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= 0031.0206.p (438 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... 179 3e-46 gi|300313482|ref|YP_003777574.1| lipopolysaccharide biosynthesis... 142 7e-35 gi|300311404|ref|YP_003775496.1| pyridoxal phosphate-dependent a... 133 3e-32 gi|300312168|ref|YP_003776260.1| pyridoxal phosphate-dependent a... 127 2e-30 gi|300313698|ref|YP_003777790.1| CDP-4-keto-6-deoxy-D-glucose-3-... 126 4e-30 >gi|300313484|ref|YP_003777576.1| DegT/DnrJ/EryC1/StrS aminotransferase family protein [Herbaspirillum seropedicae SmR1] Length = 388 Score = 179 bits (455), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 95/262 (36%), Positives = 154/262 (58%), Gaps = 9/262 (3%) Query: 57 GPEVQAFEQQWAALSQVKHAISVNSCTSGLYAAIGAAGVQIGDEVIVSPYTMAASATAAP 116 GP+V+ FE++W+A + +H+I+V SCT+ L+ ++ A G GDE IV +T A+A Sbjct: 30 GPKVREFEEKWSAFTGARHSIAVTSCTTALHLSLAALGFGPGDEAIVPAFTWIATANVIE 89 Query: 117 VFNGVPVFADIDPDTYCISAETIRARITERTRAIVVVHIFGQCADMDPIMELAREHRLVV 176 G VF DID +T+ + +R++IT RT+AI+ VH+FG A+MD I ++A++H L V Sbjct: 90 HLGGKVVFCDIDLNTFNLDVAALRSKITSRTKAILPVHLFGLAAEMDQINDVAKQHGLWV 149 Query: 177 IEDCAQAPFATYKGRPAGSLGHMGVFSLNYHKHIHTGEGGMVTTNDDRFAERLQLIRNHA 236 +ED A + Y G+ G LG G FS + K I TGEGGM+TT++D AE+L+ +R+H Sbjct: 150 VEDAACGFGSRYHGKHVGVLGDTGCFSFHPRKAITTGEGGMITTDNDALAEKLRRLRDHG 209 Query: 237 EAVVEKKG--------VSDLSNMIGFNFRLGEIEAAIGREQLNKGPGLIEQRKENVRYLE 288 A+ + + ++D + G+N R+ +I+AA+G Q+ + +I +R+ + Sbjct: 210 AAMTDLQRHLGARPYLLADHPDA-GYNQRMTDIQAALGAAQMERADDIIAERRRLAERYD 268 Query: 289 NRLSGLPGLRMPVVGAAQDHVY 310 + L LR P +H Y Sbjct: 269 AAFADLSWLRTPAHVDGLEHGY 290 >gi|300313482|ref|YP_003777574.1| lipopolysaccharide biosynthesis protein [Herbaspirillum seropedicae SmR1] Length = 366 Score = 142 bits (357), Expect = 7e-35, Method: Compositional matrix adjust. Identities = 92/248 (37%), Positives = 130/248 (52%), Gaps = 9/248 (3%) Query: 36 RVLDSGILSRFLGAW-HPDFFGGPEVQAFEQQWAALSQVKHAISVNSCTSGLYAAIGAAG 94 R L I SR H + GPEV+ E A + KH I+V S T L ++ A Sbjct: 15 RALKDAINSRIQKVLDHGQYIMGPEVRELEAALEAYTGAKHCITVASGTEALLISLMALD 74 Query: 95 VQIGDEVIVSPYTMAASATAAPVFNGVPVFADIDPDTYCISAETIRARITERTRAIVVVH 154 ++ GDE+I +P+T A+A + PVF D++PDT I I ARIT +T+AI+ V Sbjct: 75 IKPGDEIITTPFTFVATAEVMVLLGAKPVFVDVEPDTGNIDVRLIEARITSKTKAIMPVS 134 Query: 155 IFGQCADMDPIMELAREH-RLVVIEDCAQAPFATYKGRPAGSLGHMGVFSLNYHKHIHT- 212 ++GQ ADMD I +A H L VIED AQ+ ATYKGR +G+L +G S K + Sbjct: 135 LYGQAADMDEINAIAARHGNLPVIEDAAQSFGATYKGRKSGNLSSIGCTSFFPSKPLGCY 194 Query: 213 GEGGMVTTNDDRFAERLQLIRNHAEAVVEKKGVSDLSNMIGFNFRLGEIEAAIGREQLNK 272 G+GG + TNDD A + IR H ++ + +G R+ ++ AI +L + Sbjct: 195 GDGGAIFTNDDAIALACRQIRVHGQS------QRYVHTRVGVGGRMDTLQCAIVLAKLER 248 Query: 273 GPGLIEQR 280 IEQR Sbjct: 249 FDWEIEQR 256 >gi|300311404|ref|YP_003775496.1| pyridoxal phosphate-dependent aminotransferase [Herbaspirillum seropedicae SmR1] Length = 373 Score = 133 bits (334), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 91/266 (34%), Positives = 135/266 (50%), Gaps = 15/266 (5%) Query: 22 AYSVIGEEEKAAAARVLDSGILSRFLGAWHPDFFGGPEVQAFEQQWAALSQVKHAISVNS 81 A I E AA VL SG ++ GP+VQAFE+ + + + NS Sbjct: 9 AKPTIDEPTIAAVGEVLRSGWIT-----------SGPKVQAFEKALSDYLGGRIVRTFNS 57 Query: 82 CTSGLYAAIGAAGVQIGDEVIVSPYTMAASATAAPVFNGVPVFADIDPDTYCISAETIRA 141 T + A+ AGV GDEVI +P + A+A PVFADIDP T I + + A Sbjct: 58 GTCTMEIALRIAGVGPGDEVITTPISWVATANVILETGATPVFADIDPITRNIDLDKLEA 117 Query: 142 RITERTRAIVVVHIFGQCADMDPIMELAREHRLVVIEDCAQAPFATYKGRPAGSLGHMGV 201 IT RT+A++ V++ G DMD + +A +H+L V+ED AQA +T+ G+ G+ G Sbjct: 118 AITPRTKAVIPVYLSGLPVDMDRLYAIAAKHKLRVVEDAAQALGSTWNGKRIGAFGDFVS 177 Query: 202 FSLNYHKHIHTGEGGMVTTNDDRFAERLQLIRNHAEAVVEKKGVSDLS-NMIGFNFRLGE 260 FSL +K+I + EGG + N+ AE +L + V + G L +++G F + + Sbjct: 178 FSLQANKNITSSEGGFLVLNN---AEEARLAEKYRLQGVTRSGFDGLEVDVLGGKFNMTD 234 Query: 261 IEAAIGREQLNKGPGLIEQRKENVRY 286 + AAIG Q + RKE R+ Sbjct: 235 VAAAIGLGQFAHIDAITAHRKELARH 260 >gi|300312168|ref|YP_003776260.1| pyridoxal phosphate-dependent aminotransferase [Herbaspirillum seropedicae SmR1] Length = 382 Score = 127 bits (319), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 88/312 (28%), Positives = 154/312 (49%), Gaps = 15/312 (4%) Query: 26 IGEEEKAAAARVLDSGILSRFLGAWHPDFFGGPEVQAFEQQWAALSQVKHAISVNSCTSG 85 + E A RVL S LS GP V++FE ++A+ + ++ S T Sbjct: 13 VSTRELEAVTRVLVSSGLS-----------AGPVVESFENEFASYLGRTYGVAAASGTVA 61 Query: 86 LYAAIGAAGVQIGDEVIVSPYTMAASATAAPVFNGVPVFADIDPDTYCISAETIRARITE 145 L A+ A G++ GDEVI S Y+ A + PVFADID + ++ + +I++ Sbjct: 62 LMLALRAMGIRAGDEVIASAYSWHQIVHAITLVGATPVFADIDYWSGNLAPHKVADKISQ 121 Query: 146 RTRAIVVVHIFGQCADMDPIMELAREHRLVVIEDCAQAPFATYKGRPAGSLGHMGVFSLN 205 RTRAIVV + G A +LA+ H L +IED ++A + Y+GR G+ G + +F + Sbjct: 122 RTRAIVVGNCNGHPAAWTEFRQLAQAHGLRLIEDSSEAIGSRYQGRVVGNFGDIAIFDFS 181 Query: 206 YHKHIHTGEGGMVTTNDDRFAERLQLIRNHAEAVVEKKGVSDLSNMIGFNFRLGEIEAAI 265 + GEG M+ T+D A L +RN + + V+ M G + ++ AAI Sbjct: 182 QPSALCCGEGAMLVTDDPELASELHYMRNRNLSDRQSIAVASRVPMQG---SMSDLSAAI 238 Query: 266 GREQLNKGPGLIEQRKENVRYLENRLSGLPGLRMPVVGAAQDHVYY-IHVMDYDAQVTGV 324 G QL + ++ +RK+ Y + G++ P +G + VY+ ++++ + T Sbjct: 239 GIAQLERLDEILMRRKQVEAYYLEHVQFFEGIKPPYIGPDVEEVYWMLYLVHLGTRFTRT 298 Query: 325 TREKLVQAIKAE 336 R ++++ + ++ Sbjct: 299 MRNQIIEDLASQ 310 >gi|300313698|ref|YP_003777790.1| CDP-4-keto-6-deoxy-D-glucose-3-dehydrase [Herbaspirillum seropedicae SmR1] Length = 390 Score = 126 bits (316), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 88/257 (34%), Positives = 133/257 (51%), Gaps = 23/257 (8%) Query: 52 PDFFGGPEVQAFEQQWAALSQVKHAISVNSCTSGLYAAIGAAGVQ--IGDEVIVSPYTMA 109 P GP V+AFE++W+ VK+++ VNS S ++ ++ G EVIV P T Sbjct: 28 PILTNGPNVRAFEKEWSEWLGVKYSVFVNSGASANLLSMAVLKLRHPEGGEVIVPPLTWI 87 Query: 110 ASATAAPVFNG-VPVFADIDPDTYCISAETIRARITERTRAIVVVHIFGQCADMDPIMEL 168 S A + NG PVFADIDP + ++ E I A+ITERTRA+ + H+ G D ++ Sbjct: 88 -SDVATVIQNGFTPVFADIDPRSLAMAPEQILAKITERTRAVFLTHVQGFDGLTDELLAE 146 Query: 169 AREHRLVVIEDCAQAPFATYKGRPAGSLGHMGVFSLNYHKHIHTGEGGMVTTNDDRFAER 228 + +IED ++ AT+ G+ GS G M FS Y H+ T EGGMV TND ++ Sbjct: 147 LERRNIPLIEDVCESHGATHNGQRLGSFGWMSNFSFYYAHHMSTIEGGMVCTNDPEVYQQ 206 Query: 229 LQLIRNHAEAVVEKKGVSDLS------------NMI----GFNFRLGEIEAAIGREQLNK 272 ++++R+H +V + DL + I +N R EI A +GR QL + Sbjct: 207 VRMLRSH--GMVREATDDDLKLGYRQDNPQLNPDFIFAFPAYNVRNTEIGAIMGRSQLKR 264 Query: 273 GPGLIEQRKEN-VRYLE 288 +R N +R+L+ Sbjct: 265 LDANCARRTANMMRFLD 281 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 0.320 0.135 0.398 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: 1,383,513 Number of extensions: 59781 Number of successful extensions: 213 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 206 Number of HSP's successfully gapped: 5 Length of query: 438 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 350 Effective length of database: 1,203,190 Effective search space: 421116500 Effective search space used: 421116500 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 (21.8 bits) S2: 132 (55.5 bits)