISWVATANVILETGATPVFADIDPITRNIDLDKLEAAIT 120 Query: 139 PRTKAVIPVYLAGLPVDMDRLYAIAKKHNLRVIEDAAQALGSTWKGKRIGAFGDFVSFSF 198 PRTKAVIPVYL+GLPVDMDRLYAIA KH LRV+EDAAQALGSTW GKRIGAFGDFVSFS Sbjct: 121 PRTKAVIPVYLSGLPVDMDRLYAIAAKHKLRVVEDAAQALGSTWNGKRIGAFGDFVSFSL 180 Query: 199 QANKNVTSSEGGCLVVNNPDEARLAEKYRLQGVTRSGFDGLEVDVLGGKFNMTDIAAAIG 258 QANKN+TSSEGG LV+NN +EARLAEKYRLQGVTRSGFDGLEVDVLGGKFNMTD+AAAIG Sbjct: 181 QANKNITSSEGGFLVLNNAEEARLAEKYRLQGVTRSGFDGLEVDVLGGKFNMTDVAAAIG 240 Query: 259 LGQFAHIDAITDKRRGLAKHYFDLFGADFEAQSGAQLPVADFENSNWHMFQLVLPERITR 318 LGQFAHIDAIT R+ LA+HYF FG+DFE++ GAQLPVADFENSNWHMFQLVLPERITR Sbjct: 241 LGQFAHIDAITAHRKELARHYFACFGSDFESRYGAQLPVADFENSNWHMFQLVLPERITR 300 Query: 319 AAFMEKMMERQIGIGYHYPPIHLLKLYRDRGFREGMFPIAERVGRLIVSLPMFTAMSKED 378 AAFMEKMME+QIGIGYHYP IHLLKLYR+RGF EGMFP+AERVG+ IVSLPMF MSK+D Sbjct: 301 AAFMEKMMEKQIGIGYHYPAIHLLKLYRERGFGEGMFPVAERVGQRIVSLPMFNTMSKDD 360 Query: 379 VERAVGAVKSVL 390 V R+V VKSVL Sbjct: 361 VVRSVETVKSVL 372 >gi|300313484|ref|YP_003777576.1| DegT/DnrJ/EryC1/StrS aminotransferase family protein [Herbaspirillum seropedicae SmR1] Length = 388 Score = 190 bits (482), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 126/386 (32%), Positives = 186/386 (48%), Gaps = 26/386 (6%) Query: 24 LPFSKPTIDEPTIAAVADVLRSGWITSGPKVQAFEKALSDYFDGRIVRTFNSGTCTMEIA 83 +P ++ ++ E I +V L +GW+ GPKV+ FE+ S + R S T + ++ Sbjct: 3 VPIARTSLTEAEIQSVLAPLSNGWLVQGPKVREFEEKWSAFTGARHSIAVTSCTTALHLS 62 Query: 84 LRIAGIGAGDEVITTPISWVATANVIIETGATPVFADIDPVTRNIDLDKLEAAITPRTKA 143 L G G GDE I +W+ATANVI G VF DID T N+D+ L + IT RTKA Sbjct: 63 LAALGFGPGDEAIVPAFTWIATANVIEHLGGKVVFCDIDLNTFNLDVAALRSKITSRTKA 122 Query: 144 VIPVYLAGLPVDMDRLYAIAKKHNLRVIEDAAQALGSTWKGKRIGAFGDFVSFSFQANKN 203 ++PV+L GL +MD++ +AK+H L V+EDAA GS + GK +G GD FSF K Sbjct: 123 ILPVHLFGLAAEMDQINDVAKQHGLWVVEDAACGFGSRYHGKHVGVLGDTGCFSFHPRKA 182 Query: 204 VTSSEGGCLVVNNPDEARLAEKYRLQGVTRSGFDG-------LEVDVLGGKFN--MTDIA 254 +T+ EGG + +N A + R G + L D +N MTDI Sbjct: 183 ITTGEGGMITTDNDALAEKLRRLRDHGAAMTDLQRHLGARPYLLADHPDAGYNQRMTDIQ 242 Query: 255 AAIGLGQFAHIDAITDKRRGLAKHYFDLFGADFEAQSGAQLP--VADFENSNWHMFQLVL 312 AA+G Q D I +RR LA+ Y A F S + P V E+ L Sbjct: 243 AALGAAQMERADDIIAERRRLAERY----DAAFADLSWLRTPAHVDGLEHGYQSYPCLFQ 298 Query: 313 PERIT----------RAAFMEKMMERQIGIGYHYPPIHLLKLYRDR-GFREGMFPIAERV 361 PE + R A+M+ + + I +H+L YR++ + FP A Sbjct: 299 PEPVNTDSIERINAARNAWMDSLQQAGISTRPATHAVHMLTFYREKYALKPADFPNAWAA 358 Query: 362 GRLIVSLPMFTAMSKEDVERAVGAVK 387 +SLP+F M++ + + + V+ Sbjct: 359 NDCSISLPLFHGMTQAEQDFVIEQVR 384 >gi|300312168|ref|YP_003776260.1| pyridoxal phosphate-dependent aminotransferase [Herbaspirillum seropedicae SmR1] Length = 382 Score = 166 bits (420), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 108/375 (28%), Positives = 184/375 (49%), Gaps = 12/375 (3%) Query: 19 MTQPFLPFSKPTIDEPTIAAVADVLRSGWITSGPKVQAFEKALSDYFDGRIVRTFNSGTC 78 M Q ++ S P + + AV VL S +++GP V++FE + Y SGT Sbjct: 1 MEQEWIKLSDPDVSTRELEAVTRVLVSSGLSAGPVVESFENEFASYLGRTYGVAAASGTV 60 Query: 79 TMEIALRIAGIGAGDEVITTPISWVATANVIIETGATPVFADIDPVTRNIDLDKLEAAIT 138 + +ALR GI AGDEVI + SW + I GATPVFADID + N+ K+ I+ Sbjct: 61 ALMLALRAMGIRAGDEVIASAYSWHQIVHAITLVGATPVFADIDYWSGNLAPHKVADKIS 120 Query: 139 PRTKAVIPVYLAGLPVDMDRLYAIAKKHNLRVIEDAAQALGSTWKGKRIGAFGDFVSFSF 198 RT+A++ G P +A+ H LR+IED+++A+GS ++G+ +G FGD F F Sbjct: 121 QRTRAIVVGNCNGHPAAWTEFRQLAQAHGLRLIEDSSEAIGSRYQGRVVGNFGDIAIFDF 180 Query: 199 QANKNVTSSEGGCLVVNNPDEARLAEKYRLQGVTRSGFDGLEV-DVLGGKFNMTDIAAAI 257 + EG LV ++P+ A +E + ++ S + V + + +M+D++AAI Sbjct: 181 SQPSALCCGEGAMLVTDDPELA--SELHYMRNRNLSDRQSIAVASRVPMQGSMSDLSAAI 238 Query: 258 GLGQFAHIDAITDKRRGLAKHYFDLFGADFEAQSGAQLPV--ADFENSNWHMFQLVLPER 315 G+ Q +D I +R+ + +Y + + G + P D E W ++ + L R Sbjct: 239 GIAQLERLDEILMRRKQVEAYYLE----HVQFFEGIKPPYIGPDVEEVYWMLYLVHLGTR 294 Query: 316 ITRA---AFMEKMMERQIGIGYHYPPIHLLKLYRDRGFREGMFPIAERVGRLIVSLPMFT 372 TR +E + +++ P+H Y + G + E++ ++LP+ Sbjct: 295 FTRTMRNQIIEDLASQEVEAAAWCQPLHQQFYYSRFDCKRGDLLLTEKIADRCIALPLHG 354 Query: 373 AMSKEDVERAVGAVK 387 ++ ++V V A K Sbjct: 355 HLNTDEVHFIVQAAK 369 >gi|300313482|ref|YP_003777574.1| lipopolysaccharide biosynthesis protein [Herbaspirillum seropedicae SmR1] Length = 366 Score = 158 bits (399), Expect = 9e-40, Method: Compositional matrix adjust. Identities = 117/354 (33%), Positives = 180/354 (50%), Gaps = 15/354 (4%) Query: 39 VADVLRSGWITSGPKVQAFEKALSDYFDGRIVRTFNSGTCTMEIALRIAGIGAGDEVITT 98 + VL G GP+V+ E AL Y + T SGT + I+L I GDE+ITT Sbjct: 25 IQKVLDHGQYIMGPEVRELEAALEAYTGAKHCITVASGTEALLISLMALDIKPGDEIITT 84 Query: 99 PISWVATANVIIETGATPVFADIDPVTRNIDLDKLEAAITPRTKAVIPVYLAGLPVDMDR 158 P ++VATA V++ GA PVF D++P T NID+ +EA IT +TKA++PV L G DMD Sbjct: 85 PFTFVATAEVMVLLGAKPVFVDVEPDTGNIDVRLIEARITSKTKAIMPVSLYGQAADMDE 144 Query: 159 LYAIAKKH-NLRVIEDAAQALGSTWKGKRIGAFGDFVSFSFQANKNV-TSSEGGCLVVNN 216 + AIA +H NL VIEDAAQ+ G+T+KG++ G SF +K + +GG + N+ Sbjct: 145 INAIAARHGNLPVIEDAAQSFGATYKGRKSGNLSSIGCTSFFPSKPLGCYGDGGAIFTND 204 Query: 217 PDEARLAEKYRLQGVTRSGFDGLEVDVLGGKFNMTDIAAAIGLGQFAHIDAITDKRRGLA 276 A + R+ G ++ + V V GG+ M + AI L + D ++R L Sbjct: 205 DAIALACRQIRVHGQSQR-YVHTRVGV-GGR--MDTLQCAIVLAKLERFDWEIEQRLALG 260 Query: 277 KHYFDLFGADFEAQSGAQLPVADFENSNWHMFQLVLPERITRAAFMEKMMERQIGIGYHY 336 Y L +A A++ +S + + ++L R A + I HY Sbjct: 261 SRYNSL----LDAAGIARIQQRPDRDSVFAQYTVLLD---NREAVQAALQNAGIPTAVHY 313 Query: 337 P-PIHLLKLYRDRGFREGMFPIAERVGRLIVSLPMFTAMSKEDVERAVGAVKSV 389 P P++ YR G + P+A+++ ++SLPM + + V A++S+ Sbjct: 314 PVPLNRQPAYRHLGDPD-QTPVADQLAARVMSLPMSPDLEHTAQDSIVAALRSI 366 >gi|300313698|ref|YP_003777790.1| CDP-4-keto-6-deoxy-D-glucose-3-dehydrase [Herbaspirillum seropedicae SmR1] Length = 390 Score = 128 bits (322), Expect = 6e-31, Method: Compositional matrix adjust. Identities = 98/334 (29%), Positives = 162/334 (48%), Gaps = 34/334 (10%) Query: 25 PFSKPTIDEPTIAAVADVLRSG--WITSGPKVQAFEKALSDYFDGRIVRTFNSGTCTMEI 82 P + I + AV + LR +T+GP V+AFEK S++ + NSG + Sbjct: 5 PLMRNNILREDLDAVIEHLRQDDPILTNGPNVRAFEKEWSEWLGVKYSVFVNSGASANLL 64 Query: 83 ALRIAGIG--AGDEVITTPISWVATANVIIETGATPVFADIDPVTRNIDLDKLEAAITPR 140 ++ + + G EVI P++W++ +I+ G TPVFADIDP + + +++ A IT R Sbjct: 65 SMAVLKLRHPEGGEVIVPPLTWISDVATVIQNGFTPVFADIDPRSLAMAPEQILAKITER 124 Query: 141 TKAVIPVYLAGLPVDMDRLYAIAKKHNLRVIEDAAQALGSTWKGKRIGAFGDFVSFSFQA 200 T+AV ++ G D L A ++ N+ +IED ++ G+T G+R+G+FG +FSF Sbjct: 125 TRAVFLTHVQGFDGLTDELLAELERRNIPLIEDVCESHGATHNGQRLGSFGWMSNFSFYY 184 Query: 201 NKNVTSSEGGCLVVNNPDEARLAEKYRLQGVTRSGFDG------------LEVDVLGG-- 246 ++++ EGG + N+P+ + R G+ R D L D + Sbjct: 185 AHHMSTIEGGMVCTNDPEVYQQVRMLRSHGMVREATDDDLKLGYRQDNPQLNPDFIFAFP 244 Query: 247 KFNM--TDIAAAIGLGQFAHIDAITDKRRGLAKHYFDLFGADFEAQSGAQLPVADF--EN 302 +N+ T+I A +G Q +DA +R + D Q +Q DF E Sbjct: 245 AYNVRNTEIGAIMGRSQLKRLDANCARRTANMMRFLD--------QIDSQRYRVDFKTEG 296 Query: 303 SNWHMFQLVLPERITRAAFMEKMME--RQIGIGY 334 S+ + F LVL E F+E++M+ R GI + Sbjct: 297 SSNYAFNLVLRE--ADDVFVERLMQTMRSNGIEF 328 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 0.137 0.405 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: 1,263,969 Number of extensions: 55951 Number of successful extensions: 159 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 153 Number of HSP's successfully gapped: 5 Length of query: 391 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 304 Effective length of database: 1,207,925 Effective search space: 367209200 Effective search space used: 367209200 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)