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= 0016.0099.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... 767 0.0 gi|300313484|ref|YP_003777576.1| DegT/DnrJ/EryC1/StrS aminotrans... 200 2e-52 gi|300312168|ref|YP_003776260.1| pyridoxal phosphate-dependent a... 158 7e-40 gi|300313482|ref|YP_003777574.1| lipopolysaccharide biosynthesis... 153 2e-38 gi|300313698|ref|YP_003777790.1| CDP-4-keto-6-deoxy-D-glucose-3-... 124 9e-30 >gi|300311404|ref|YP_003775496.1| pyridoxal phosphate-dependent aminotransferase [Herbaspirillum seropedicae SmR1] Length = 373 Score = 767 bits (1981), Expect = 0.0, Method: Compositional matrix adjust. Identities = 373/373 (100%), Positives = 373/373 (100%) Query: 1 MSLPFLPFAKPTIDEPTIAAVGEVLRSGWITSGPKVQAFEKALSDYLGGRIVRTFNSGTC 60 MSLPFLPFAKPTIDEPTIAAVGEVLRSGWITSGPKVQAFEKALSDYLGGRIVRTFNSGTC Sbjct: 1 MSLPFLPFAKPTIDEPTIAAVGEVLRSGWITSGPKVQAFEKALSDYLGGRIVRTFNSGTC 60 Query: 61 TMEIALRIAGVGPGDEVITTPISWVATANVILETGATPVFADIDPITRNIDLDKLEAAIT 120 TMEIALRIAGVGPGDEVITTPISWVATANVILETGATPVFADIDPITRNIDLDKLEAAIT Sbjct: 61 TMEIALRIAGVGPGDEVITTPISWVATANVILETGATPVFADIDPITRNIDLDKLEAAIT 120 Query: 121 PRTKAVIPVYLSGLPVDMDRLYAIAAKHKLRVVEDAAQALGSTWNGKRIGAFGDFVSFSL 180 PRTKAVIPVYLSGLPVDMDRLYAIAAKHKLRVVEDAAQALGSTWNGKRIGAFGDFVSFSL Sbjct: 121 PRTKAVIPVYLSGLPVDMDRLYAIAAKHKLRVVEDAAQALGSTWNGKRIGAFGDFVSFSL 180 Query: 181 QANKNITSSEGGFLVLNNAEEARLAEKYRLQGVTRSGFDGLEVDVLGGKFNMTDVAAAIG 240 QANKNITSSEGGFLVLNNAEEARLAEKYRLQGVTRSGFDGLEVDVLGGKFNMTDVAAAIG Sbjct: 181 QANKNITSSEGGFLVLNNAEEARLAEKYRLQGVTRSGFDGLEVDVLGGKFNMTDVAAAIG 240 Query: 241 LGQFAHIDAITAHRKELARHYFACFGSDFESRYGAQLPVADFENSNWHMFQLVLPERITR 300 LGQFAHIDAITAHRKELARHYFACFGSDFESRYGAQLPVADFENSNWHMFQLVLPERITR Sbjct: 241 LGQFAHIDAITAHRKELARHYFACFGSDFESRYGAQLPVADFENSNWHMFQLVLPERITR 300 Query: 301 AAFMEKMMEKQIGIGYHYPAIHLLKLYRERGFGEGMFPVAERVGQRIVSLPMFNTMSKDD 360 AAFMEKMMEKQIGIGYHYPAIHLLKLYRERGFGEGMFPVAERVGQRIVSLPMFNTMSKDD Sbjct: 301 AAFMEKMMEKQIGIGYHYPAIHLLKLYRERGFGEGMFPVAERVGQRIVSLPMFNTMSKDD 360 Query: 361 VVRSVETVKSVLG 373 VVRSVETVKSVLG Sbjct: 361 VVRSVETVKSVLG 373 >gi|300313484|ref|YP_003777576.1| DegT/DnrJ/EryC1/StrS aminotransferase family protein [Herbaspirillum seropedicae SmR1] Length = 388 Score = 200 bits (508), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 131/384 (34%), Positives = 186/384 (48%), Gaps = 22/384 (5%) Query: 6 LPFAKPTIDEPTIAAVGEVLRSGWITSGPKVQAFEKALSDYLGGRIVRTFNSGTCTMEIA 65 +P A+ ++ E I +V L +GW+ GPKV+ FE+ S + G R S T + ++ Sbjct: 3 VPIARTSLTEAEIQSVLAPLSNGWLVQGPKVREFEEKWSAFTGARHSIAVTSCTTALHLS 62 Query: 66 LRIAGVGPGDEVITTPISWVATANVILETGATPVFADIDPITRNIDLDKLEAAITPRTKA 125 L G GPGDE I +W+ATANVI G VF DID T N+D+ L + IT RTKA Sbjct: 63 LAALGFGPGDEAIVPAFTWIATANVIEHLGGKVVFCDIDLNTFNLDVAALRSKITSRTKA 122 Query: 126 VIPVYLSGLPVDMDRLYAIAAKHKLRVVEDAAQALGSTWNGKRIGAFGDFVSFSLQANKN 185 ++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 AAIGLGQFAHIDAITAHRKELARHYFACFGSDFESRYGAQLPVADFENSNWHMFQLVLPE 296 AA+G Q D I A R+ LA Y A F R A V E+ L PE Sbjct: 243 AALGAAQMERADDIIAERRRLAERYDAAFADLSWLRTPAH--VDGLEHGYQSYPCLFQPE 300 Query: 297 RIT----------RAAFMEKMMEKQIGIGYHYPAIHLLKLYRER-GFGEGMFPVAERVGQ 345 + R A+M+ + + I A+H+L YRE+ FP A Sbjct: 301 PVNTDSIERINAARNAWMDSLQQAGISTRPATHAVHMLTFYREKYALKPADFPNAWAAND 360 Query: 346 RIVSLPMFNTMSKDDVVRSVETVK 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 = 158 bits (399), Expect = 7e-40, Method: Compositional matrix adjust. Identities = 107/375 (28%), Positives = 180/375 (48%), Gaps = 12/375 (3%) Query: 1 MSLPFLPFAKPTIDEPTIAAVGEVLRSGWITSGPKVQAFEKALSDYLGGRIVRTFNSGTC 60 M ++ + P + + AV VL S +++GP V++FE + YLG SGT Sbjct: 1 MEQEWIKLSDPDVSTRELEAVTRVLVSSGLSAGPVVESFENEFASYLGRTYGVAAASGTV 60 Query: 61 TMEIALRIAGVGPGDEVITTPISWVATANVILETGATPVFADIDPITRNIDLDKLEAAIT 120 + +ALR G+ GDEVI + SW + I GATPVFADID + N+ K+ I+ Sbjct: 61 ALMLALRAMGIRAGDEVIASAYSWHQIVHAITLVGATPVFADIDYWSGNLAPHKVADKIS 120 Query: 121 PRTKAVIPVYLSGLPVDMDRLYAIAAKHKLRVVEDAAQALGSTWNGKRIGAFGDFVSFSL 180 RT+A++ +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 GLGQFAHIDAITAHRKELARHYFACFGSDFESRYGAQLPV--ADFENSNWHMFQLVLPER 297 G+ Q +D I RK++ +Y FE G + P D E W ++ + L R Sbjct: 239 GIAQLERLDEILMRRKQVEAYYLEHV-QFFE---GIKPPYIGPDVEEVYWMLYLVHLGTR 294 Query: 298 ITRA---AFMEKMMEKQIGIGYHYPAIHLLKLYRERGFGEGMFPVAERVGQRIVSLPMFN 354 TR +E + +++ +H Y G + E++ R ++LP+ Sbjct: 295 FTRTMRNQIIEDLASQEVEAAAWCQPLHQQFYYSRFDCKRGDLLLTEKIADRCIALPLHG 354 Query: 355 TMSKDDVVRSVETVK 369 ++ D+V V+ K Sbjct: 355 HLNTDEVHFIVQAAK 369 >gi|300313482|ref|YP_003777574.1| lipopolysaccharide biosynthesis protein [Herbaspirillum seropedicae SmR1] Length = 366 Score = 153 bits (387), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 116/354 (32%), Positives = 180/354 (50%), Gaps = 18/354 (5%) Query: 21 VGEVLRSGWITSGPKVQAFEKALSDYLGGRIVRTFNSGTCTMEIALRIAGVGPGDEVITT 80 + +VL G GP+V+ E AL Y G + T SGT + I+L + PGDE+ITT Sbjct: 25 IQKVLDHGQYIMGPEVRELEAALEAYTGAKHCITVASGTEALLISLMALDIKPGDEIITT 84 Query: 81 PISWVATANVILETGATPVFADIDPITRNIDLDKLEAAITPRTKAVIPVYLSGLPVDMDR 140 P ++VATA V++ GA PVF D++P T NID+ +EA IT +TKA++PV L G DMD Sbjct: 85 PFTFVATAEVMVLLGAKPVFVDVEPDTGNIDVRLIEARITSKTKAIMPVSLYGQAADMDE 144 Query: 141 LYAIAAKH-KLRVVEDAAQALGSTWNGKRIGAFGDFVSFSLQANKNI-TSSEGGFLVLNN 198 + AIAA+H L V+EDAAQ+ G+T+ G++ G S +K + +GG + N+ Sbjct: 145 INAIAARHGNLPVIEDAAQSFGATYKGRKSGNLSSIGCTSFFPSKPLGCYGDGGAIFTND 204 Query: 199 AEEARLAEKYRLQGVTRSGFDGLEVDVLGGKFNMTDVAAAIGLGQFAHIDAITAHRKELA 258 A + R+ G ++ + V V GG+ M + AI L + D R L Sbjct: 205 DAIALACRQIRVHGQSQR-YVHTRVGV-GGR--MDTLQCAIVLAKLERFDWEIEQRLALG 260 Query: 259 RHYFACFGSDFESRYGAQLPVADFENSNWHMFQLVLPERITRAAFMEKMMEKQIGIGYHY 318 Y + + +R Q P D S + + ++L R A + I HY Sbjct: 261 SRYNSLLDAAGIARI-QQRPDRD---SVFAQYTVLLD---NREAVQAALQNAGIPTAVHY 313 Query: 319 PA-IHLLKLYRERGFGEGMFPVAERVGQRIVSLPM---FNTMSKDDVVRSVETV 368 P ++ YR G + PVA+++ R++SLPM ++D +V ++ ++ 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 = 124 bits (312), Expect = 9e-30, Method: Compositional matrix adjust. Identities = 108/405 (26%), Positives = 176/405 (43%), Gaps = 62/405 (15%) Query: 7 PFAKPTIDEPTIAAVGEVLRSG--WITSGPKVQAFEKALSDYLGGRIVRTFNSGTCTMEI 64 P + I + AV E LR +T+GP V+AFEK S++LG + NSG + Sbjct: 5 PLMRNNILREDLDAVIEHLRQDDPILTNGPNVRAFEKEWSEWLGVKYSVFVNSGASANLL 64 Query: 65 ALRIAGVG--PGDEVITTPISWVATANVILETGATPVFADIDPITRNIDLDKLEAAITPR 122 ++ + + G EVI P++W++ +++ G TPVFADIDP + + +++ A IT R Sbjct: 65 SMAVLKLRHPEGGEVIVPPLTWISDVATVIQNGFTPVFADIDPRSLAMAPEQILAKITER 124 Query: 123 TKAVIPVYLSGLPVDMDRLYAIAAKHKLRVVEDAAQALGSTWNGKRIGAFGDFVSFSLQA 182 T+AV ++ G D L A + + ++ED ++ G+T NG+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--TDVAAAIGLGQFAHIDAITAHRKELARHYFACFGSDFESRYGAQLPVADFENSN 286 +N+ T++ A +G Q +DA A R + S RY E S+ Sbjct: 245 AYNVRNTEIGAIMGRSQLKRLDANCARRTANMMRFLDQIDS---QRYRVDFKT---EGSS 298 Query: 287 WHMFQLVLPERITRAAFMEKMMEKQIGIGYHY--------------------PAIHLLKL 326 + F LVL E F+E++M+ G + PA H L+ Sbjct: 299 NYAFNLVLRE--ADDVFVERLMQTMRSNGIEFRRGSAGGGNQVRQPYLKGIVPADHYLQ- 355 Query: 327 YRERGFGEGMFPVAERV---GQRIVSLPMFNTMSKDDVVRSVETV 368 FP E + G I + P + DD+ R + V Sbjct: 356 ----------FPQTEHIHFYGFYIGNFPDLSDAEVDDICRILNAV 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 0.321 0.137 0.403 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: 1,228,893 Number of extensions: 54475 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: 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)