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= 0020.0022.p (306 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... 441 e-125 gi|300313484|ref|YP_003777576.1| DegT/DnrJ/EryC1/StrS aminotrans... 161 7e-41 gi|300313482|ref|YP_003777574.1| lipopolysaccharide biosynthesis... 136 2e-33 gi|300312168|ref|YP_003776260.1| pyridoxal phosphate-dependent a... 131 7e-32 gi|300313698|ref|YP_003777790.1| CDP-4-keto-6-deoxy-D-glucose-3-... 120 1e-28 >gi|300311404|ref|YP_003775496.1| pyridoxal phosphate-dependent aminotransferase [Herbaspirillum seropedicae SmR1] Length = 373 Score = 441 bits (1134), Expect = e-125, Method: Compositional matrix adjust. Identities = 211/236 (89%), Positives = 225/236 (95%) Query: 39 TLPFLPFSKPTIDEPTIAAVADVLRSGWITSGPKVQAFEKALSDYLDGRLVRTFNSGTCT 98 +LPFLPF+KPTIDEPTIAAV +VLRSGWITSGPKVQAFEKALSDYL GR+VRTFNSGTCT Sbjct: 2 SLPFLPFAKPTIDEPTIAAVGEVLRSGWITSGPKVQAFEKALSDYLGGRIVRTFNSGTCT 61 Query: 99 MEIALRIAGAGAGDEVITTPISWVATANVIIETGATPVFADIDPVTRNIDLDKLEAAITP 158 MEIALRIAG G GDEVITTPISWVATANVI+ETGATPVFADIDP+TRNIDLDKLEAAITP Sbjct: 62 MEIALRIAGVGPGDEVITTPISWVATANVILETGATPVFADIDPITRNIDLDKLEAAITP 121 Query: 159 RTKAIIPVYLAGLPVDMDRLYTIAKKHNLRVIEDAAQALGSTWKGKRIGSFGDFVSFSFQ 218 RTKA+IPVYL+GLPVDMDRLY IA KH LRV+EDAAQALGSTW GKRIG+FGDFVSFS Q Sbjct: 122 RTKAVIPVYLSGLPVDMDRLYAIAAKHKLRVVEDAAQALGSTWNGKRIGAFGDFVSFSLQ 181 Query: 219 ANKNVTSSEGGCLVVNNPDEARLAEKYRLQGVTRSGFDGLEVDVLGGKFNMTDIAA 274 ANKN+TSSEGG LV+NN +EARLAEKYRLQGVTRSGFDGLEVDVLGGKFNMTD+AA Sbjct: 182 ANKNITSSEGGFLVLNNAEEARLAEKYRLQGVTRSGFDGLEVDVLGGKFNMTDVAA 237 >gi|300313484|ref|YP_003777576.1| DegT/DnrJ/EryC1/StrS aminotransferase family protein [Herbaspirillum seropedicae SmR1] Length = 388 Score = 161 bits (407), Expect = 7e-41, Method: Compositional matrix adjust. Identities = 85/204 (41%), Positives = 118/204 (57%), Gaps = 3/204 (1%) Query: 43 LPFSKPTIDEPTIAAVADVLRSGWITSGPKVQAFEKALSDYLDGRLVRTFNSGTCTMEIA 102 +P ++ ++ E I +V L +GW+ GPKV+ FE+ S + R S T + ++ Sbjct: 3 VPIARTSLTEAEIQSVLAPLSNGWLVQGPKVREFEEKWSAFTGARHSIAVTSCTTALHLS 62 Query: 103 LRIAGAGAGDEVITTPISWVATANVIIETGATPVFADIDPVTRNIDLDKLEAAITPRTKA 162 L G G GDE I +W+ATANVI G VF DID T N+D+ L + IT RTKA Sbjct: 63 LAALGFGPGDEAIVPAFTWIATANVIEHLGGKVVFCDIDLNTFNLDVAALRSKITSRTKA 122 Query: 163 IIPVYLAGLPVDMDRLYTIAKKHNLRVIEDAAQALGSTWKGKRIGSFGDFVSFSFQANKN 222 I+PV+L GL +MD++ +AK+H L V+EDAA GS + GK +G GD FSF K Sbjct: 123 ILPVHLFGLAAEMDQINDVAKQHGLWVVEDAACGFGSRYHGKHVGVLGDTGCFSFHPRKA 182 Query: 223 VTSSEGGCLVVNNPDEARLAEKYR 246 +T+ EGG + +N LAEK R Sbjct: 183 ITTGEGGMITTDND---ALAEKLR 203 >gi|300313482|ref|YP_003777574.1| lipopolysaccharide biosynthesis protein [Herbaspirillum seropedicae SmR1] Length = 366 Score = 136 bits (343), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 80/197 (40%), Positives = 114/197 (57%), Gaps = 2/197 (1%) Query: 58 VADVLRSGWITSGPKVQAFEKALSDYLDGRLVRTFNSGTCTMEIALRIAGAGAGDEVITT 117 + VL G GP+V+ E AL Y + T SGT + I+L GDE+ITT Sbjct: 25 IQKVLDHGQYIMGPEVRELEAALEAYTGAKHCITVASGTEALLISLMALDIKPGDEIITT 84 Query: 118 PISWVATANVIIETGATPVFADIDPVTRNIDLDKLEAAITPRTKAIIPVYLAGLPVDMDR 177 P ++VATA V++ GA PVF D++P T NID+ +EA IT +TKAI+PV L G DMD Sbjct: 85 PFTFVATAEVMVLLGAKPVFVDVEPDTGNIDVRLIEARITSKTKAIMPVSLYGQAADMDE 144 Query: 178 LYTIAKKH-NLRVIEDAAQALGSTWKGKRIGSFGDFVSFSFQANKNV-TSSEGGCLVVNN 235 + IA +H NL VIEDAAQ+ G+T+KG++ G+ SF +K + +GG + N+ Sbjct: 145 INAIAARHGNLPVIEDAAQSFGATYKGRKSGNLSSIGCTSFFPSKPLGCYGDGGAIFTND 204 Query: 236 PDEARLAEKYRLQGVTR 252 A + R+ G ++ Sbjct: 205 DAIALACRQIRVHGQSQ 221 >gi|300312168|ref|YP_003776260.1| pyridoxal phosphate-dependent aminotransferase [Herbaspirillum seropedicae SmR1] Length = 382 Score = 131 bits (330), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 72/198 (36%), Positives = 108/198 (54%) Query: 42 FLPFSKPTIDEPTIAAVADVLRSGWITSGPKVQAFEKALSDYLDGRLVRTFNSGTCTMEI 101 ++ S P + + AV VL S +++GP V++FE + YL SGT + + Sbjct: 5 WIKLSDPDVSTRELEAVTRVLVSSGLSAGPVVESFENEFASYLGRTYGVAAASGTVALML 64 Query: 102 ALRIAGAGAGDEVITTPISWVATANVIIETGATPVFADIDPVTRNIDLDKLEAAITPRTK 161 ALR G AGDEVI + SW + I GATPVFADID + N+ K+ I+ RT+ Sbjct: 65 ALRAMGIRAGDEVIASAYSWHQIVHAITLVGATPVFADIDYWSGNLAPHKVADKISQRTR 124 Query: 162 AIIPVYLAGLPVDMDRLYTIAKKHNLRVIEDAAQALGSTWKGKRIGSFGDFVSFSFQANK 221 AI+ G P +A+ H LR+IED+++A+GS ++G+ +G+FGD F F Sbjct: 125 AIVVGNCNGHPAAWTEFRQLAQAHGLRLIEDSSEAIGSRYQGRVVGNFGDIAIFDFSQPS 184 Query: 222 NVTSSEGGCLVVNNPDEA 239 + EG LV ++P+ A Sbjct: 185 ALCCGEGAMLVTDDPELA 202 >gi|300313698|ref|YP_003777790.1| CDP-4-keto-6-deoxy-D-glucose-3-dehydrase [Herbaspirillum seropedicae SmR1] Length = 390 Score = 120 bits (301), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 70/217 (32%), Positives = 116/217 (53%), Gaps = 4/217 (1%) Query: 44 PFSKPTIDEPTIAAVADVLRSG--WITSGPKVQAFEKALSDYLDGRLVRTFNSGTCT--M 99 P + I + AV + LR +T+GP V+AFEK S++L + NSG + Sbjct: 5 PLMRNNILREDLDAVIEHLRQDDPILTNGPNVRAFEKEWSEWLGVKYSVFVNSGASANLL 64 Query: 100 EIALRIAGAGAGDEVITTPISWVATANVIIETGATPVFADIDPVTRNIDLDKLEAAITPR 159 +A+ G EVI P++W++ +I+ G TPVFADIDP + + +++ A IT R Sbjct: 65 SMAVLKLRHPEGGEVIVPPLTWISDVATVIQNGFTPVFADIDPRSLAMAPEQILAKITER 124 Query: 160 TKAIIPVYLAGLPVDMDRLYTIAKKHNLRVIEDAAQALGSTWKGKRIGSFGDFVSFSFQA 219 T+A+ ++ G D L ++ N+ +IED ++ G+T G+R+GSFG +FSF Sbjct: 125 TRAVFLTHVQGFDGLTDELLAELERRNIPLIEDVCESHGATHNGQRLGSFGWMSNFSFYY 184 Query: 220 NKNVTSSEGGCLVVNNPDEARLAEKYRLQGVTRSGFD 256 ++++ EGG + N+P+ + R G+ R D Sbjct: 185 AHHMSTIEGGMVCTNDPEVYQQVRMLRSHGMVREATD 221 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 0.319 0.136 0.406 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: 992,462 Number of extensions: 42545 Number of successful extensions: 129 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 127 Number of HSP's successfully gapped: 5 Length of query: 306 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 221 Effective length of database: 1,217,395 Effective search space: 269044295 Effective search space used: 269044295 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 (21.7 bits) S2: 130 (54.7 bits)