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= 0031.0202.p (321 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313484|ref|YP_003777576.1| DegT/DnrJ/EryC1/StrS aminotrans... 171 7e-44 gi|300311404|ref|YP_003775496.1| pyridoxal phosphate-dependent a... 154 6e-39 gi|300313482|ref|YP_003777574.1| lipopolysaccharide biosynthesis... 132 5e-32 gi|300312168|ref|YP_003776260.1| pyridoxal phosphate-dependent a... 98 8e-22 gi|300313698|ref|YP_003777790.1| CDP-4-keto-6-deoxy-D-glucose-3-... 66 4e-12 >gi|300313484|ref|YP_003777576.1| DegT/DnrJ/EryC1/StrS aminotransferase family protein [Herbaspirillum seropedicae SmR1] Length = 388 Score = 171 bits (433), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 112/323 (34%), Positives = 159/323 (49%), Gaps = 23/323 (7%) Query: 2 GPGDIVWTSAITFVASANCAIYCGASVDFVDIDPVSYNMSVPQLREKLETARKAGKLPKV 61 GPGD A T++A+AN + G V F DID ++N+ V LR K+ + KA Sbjct: 69 GPGDEAIVPAFTWIATANVIEHLGGKVVFCDIDLNTFNLDVAALRSKITSRTKA------ 122 Query: 62 VIPVHMTGQSCDMQSIHQLGQEFGFKIIEDASHAVGARYQGKAVGCGRYSDITVFSFHPV 121 ++PVH+ G + +M I+ + ++ G ++EDA+ G+RY GK VG D FSFHP Sbjct: 123 ILPVHLFGLAAEMDQINDVAKQHGLWVVEDAACGFGSRYHGKHVGV--LGDTGCFSFHPR 180 Query: 122 KIITSGEGGMALTNDELLARSLRRLRSHG--LTGNAPEMDPRPEDELWNYQQVELGFNYR 179 K IT+GEGGM T+++ LA LRRLR HG +T + RP + G+N R Sbjct: 181 KAITTGEGGMITTDNDALAEKLRRLRDHGAAMTDLQRHLGARP---YLLADHPDAGYNQR 237 Query: 180 ITDIHAALGLSQMRHLDDFVRARNDLARRYDELLVNLP-LSTPAQASDSYSSYHLY---- 234 +TDI AALG +QM DD + R LA RYD +L L TPA Y Y Sbjct: 238 MTDIQAALGAAQMERADDIIAERRRLAERYDAAFADLSWLRTPAHVDGLEHGYQSYPCLF 297 Query: 235 ----VVRLSLPQIRKTQKEVFRELHARGIMVNLHYIPVYLQPFY-QRMGFARGQCPEAER 289 V S+ +I + L GI V++ FY ++ P A Sbjct: 298 QPEPVNTDSIERINAARNAWMDSLQQAGISTRPATHAVHMLTFYREKYALKPADFPNAWA 357 Query: 290 YFKEALSIPLYPGLTREAQDRTI 312 ++S+PL+ G+T+ QD I Sbjct: 358 ANDCSISLPLFHGMTQAEQDFVI 380 >gi|300311404|ref|YP_003775496.1| pyridoxal phosphate-dependent aminotransferase [Herbaspirillum seropedicae SmR1] Length = 373 Score = 154 bits (390), Expect = 6e-39, Method: Compositional matrix adjust. Identities = 99/329 (30%), Positives = 169/329 (51%), Gaps = 37/329 (11%) Query: 1 VGPGDIVWTSAITFVASANCAIYCGASVDFVDIDPVSYNMSVPQLREKLETARKAGKLPK 60 VGPGD V T+ I++VA+AN + GA+ F DIDP++ N+ + +L + KA Sbjct: 71 VGPGDEVITTPISWVATANVILETGATPVFADIDPITRNIDLDKLEAAITPRTKA----- 125 Query: 61 VVIPVHMTGQSCDMQSIHQLGQEFGFKIIEDASHAVGARYQGKAVGCGRYSDITVFSFHP 120 VIPV+++G DM ++ + + +++EDA+ A+G+ + GK +G + D FS Sbjct: 126 -VIPVYLSGLPVDMDRLYAIAAKHKLRVVEDAAQALGSTWNGKRIGA--FGDFVSFSLQA 182 Query: 121 VKIITSGEGGMALTNDELLARSLRRLRSHGLTGNAPEMDPRPEDELWNYQQVE-LGFNYR 179 K ITS EGG + N+ AR + R G+T + ++ +V+ LG + Sbjct: 183 NKNITSSEGGFLVLNNAEEARLAEKYRLQGVTRSG-----------FDGLEVDVLGGKFN 231 Query: 180 ITDIHAALGLSQMRHLDDFVRARNDLARRYDELL---------VNLPLSTPAQASDSYSS 230 +TD+ AA+GL Q H+D R +LAR Y LP+ A S+ Sbjct: 232 MTDVAAAIGLGQFAHIDAITAHRKELARHYFACFGSDFESRYGAQLPV-----ADFENSN 286 Query: 231 YHLYVVRLSLPQIRKTQKEVFRELHARGIMVNLHYIPVYLQPFYQRMGFARGQCPEAERY 290 +H++ +L LP+ R T+ ++ + I + HY ++L Y+ GF G P AER Sbjct: 287 WHMF--QLVLPE-RITRAAFMEKMMEKQIGIGYHYPAIHLLKLYRERGFGEGMFPVAERV 343 Query: 291 FKEALSIPLYPGLTREAQDRTIATLSEVL 319 + +S+P++ ++++ R++ T+ VL Sbjct: 344 GQRIVSLPMFNTMSKDDVVRSVETVKSVL 372 >gi|300313482|ref|YP_003777574.1| lipopolysaccharide biosynthesis protein [Herbaspirillum seropedicae SmR1] Length = 366 Score = 132 bits (331), Expect = 5e-32, Method: Compositional matrix adjust. Identities = 94/321 (29%), Positives = 152/321 (47%), Gaps = 32/321 (9%) Query: 1 VGPGDIVWTSAITFVASANCAIYCGASVDFVDIDPVSYNMSVPQLREKLETARKAGKLPK 60 + PGD + T+ TFVA+A + GA FVD++P + N+ V + ++ + KA Sbjct: 75 IKPGDEIITTPFTFVATAEVMVLLGAKPVFVDVEPDTGNIDVRLIEARITSKTKA----- 129 Query: 61 VVIPVHMTGQSCDMQSIHQLGQEFG-FKIIEDASHAVGARYQGKAVGCGRYSDITVFSFH 119 ++PV + GQ+ DM I+ + G +IEDA+ + GA Y+G+ G S I SF Sbjct: 130 -IMPVSLYGQAADMDEINAIAARHGNLPVIEDAAQSFGATYKGRK--SGNLSSIGCTSFF 186 Query: 120 PVKIITS-GEGGMALTNDELLARSLRRLRSHGLTGNAPEMDPRPEDELWNYQQVELGFNY 178 P K + G+GG TND+ +A + R++R HG + Y +G Sbjct: 187 PSKPLGCYGDGGAIFTNDDAIALACRQIRVHG--------------QSQRYVHTRVGVGG 232 Query: 179 RITDIHAALGLSQMRHLDDFVRARNDLARRYDELLVNLPLSTPAQASDSYSSYHLYVVRL 238 R+ + A+ L+++ D + R L RY+ LL ++ Q D S + Y V L Sbjct: 233 RMDTLQCAIVLAKLERFDWEIEQRLALGSRYNSLLDAAGIARIQQRPDRDSVFAQYTVLL 292 Query: 239 SLPQIRKTQKEVFRELHARGIMVNLHY-IPVYLQPFYQRMGFARGQCPEAERYFKEALSI 297 ++ V L GI +HY +P+ QP Y+ +G Q P A++ +S+ Sbjct: 293 D------NREAVQAALQNAGIPTAVHYPVPLNRQPAYRHLGDP-DQTPVADQLAARVMSL 345 Query: 298 PLYPGLTREAQDRTIATLSEV 318 P+ P L AQD +A L + Sbjct: 346 PMSPDLEHTAQDSIVAALRSI 366 >gi|300312168|ref|YP_003776260.1| pyridoxal phosphate-dependent aminotransferase [Herbaspirillum seropedicae SmR1] Length = 382 Score = 98.2 bits (243), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 77/309 (24%), Positives = 137/309 (44%), Gaps = 29/309 (9%) Query: 4 GDIVWTSAITFVASANCAIYCGASVDFVDIDPVSYNMSVPQLREKLETARKAGKLPKVVI 63 GD V SA ++ + GA+ F DID S N++ ++ +K+ +A ++ Sbjct: 74 GDEVIASAYSWHQIVHAITLVGATPVFADIDYWSGNLAPHKVADKISQRTRA------IV 127 Query: 64 PVHMTGQSCDMQSIHQLGQEFGFKIIEDASHAVGARYQGKAVGCGRYSDITVFSFHPVKI 123 + G QL Q G ++IED+S A+G+RYQG+ V G + DI +F F Sbjct: 128 VGNCNGHPAAWTEFRQLAQAHGLRLIEDSSEAIGSRYQGRVV--GNFGDIAIFDFSQPSA 185 Query: 124 ITSGEGGMALTNDELLARSLRRLRSHGLTGNAPEMDPRPEDELWNYQQVELG----FNYR 179 + GEG M +T+D LA L +R+ L+ + Q + + Sbjct: 186 LCCGEGAMLVTDDPELASELHYMRNRNLS---------------DRQSIAVASRVPMQGS 230 Query: 180 ITDIHAALGLSQMRHLDDFVRARNDLARRYDELLVNLP-LSTPAQASDSYSSYH-LYVVR 237 ++D+ AA+G++Q+ LD+ + R + Y E + + P D Y LY+V Sbjct: 231 MSDLSAAIGIAQLERLDEILMRRKQVEAYYLEHVQFFEGIKPPYIGPDVEEVYWMLYLVH 290 Query: 238 LSLPQIRKTQKEVFRELHARGIMVNLHYIPVYLQPFYQRMGFARGQCPEAERYFKEALSI 297 L R + ++ +L ++ + P++ Q +Y R RG E+ +++ Sbjct: 291 LGTRFTRTMRNQIIEDLASQEVEAAAWCQPLHQQFYYSRFDCKRGDLLLTEKIADRCIAL 350 Query: 298 PLYPGLTRE 306 PL+ L + Sbjct: 351 PLHGHLNTD 359 >gi|300313698|ref|YP_003777790.1| CDP-4-keto-6-deoxy-D-glucose-3-dehydrase [Herbaspirillum seropedicae SmR1] Length = 390 Score = 65.9 bits (159), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 58/223 (26%), Positives = 102/223 (45%), Gaps = 29/223 (13%) Query: 4 GDIVWTSAITFVASANCAIYCGASVDFVDIDPVSYNMSVPQLREKLETARKAGKLPKVVI 63 G V +T+++ I G + F DIDP S M+ Q+ K+ +A V Sbjct: 76 GGEVIVPPLTWISDVATVIQNGFTPVFADIDPRSLAMAPEQILAKITERTRA------VF 129 Query: 64 PVHMTGQSCDMQSIHQLGQEFGFKIIEDASHAVGARYQGKAVGCGRYSDITVFSFHPVKI 123 H+ G + + +IED + GA + G+ +G + ++ FSF+ Sbjct: 130 LTHVQGFDGLTDELLAELERRNIPLIEDVCESHGATHNGQRLGS--FGWMSNFSFYYAHH 187 Query: 124 ITSGEGGMALTNDELLARSLRRLRSHGLTGNA-------------PEMDPRPEDELWNYQ 170 +++ EGGM TND + + +R LRSHG+ A P+++P D ++ + Sbjct: 188 MSTIEGGMVCTNDPEVYQQVRMLRSHGMVREATDDDLKLGYRQDNPQLNP---DFIFAFP 244 Query: 171 QVELGFNYRITDIHAALGLSQMRHLD-DFVRARNDLARRYDEL 212 +N R T+I A +G SQ++ LD + R ++ R D++ Sbjct: 245 ----AYNVRNTEIGAIMGRSQLKRLDANCARRTANMMRFLDQI 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 0.137 0.409 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: 995,721 Number of extensions: 40421 Number of successful extensions: 114 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 95 Number of HSP's successfully gapped: 5 Length of query: 321 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 236 Effective length of database: 1,217,395 Effective search space: 287305220 Effective search space used: 287305220 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: 130 (54.7 bits)