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= 0001.3299.p (319 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312633|ref|YP_003776725.1| D-3-phosphoglycerate dehydrogen... 582 e-167 gi|300313735|ref|YP_003777827.1| D-3-phosphoglycerate dehydrogen... 139 3e-34 gi|300311988|ref|YP_003776080.1| D-3-phosphoglycerate dehydrogen... 124 1e-29 gi|300310960|ref|YP_003775052.1| dehydrogenase oxidoreductase [H... 119 3e-28 gi|300313156|ref|YP_003777248.1| D-2-hydroxyacid dehydrogenase [... 110 1e-25 >gi|300312633|ref|YP_003776725.1| D-3-phosphoglycerate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 319 Score = 582 bits (1500), Expect = e-167, Method: Compositional matrix adjust. Identities = 294/316 (93%), Positives = 309/316 (97%) Query: 1 MKVLITDYDFPDVDLELALYRQAGVEVVTAQCRTEDDVIAASEGCQGLLVQYAPVNAKVF 60 MKVLITDYDFPDVDLELALY++AGVEVVTAQCRTE++VIAAS GCQGLLVQYAPVNAKVF Sbjct: 1 MKVLITDYDFPDVDLELALYKEAGVEVVTAQCRTEEEVIAASAGCQGLLVQYAPVNAKVF 60 Query: 61 AARPEIRIASRYGAGFDTINTADAARYGVWVANSPDYGVGEVATHALAMALDLIRNITVY 120 AARPEIRIASRYGAGFDTINTADAA +GVWVANSPDYGVGEVATHALAMALDLIRNITVY Sbjct: 61 AARPEIRIASRYGAGFDTINTADAAAHGVWVANSPDYGVGEVATHALAMALDLIRNITVY 120 Query: 121 DRAVKAGQWHYTTAGIIPRASELTLGIIGLGRIGKRMAHISRNLFKRVIAYDPYIIDGDF 180 DRAVKAG+WHYTTAGIIPRAS+LT+GIIGLGRIGKRMAHISRNLFKRVIAYDPYIIDGDF Sbjct: 121 DRAVKAGEWHYTTAGIIPRASDLTIGIIGLGRIGKRMAHISRNLFKRVIAYDPYIIDGDF 180 Query: 181 PAYVERVGREDLFRQAHVVSLHTPLNDETRNMIDASLLALLPPQSYLVNSARGGLIQIDD 240 PAYVERVGRE+LFRQAHVVSLHTPLNDETRNMIDASLL LL QSYLVNSARGGL++IDD Sbjct: 181 PAYVERVGREELFRQAHVVSLHTPLNDETRNMIDASLLDLLQAQSYLVNSARGGLVKIDD 240 Query: 241 LLAALENGQLKGAALDVLPVEPPTTSAAIVQHPRVLLSPHAAFFSDVAARELRRKAAQNL 300 LLAALENG+LKGAALDVLPVEPP T++AIVQHPRVLLSPHAAFFSDVAARELRRKAA+NL Sbjct: 241 LLAALENGKLKGAALDVLPVEPPQTASAIVQHPRVLLSPHAAFFSDVAARELRRKAAKNL 300 Query: 301 IDWDRNGRPSYVVVQG 316 IDWDR GRPSYVVVQG Sbjct: 301 IDWDRTGRPSYVVVQG 316 >gi|300313735|ref|YP_003777827.1| D-3-phosphoglycerate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 308 Score = 139 bits (351), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 105/305 (34%), Positives = 169/305 (55%), Gaps = 16/305 (5%) Query: 3 VLITDYDFPDVDLELALYRQAGVEVVTAQCR-TEDDVIAASEGCQ--GLLVQYAPVNAKV 59 V++T D +EL R E+V A + TEDD++ ++ Q ++V+Y V+A+V Sbjct: 9 VIVTGVDLAQAAVEL--LRD--YELVYAGAKPTEDDMVKLAQLHQPVAIIVRYGGVSARV 64 Query: 60 FAARPEIRIASRYGAGFDTINTADAARYGVWVANSPDYGVGEVATHALAMALDLIRNITV 119 A P +R+ S++G G D+I++ A + G+ V + VA H A+ + +N+ Sbjct: 65 MDAAPILRVISKHGTGIDSIDSQAAQQRGIAVKAAAGANAPAVAEHTWALIMACAKNVVG 124 Query: 120 YDRAVKAGQWHYTTAGIIPRASEL---TLGIIGLGRIGKRMAHISRNLFKRVIAYDPYII 176 D+ ++ G W +T ++ EL TLG++GLG IG+R+A ++ L V+A+DPY Sbjct: 125 LDQRMREGHWDKST----HKSLELQGRTLGLVGLGAIGRRVAAVAAALGMPVLAHDPYAK 180 Query: 177 DGDFPAYVERVGREDLFRQAHVVSLHTPLNDETRNMIDASLLALLPPQSYLVNSARGGLI 236 + P V+ V + LF Q+ VVSLH PL E ++MI+A LA + + LVN+ARGGLI Sbjct: 181 EA--PQGVQLVDLDTLFAQSDVVSLHCPLTAENKHMINAQSLARMKDGAILVNTARGGLI 238 Query: 237 QIDDLLAALENGQLKGAALDVLPVEPPTTSAAIVQHPRVLLSPHAAFFSDVAARELRRKA 296 L+AAL++G+L+ A LD EP T + + +LSPH + A + A Sbjct: 239 DEQALIAALDSGKLRAAGLDSFEKEPFTAPHPLQRVGNAVLSPHIGGVTSDAYIAMGTGA 298 Query: 297 AQNLI 301 A N++ Sbjct: 299 ASNVL 303 >gi|300311988|ref|YP_003776080.1| D-3-phosphoglycerate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 310 Score = 124 bits (310), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 86/247 (34%), Positives = 128/247 (51%), Gaps = 26/247 (10%) Query: 55 VNAKVFAARPEIRIASRYGAGFDTINTADAARYGVWVANSPDYGVGEVATHALAMALDLI 114 + A+ A P +++ GAGF+ ++ A A +G+ +A VA HAL + L ++ Sbjct: 56 LTAEEMRALPHLQLVCTLGAGFENVDVAHAEAHGIEIATGAGTNEDCVADHALGLLLAIL 115 Query: 115 RNITVYDRAVKAGQWHYTTAGIIPRASELTLGIIGLGRIGKRMAHISRNLFKRVIAYDPY 174 RNI V DR + G W T + P+ + +GI+G+G IGK++A +R A+D Sbjct: 116 RNIPVLDRYTRDGGWRETIP-LQPQLAGKRVGIVGMGNIGKKIA-------RRAAAFDAE 167 Query: 175 IIDGDFPAYVERVGRED-----------LFRQAHVVSLHTPLNDETRNMIDASLLALLPP 223 I AY R R+D L A + + P +TR++I+A +L L P Sbjct: 168 I------AYCNRKKRDDVDYHYFPDVAQLAGWADCLIVAAPGGAQTRHLINARVLEELGP 221 Query: 224 QSYLVNSARGGLIQIDDLLAALENGQLKGAALDVLPVEPPTTSAAIVQHPRVLLSPHAAF 283 Q YLVN RG ++ D L AAL +G+L GA LDV E P AA++ P V+L+PH A Sbjct: 222 QGYLVNIGRGSIVDTDALGAALSSGRLAGAGLDVYEGE-PQPPAALIALPNVVLTPHIAG 280 Query: 284 FSDVAAR 290 +S A R Sbjct: 281 WSPEAIR 287 >gi|300310960|ref|YP_003775052.1| dehydrogenase oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 326 Score = 119 bits (299), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 98/317 (30%), Positives = 154/317 (48%), Gaps = 14/317 (4%) Query: 2 KVLITDYDFPDVDLELALYRQAGVEVVTAQ---CRTEDDVIAASEGCQGLLVQYA-PVNA 57 K+ + FP+V LA Q EV + Q + ++ A ++G GL + PV A Sbjct: 4 KIFVARAVFPEV---LARLEQ-HFEVESNQDDRIYSAAELQAKAQGKDGLFTTPSEPVTA 59 Query: 58 KVFAARPEIRIASRYGAGFDTINTADAARYGVWVANSPDYGVGEVATHALAMALDLIRNI 117 +FAA P+++ G++ I+ A A + GV N+PD A A+ + R I Sbjct: 60 ALFAANPQLKAVCNMAVGYNNIDVAAATQAGVMATNTPDVLNETTADFGWALMMAAARRI 119 Query: 118 TVYDRAVKAGQWHYTT--AGIIPRASELTLGIIGLGRIGKRMAHISRNLFKRVIAYDPYI 175 T + ++AG+W + + + P TLGIIG+GRIG+ +A S +V+ ++ Sbjct: 120 TESEHFLRAGKWKKWSYDSFVGPDIHGATLGIIGMGRIGQAIARRSLGFDMQVLYHNRSR 179 Query: 176 IDGDFPA---YVERVGREDLFRQAHVVSLHTPLNDETRNMIDASLLALLPPQSYLVNSAR 232 + + A + V +E+L RQA V L P + +T + I A+ LAL+ P + L N AR Sbjct: 180 LAPELEARANHARYVSKEELLRQADHVILVLPYSKDTHHTIAAAELALMKPTATLTNIAR 239 Query: 233 GGLIQIDDLLAALENGQLKGAALDVLPVEPPTTSAAIVQHPRVLLSPHAAFFSDVAAREL 292 GG++ L+AAL G++ A +DV E P + V+L+PH A S + Sbjct: 240 GGIVDDAALIAALREGRIAAAGVDVFENE-PAFKPEFLDLSNVVLTPHIASASTPTRLAM 298 Query: 293 RRKAAQNLIDWDRNGRP 309 AA NLI RP Sbjct: 299 ANCAADNLIAALSGQRP 315 >gi|300313156|ref|YP_003777248.1| D-2-hydroxyacid dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 316 Score = 110 bits (275), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 86/277 (31%), Positives = 136/277 (49%), Gaps = 17/277 (6%) Query: 31 QCRTEDDVIAASEGCQGLLVQYAPVNAKVFAAR-PEIRIASRYGAGFDTINTADAARYGV 89 Q +E ++ A + +G+ ++ F AR P + I S +G G+D ++ A G+ Sbjct: 35 QPHSEAELAAIAPQIRGIAANGEAKVSREFMARFPALEIVSVFGVGYDGVDVPAARERGI 94 Query: 90 WVANSPDYGVGEVATHALAMALDLIRNITVYDRAVKAGQWHYTTAGIIPRASELTLGIIG 149 V ++PD +VA A+A+ L RN+ DR ++G+W + S LGI+G Sbjct: 95 HVTHTPDVLNDDVADLAMALMLATARNVVRADRFARSGEWKKGPFPFTTKVSGARLGIVG 154 Query: 150 LGRIGKRMAHISRNLFKRVIAYDPYI-----IDGDFP-AYVERVGREDLFRQAHVVSLHT 203 LGRIG+ +A KR A+D I D P YV+ + L R+ + + T Sbjct: 155 LGRIGQAIA-------KRAAAFDMQISYHNRSRKDVPYTYVDSI--TALAREVDFLVMIT 205 Query: 204 PLNDETRNMIDASLLALLPPQSYLVNSARGGLIQIDDLLAALENGQLKGAALDVLPVEPP 263 P TR +++A +L L P+ +L+N ARG ++ L+AAL+ G + GA LDV E P Sbjct: 206 PGGAGTRALVNAEVLEALGPKGFLINVARGSVVDEAALIAALKTGVIAGAGLDVFADE-P 264 Query: 264 TTSAAIVQHPRVLLSPHAAFFSDVAARELRRKAAQNL 300 A + V+L+PH A + V + A NL Sbjct: 265 NVPAELAALDNVVLTPHMASGTLVTRTAMADLAFNNL 301 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 0.405 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: 998,136 Number of extensions: 40445 Number of successful extensions: 150 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 140 Number of HSP's successfully gapped: 11 Length of query: 319 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 234 Effective length of database: 1,217,395 Effective search space: 284870430 Effective search space used: 284870430 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)