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= 0001.2350.p (382 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312168|ref|YP_003776260.1| pyridoxal phosphate-dependent a... 781 0.0 gi|300311404|ref|YP_003775496.1| pyridoxal phosphate-dependent a... 161 9e-41 gi|300313484|ref|YP_003777576.1| DegT/DnrJ/EryC1/StrS aminotrans... 146 3e-36 gi|300313482|ref|YP_003777574.1| lipopolysaccharide biosynthesis... 123 2e-29 gi|300313698|ref|YP_003777790.1| CDP-4-keto-6-deoxy-D-glucose-3-... 112 4e-26 >gi|300312168|ref|YP_003776260.1| pyridoxal phosphate-dependent aminotransferase [Herbaspirillum seropedicae SmR1] Length = 382 Score = 781 bits (2017), Expect = 0.0, Method: Compositional matrix adjust. Identities = 376/382 (98%), Positives = 378/382 (98%) Query: 1 MEQEWIKLSDPDVSTRELEAVTRVLVSSGLSAGPVVESFENEFASYLGRTYGVTAASGTV 60 MEQEWIKLSDPDVSTRELEAVTRVLVSSGLSAGPVVESFENEFASYLGRTYGV AASGTV Sbjct: 1 MEQEWIKLSDPDVSTRELEAVTRVLVSSGLSAGPVVESFENEFASYLGRTYGVAAASGTV 60 Query: 61 ALMLALRAMGIRAGDEVIASAYSWHQIVHAITLVGATPVFADIDYWSGNLAPHKVADKIS 120 ALMLALRAMGIRAGDEVIASAYSWHQIVHAITLVGATPVFADIDYWSGNLAPHKVADKIS Sbjct: 61 ALMLALRAMGIRAGDEVIASAYSWHQIVHAITLVGATPVFADIDYWSGNLAPHKVADKIS 120 Query: 121 QRTRAIVVGNCNGHPAAWAEFRQLAQAHGLRLIEDSTEAIGSRYQGRVVGNFGDIAIFDF 180 QRTRAIVVGNCNGHPAAW EFRQLAQAHGLRLIEDS+EAIGSRYQGRVVGNFGDIAIFDF Sbjct: 121 QRTRAIVVGNCNGHPAAWTEFRQLAQAHGLRLIEDSSEAIGSRYQGRVVGNFGDIAIFDF 180 Query: 181 SQPSALCCGEGAMLVTDDPELASELHYMRNRNLADRQSIAVASRVPMQASMSDLSAAIGI 240 SQPSALCCGEGAMLVTDDPELASELHYMRNRNL+DRQSIAVASRVPMQ SMSDLSAAIGI Sbjct: 181 SQPSALCCGEGAMLVTDDPELASELHYMRNRNLSDRQSIAVASRVPMQGSMSDLSAAIGI 240 Query: 241 AQLERLDEILMRRKQVEAYYLEHVQFFEGIKPPYIGPDVEEVYWMLYLVHLGTRFTRTMR 300 AQLERLDEILMRRKQVEAYYLEHVQFFEGIKPPYIGPDVEEVYWMLYLVHLGTRFTRTMR Sbjct: 241 AQLERLDEILMRRKQVEAYYLEHVQFFEGIKPPYIGPDVEEVYWMLYLVHLGTRFTRTMR 300 Query: 301 NQIIEDLASQEVEAAAWCQPLHQQFYYSRFGCKRGDLLLTEKIADRCIALPLHGHLNTDE 360 NQIIEDLASQEVEAAAWCQPLHQQFYYSRF CKRGDLLLTEKIADRCIALPLHGHLNTDE Sbjct: 301 NQIIEDLASQEVEAAAWCQPLHQQFYYSRFDCKRGDLLLTEKIADRCIALPLHGHLNTDE 360 Query: 361 VHFIVQAAKDASSNVGAGAAIY 382 VHFIVQAAKDASSNVGAGAAIY Sbjct: 361 VHFIVQAAKDASSNVGAGAAIY 382 >gi|300311404|ref|YP_003775496.1| pyridoxal phosphate-dependent aminotransferase [Herbaspirillum seropedicae SmR1] Length = 373 Score = 161 bits (407), Expect = 9e-41, Method: Compositional matrix adjust. Identities = 110/377 (29%), Positives = 178/377 (47%), Gaps = 16/377 (4%) Query: 1 MEQEWIKLSDPDVSTRELEAVTRVLVSSGLSAGPVVESFENEFASYLGRTYGVTAASGTV 60 M ++ + P + + AV VL S +++GP V++FE + YLG T SGT Sbjct: 1 MSLPFLPFAKPTIDEPTIAAVGEVLRSGWITSGPKVQAFEKALSDYLGGRIVRTFNSGTC 60 Query: 61 ALMLALRAMGIRAGDEVIASAYSWHQIVHAITLVGATPVFADIDYWSGNLAPHKVADKIS 120 + +ALR G+ GDEVI + SW + I GATPVFADID + N+ K+ I+ Sbjct: 61 TMEIALRIAGVGPGDEVITTPISWVATANVILETGATPVFADIDPITRNIDLDKLEAAIT 120 Query: 121 QRTRAIVVGNCNGHPAAWAEFRQLAQAHGLRLIEDSTEAIGSRYQGRVVGNFGDIAIFDF 180 RT+A++ +G P +A H LR++ED+ +A+GS + G+ +G FGD F Sbjct: 121 PRTKAVIPVYLSGLPVDMDRLYAIAAKHKLRVVEDAAQALGSTWNGKRIGAFGDFVSFSL 180 Query: 181 SQPSALCCGEGAMLVTDDPELASELHYMR----NRNLADRQSIAVASRVPMQASMSDLSA 236 + EG LV ++ E A R R+ D + V + +M+D++A Sbjct: 181 QANKNITSSEGGFLVLNNAEEARLAEKYRLQGVTRSGFDGLEVDVLGG---KFNMTDVAA 237 Query: 237 AIGIAQLERLDEILMRRKQVEAYYLEHV-QFFE---GIKPPYIGPDVEEVYWMLYLVHLG 292 AIG+ Q +D I RK++ +Y FE G + P D E W ++ + L Sbjct: 238 AIGLGQFAHIDAITAHRKELARHYFACFGSDFESRYGAQLPV--ADFENSNWHMFQLVLP 295 Query: 293 TRFTRTMRNQIIEDLASQEVEAAAWCQPLHQQFYYSRFGCKRGDLLLTEKIADRCIALPL 352 R TR +E + +++ +H Y G G + E++ R ++LP+ Sbjct: 296 ERITRA---AFMEKMMEKQIGIGYHYPAIHLLKLYRERGFGEGMFPVAERVGQRIVSLPM 352 Query: 353 HGHLNTDEVHFIVQAAK 369 ++ D+V V+ K Sbjct: 353 FNTMSKDDVVRSVETVK 369 >gi|300313484|ref|YP_003777576.1| DegT/DnrJ/EryC1/StrS aminotransferase family protein [Herbaspirillum seropedicae SmR1] Length = 388 Score = 146 bits (369), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 106/383 (27%), Positives = 173/383 (45%), Gaps = 20/383 (5%) Query: 6 IKLSDPDVSTRELEAVTRVLVSSGLSAGPVVESFENEFASYLGRTYGVTAASGTVALMLA 65 + ++ ++ E+++V L + L GP V FE +++++ G + + S T AL L+ Sbjct: 3 VPIARTSLTEAEIQSVLAPLSNGWLVQGPKVREFEEKWSAFTGARHSIAVTSCTTALHLS 62 Query: 66 LRAMGIRAGDEVIASAYSWHQIVHAITLVGATPVFADIDYWSGNLAPHKVADKISQRTRA 125 L A+G GDE I A++W + I +G VF DID + NL + KI+ RT+A Sbjct: 63 LAALGFGPGDEAIVPAFTWIATANVIEHLGGKVVFCDIDLNTFNLDVAALRSKITSRTKA 122 Query: 126 IVVGNCNGHPAAWAEFRQLAQAHGLRLIEDSTEAIGSRYQGRVVGNFGDIAIFDFSQPSA 185 I+ + G A + +A+ HGL ++ED+ GSRY G+ VG GD F F A Sbjct: 123 ILPVHLFGLAAEMDQINDVAKQHGLWVVEDAACGFGSRYHGKHVGVLGDTGCFSFHPRKA 182 Query: 186 LCCGEGAMLVTDDPELASELHYMRN---------RNLADRQS-IAVASRVPMQASMSDLS 235 + GEG M+ TD+ LA +L +R+ R+L R +A M+D+ Sbjct: 183 ITTGEGGMITTDNDALAEKLRRLRDHGAAMTDLQRHLGARPYLLADHPDAGYNQRMTDIQ 242 Query: 236 AAIGIAQLERLDEILMRRKQVEAYYLEHVQFFEGIKPPYIGPDVEEVYWMLYLVHLGTRF 295 AA+G AQ+ER D+I+ R+++ Y ++ P +E Y Y Sbjct: 243 AALGAAQMERADDIIAERRRLAERYDAAFADLSWLRTPAHVDGLEHGY-QSYPCLFQPEP 301 Query: 296 TRT--------MRNQIIEDLASQEVEAAAWCQPLHQ-QFYYSRFGCKRGDLLLTEKIADR 346 T RN ++ L + +H FY ++ K D D Sbjct: 302 VNTDSIERINAARNAWMDSLQQAGISTRPATHAVHMLTFYREKYALKPADFPNAWAANDC 361 Query: 347 CIALPLHGHLNTDEVHFIVQAAK 369 I+LPL + E F+++ + Sbjct: 362 SISLPLFHGMTQAEQDFVIEQVR 384 >gi|300313482|ref|YP_003777574.1| lipopolysaccharide biosynthesis protein [Herbaspirillum seropedicae SmR1] Length = 366 Score = 123 bits (309), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 101/353 (28%), Positives = 166/353 (47%), Gaps = 17/353 (4%) Query: 21 VTRVLVSSGLSAGPVVESFENEFASYLGRTYGVTAASGTVALMLALRAMGIRAGDEVIAS 80 + +VL GP V E +Y G + +T ASGT AL+++L A+ I+ GDE+I + Sbjct: 25 IQKVLDHGQYIMGPEVRELEAALEAYTGAKHCITVASGTEALLISLMALDIKPGDEIITT 84 Query: 81 AYSWHQIVHAITLVGATPVFADIDYWSGNLAPHKVADKISQRTRAIVVGNCNGHPAAWAE 140 +++ + L+GA PVF D++ +GN+ + +I+ +T+AI+ + G A E Sbjct: 85 PFTFVATAEVMVLLGAKPVFVDVEPDTGNIDVRLIEARITSKTKAIMPVSLYGQAADMDE 144 Query: 141 FRQLAQAHG-LRLIEDSTEAIGSRYQGRVVGNFGDIAIFDFSQPSALCC-GEGAMLVTDD 198 +A HG L +IED+ ++ G+ Y+GR GN I F L C G+G + T+D Sbjct: 145 INAIAARHGNLPVIEDAAQSFGATYKGRKSGNLSSIGCTSFFPSKPLGCYGDGGAIFTND 204 Query: 199 PELASELHYMRNRNLADRQSIAVASRVPMQASMSDLSAAIGIAQLERLDEILMRRKQVEA 258 +A +R + R V +RV + M L AI +A+LER D + +R + + Sbjct: 205 DAIALACRQIRVHGQSQRY---VHTRVGVGGRMDTLQCAIVLAKLERFDWEIEQRLALGS 261 Query: 259 YYLEHVQFFEGIKPPYIGPDVEEVYWMLYLVHLGTR--FTRTMRNQIIEDLASQEVEAAA 316 Y + GI PD + V+ Y V L R ++N I A Sbjct: 262 RY-NSLLDAAGIARIQQRPDRDSVFAQ-YTVLLDNREAVQAALQNAGIP-------TAVH 312 Query: 317 WCQPLHQQFYYSRFGCKRGDLLLTEKIADRCIALPLHGHLNTDEVHFIVQAAK 369 + PL++Q Y G + +++A R ++LP+ L IV A + Sbjct: 313 YPVPLNRQPAYRHLG-DPDQTPVADQLAARVMSLPMSPDLEHTAQDSIVAALR 364 >gi|300313698|ref|YP_003777790.1| CDP-4-keto-6-deoxy-D-glucose-3-dehydrase [Herbaspirillum seropedicae SmR1] Length = 390 Score = 112 bits (281), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 74/254 (29%), Positives = 123/254 (48%), Gaps = 19/254 (7%) Query: 30 LSAGPVVESFENEFASYLGRTYGVTAASGTVALMLALRAMGIR--AGDEVIASAYSWHQI 87 L+ GP V +FE E++ +LG Y V SG A +L++ + +R G EVI +W Sbjct: 30 LTNGPNVRAFEKEWSEWLGVKYSVFVNSGASANLLSMAVLKLRHPEGGEVIVPPLTWISD 89 Query: 88 VHAITLVGATPVFADIDYWSGNLAPHKVADKISQRTRAIVVGNCNGHPAAWAEFRQLAQA 147 V + G TPVFADID S +AP ++ KI++RTRA+ + + G E + Sbjct: 90 VATVIQNGFTPVFADIDPRSLAMAPEQILAKITERTRAVFLTHVQGFDGLTDELLAELER 149 Query: 148 HGLRLIEDSTEAIGSRYQGRVVGNFGDIAIFDFSQPSALCCGEGAMLVTDDPELASELHY 207 + LIED E+ G+ + G+ +G+FG ++ F F + EG M+ T+DPE+ ++ Sbjct: 150 RNIPLIEDVCESHGATHNGQRLGSFGWMSNFSFYYAHHMSTIEGGMVCTNDPEVYQQVRM 209 Query: 208 MRNRNLA-----DRQSIAVASRVPM------------QASMSDLSAAIGIAQLERLDEIL 250 +R+ + D + P +++ A +G +QL+RLD Sbjct: 210 LRSHGMVREATDDDLKLGYRQDNPQLNPDFIFAFPAYNVRNTEIGAIMGRSQLKRLDANC 269 Query: 251 MRRKQVEAYYLEHV 264 RR +L+ + Sbjct: 270 ARRTANMMRFLDQI 283 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 0.134 0.401 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: 1,196,536 Number of extensions: 49483 Number of successful extensions: 162 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 156 Number of HSP's successfully gapped: 5 Length of query: 382 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 295 Effective length of database: 1,207,925 Effective search space: 356337875 Effective search space used: 356337875 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)