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= 0001.4389.p (313 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313735|ref|YP_003777827.1| D-3-phosphoglycerate dehydrogen... 518 e-148 gi|300310960|ref|YP_003775052.1| dehydrogenase oxidoreductase [H... 151 8e-38 gi|300310832|ref|YP_003774924.1| D-isomer specific 2-hydroxyacid... 150 1e-37 gi|300311988|ref|YP_003776080.1| D-3-phosphoglycerate dehydrogen... 143 2e-35 gi|300311826|ref|YP_003775918.1| D-lactate dehydrogenase [Herbas... 130 9e-32 >gi|300313735|ref|YP_003777827.1| D-3-phosphoglycerate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 308 Score = 518 bits (1333), Expect = e-148, Method: Compositional matrix adjust. Identities = 278/306 (90%), Positives = 294/306 (96%) Query: 1 VSASKKEVIIVTGVDLAPAAVAILRDYQLVYAGAKPTEDDLVQLAQQHQPVAIIVRYGGV 60 +SA+KKEV+IVTGVDLA AAV +LRDY+LVYAGAKPTEDD+V+LAQ HQPVAIIVRYGGV Sbjct: 1 MSAAKKEVVIVTGVDLAQAAVELLRDYELVYAGAKPTEDDMVKLAQLHQPVAIIVRYGGV 60 Query: 61 SARVMDASPALRVISKHGTGIDTIDSQAAQQRGIVVKAAAGANAPAVAEHTWALIMACAK 120 SARVMDA+P LRVISKHGTGID+IDSQAAQQRGI VKAAAGANAPAVAEHTWALIMACAK Sbjct: 61 SARVMDAAPILRVISKHGTGIDSIDSQAAQQRGIAVKAAAGANAPAVAEHTWALIMACAK 120 Query: 121 NVVGLDRRMRDGHWDKSTHKSLELKGRTLGLVGLGAIGRRVAAVAVALEMPVLAYDPYAK 180 NVVGLD+RMR+GHWDKSTHKSLEL+GRTLGLVGLGAIGRRVAAVA AL MPVLA+DPYAK Sbjct: 121 NVVGLDQRMREGHWDKSTHKSLELQGRTLGLVGLGAIGRRVAAVAAALGMPVLAHDPYAK 180 Query: 181 EAPQGVQLVDLDTLLAGSDVVSLHCPLTAENKHMINAQSLARMKDGAILVNTARGGLIDE 240 EAPQGVQLVDLDTL A SDVVSLHCPLTAENKHMINAQSLARMKDGAILVNTARGGLIDE Sbjct: 181 EAPQGVQLVDLDTLFAQSDVVSLHCPLTAENKHMINAQSLARMKDGAILVNTARGGLIDE 240 Query: 241 QALIAALGSGKLLAAGLDSFEKEPFAAPHPLQQVGNAILSPHIGGVTTDAYIAMGTGAAS 300 QALIAAL SGKL AAGLDSFEKEPF APHPLQ+VGNA+LSPHIGGVT+DAYIAMGTGAAS Sbjct: 241 QALIAALDSGKLRAAGLDSFEKEPFTAPHPLQRVGNAVLSPHIGGVTSDAYIAMGTGAAS 300 Query: 301 NVLAVL 306 NVLAVL Sbjct: 301 NVLAVL 306 >gi|300310960|ref|YP_003775052.1| dehydrogenase oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 326 Score = 151 bits (381), Expect = 8e-38, Method: Compositional matrix adjust. Identities = 93/262 (35%), Positives = 141/262 (53%), Gaps = 11/262 (4%) Query: 60 VSARVMDASPALRVISKHGTGIDTIDSQAAQQRGIVVKAAAGANAPAVAEHTWALIMACA 119 V+A + A+P L+ + G + ID AA Q G++ A+ WAL+MA A Sbjct: 57 VTAALFAANPQLKAVCNMAVGYNNIDVAAATQAGVMATNTPDVLNETTADFGWALMMAAA 116 Query: 120 KNVVGLDRRMRDGHWDKSTHKSL---ELKGRTLGLVGLGAIGRRVAAVAVALEMPVLAYD 176 + + + +R G W K ++ S ++ G TLG++G+G IG+ +A ++ +M VL Y Sbjct: 117 RRITESEHFLRAGKWKKWSYDSFVGPDIHGATLGIIGMGRIGQAIARRSLGFDMQVL-YH 175 Query: 177 PYAKEAPQ------GVQLVDLDTLLAGSDVVSLHCPLTAENKHMINAQSLARMKDGAILV 230 ++ AP+ + V + LL +D V L P + + H I A LA MK A L Sbjct: 176 NRSRLAPELEARANHARYVSKEELLRQADHVILVLPYSKDTHHTIAAAELALMKPTATLT 235 Query: 231 NTARGGLIDEQALIAALGSGKLLAAGLDSFEKEPFAAPHPLQQVGNAILSPHIGGVTTDA 290 N ARGG++D+ ALIAAL G++ AAG+D FE EP P L + N +L+PHI +T Sbjct: 236 NIARGGIVDDAALIAALREGRIAAAGVDVFENEPAFKPEFL-DLSNVVLTPHIASASTPT 294 Query: 291 YIAMGTGAASNVLAVLNTQAQP 312 +AM AA N++A L+ Q P Sbjct: 295 RLAMANCAADNLIAALSGQRPP 316 >gi|300310832|ref|YP_003774924.1| D-isomer specific 2-hydroxyacid dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 319 Score = 150 bits (378), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 93/258 (36%), Positives = 142/258 (55%), Gaps = 9/258 (3%) Query: 60 VSARVMDASPALRVISKHGTGIDTIDSQAAQQRGIVVKAAAGANAPAVAEHTWALIMACA 119 ++ +++A+P L+++S G+D D +QRG+++ G A A+ +ALI+A A Sbjct: 56 ITNAMLEAAPQLKIVSTISVGVDNFDLDYFRQRGLMLAHTPGVLTEATADTIFALILASA 115 Query: 120 KNVVGLDRRMRDGHWDKSTHKS---LELKGRTLGLVGLGAIGRRVAAVAV-ALEMPVLAY 175 + VV L ++ G W S ++ + + G+TLGL+G+G IG VA A MP+L + Sbjct: 116 RRVVELAEYVKAGRWKGSIGEAQFGVNVHGKTLGLIGMGRIGSAVARRAHHGFGMPILYH 175 Query: 176 ----DPYAKEAPQGVQLVDLDTLLAGSDVVSLHCPLTAENKHMINAQSLARMKDGAILVN 231 DP A E G + V + LLA +D V + PLT + + M A A MK AI +N Sbjct: 176 NRRPDPEA-ERELGARYVSKEDLLAQADFVCVMLPLTPQTERMFGAPEFALMKRSAIFIN 234 Query: 232 TARGGLIDEQALIAALGSGKLLAAGLDSFEKEPFAAPHPLQQVGNAILSPHIGGVTTDAY 291 +RG ++DE ALIAAL + AGLD FE EP PL ++ N + PHIG T + Sbjct: 235 ASRGRIVDEAALIAALQDKTIHGAGLDVFEVEPLPLQSPLLKLPNVVALPHIGSATHETR 294 Query: 292 IAMGTGAASNVLAVLNTQ 309 +AM A +N++A L + Sbjct: 295 LAMAELAVTNLIAGLRGE 312 >gi|300311988|ref|YP_003776080.1| D-3-phosphoglycerate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 310 Score = 143 bits (360), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 87/266 (32%), Positives = 144/266 (54%), Gaps = 5/266 (1%) Query: 27 YQLVYAGAKPTEDDLVQLAQQHQPVAIIVRYG--GVSARVMDASPALRVISKHGTGIDTI 84 Y ++YA + D+++ A + VA+++ G G++A M A P L+++ G G + + Sbjct: 23 YDILYAPDRQRRDEMI--AGPARKVAVVLTNGSTGLTAEEMRALPHLQLVCTLGAGFENV 80 Query: 85 DSQAAQQRGIVVKAAAGANAPAVAEHTWALIMACAKNVVGLDRRMRDGHWDKSTHKSLEL 144 D A+ GI + AG N VA+H L++A +N+ LDR RDG W ++ +L Sbjct: 81 DVAHAEAHGIEIATGAGTNEDCVADHALGLLLAILRNIPVLDRYTRDGGWRETIPLQPQL 140 Query: 145 KGRTLGLVGLGAIGRRVAAVAVALEMPVLAYDPYAKEAPQGVQLVDLDTLLAGSDVVSLH 204 G+ +G+VG+G IG+++A A A + + + ++ D+ L +D + + Sbjct: 141 AGKRVGIVGMGNIGKKIARRAAAFDAEIAYCNRKKRDDVDYHYFPDVAQLAGWADCLIVA 200 Query: 205 CPLTAENKHMINAQSLARMKDGAILVNTARGGLIDEQALIAALGSGKLLAAGLDSFEKEP 264 P A+ +H+INA+ L + LVN RG ++D AL AAL SG+L AGLD +E EP Sbjct: 201 APGGAQTRHLINARVLEELGPQGYLVNIGRGSIVDTDALGAALSSGRLAGAGLDVYEGEP 260 Query: 265 FAAPHPLQQVGNAILSPHIGGVTTDA 290 P L + N +L+PHI G + +A Sbjct: 261 -QPPAALIALPNVVLTPHIAGWSPEA 285 >gi|300311826|ref|YP_003775918.1| D-lactate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 330 Score = 130 bits (328), Expect = 9e-32, Method: Compositional matrix adjust. Identities = 86/245 (35%), Positives = 130/245 (53%), Gaps = 8/245 (3%) Query: 43 QLAQQHQPVAIIVR--YGGVSARVMDASPALRVISKHGTGIDTIDSQAAQQRGIVVKAAA 100 QLA Q VA V GGV + A +R ++ TG + ID AA+ G+ V A Sbjct: 40 QLAAGCQAVAAFVNDDLGGVVLEKL-AELGVRFVTTRSTGFNHIDVAAARALGLTVARVA 98 Query: 101 GANAPAVAEHTWALIMACAKNVVGLDRRMRDGHWDKSTHKSLELKGRTLGLVGLGAIGRR 160 + +VAE L+ A + + R R+G+++ ++L G+T+G++G G IG Sbjct: 99 DYSPYSVAEFAVGLLQAVNRKIARASMRTREGNFELDGLMGVDLHGKTVGVIGTGKIGVL 158 Query: 161 VAAVAVALEMPVLAYDPYAKEAPQ--GVQLVDLDTLLAGSDVVSLHCPLTAENKHMINAQ 218 A + +L D + G + V+ L A SDV+SLHCPLT ++++NAQ Sbjct: 159 FARIMAGFGCQILGSDVHRNPDFDALGGRYVERTELFAASDVISLHCPLTEATRYLVNAQ 218 Query: 219 SLARMKDGAILVNTARGGLIDEQALIAALGSGKLLAAGLDSFEKEPFAAPHPLQQVGNAI 278 SLA K G ILVNT+RGGL+D +A IAAL SG+L +D +E+E A Q + + I Sbjct: 219 SLALAKPGCILVNTSRGGLVDTEAAIAALKSGRLRGLAIDVYEQE---ASLFFQDLSSTI 275 Query: 279 LSPHI 283 ++ + Sbjct: 276 ITDDV 280 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 0.317 0.132 0.373 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: 829,495 Number of extensions: 28572 Number of successful extensions: 160 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 147 Number of HSP's successfully gapped: 11 Length of query: 313 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 228 Effective length of database: 1,217,395 Effective search space: 277566060 Effective search space used: 277566060 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 130 (54.7 bits)