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= 0001.0929.p (308 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310460|ref|YP_003774552.1| D-3-phosphoglycerate dehydrogen... 566 e-163 gi|300311801|ref|YP_003775893.1| D-isomer specific 2-hydroxyacid... 151 8e-38 gi|300310832|ref|YP_003774924.1| D-isomer specific 2-hydroxyacid... 82 8e-17 gi|300310960|ref|YP_003775052.1| dehydrogenase oxidoreductase [H... 76 3e-15 gi|300313735|ref|YP_003777827.1| D-3-phosphoglycerate dehydrogen... 75 7e-15 >gi|300310460|ref|YP_003774552.1| D-3-phosphoglycerate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 308 Score = 567 bits (1460), Expect = e-163, Method: Compositional matrix adjust. Identities = 274/308 (88%), Positives = 294/308 (95%) Query: 1 MTFLYKADPVRGAEWAQLFAQKAPELPFQIWPHEGDGTSVRYLAAWTPPEDIAQRFPNLE 60 MTFLYKADPVRGAEWAQLFAQKAPELPFQIWPH+GDG SVRYLAAWTPP+DIA+RFP LE Sbjct: 1 MTFLYKADPVRGAEWAQLFAQKAPELPFQIWPHDGDGASVRYLAAWTPPDDIAERFPKLE 60 Query: 61 ILFSVGAGIDQFDMSILPPELPVVRMTEPGIVAGMVQYVTHAVLGLHREARLYARQQRQQ 120 ILFSVGAGIDQFDMS LPP LPVVRMTEPGI AGMVQYVTHAVLGLHR++R+YARQQR Q Sbjct: 61 ILFSVGAGIDQFDMSTLPPALPVVRMTEPGIAAGMVQYVTHAVLGLHRDSRVYARQQRDQ 120 Query: 121 VWQAHRVRPASACRVGVLGLGMLGRAVLQQLQGLGFPCAGWSRSAHQLEGITCYSGSAGL 180 VW+AHRVRPASACRVGVLGLGMLGRAVLQQL GLGFPCAGWSRSAHQ++GI CYSGSAGL Sbjct: 121 VWRAHRVRPASACRVGVLGLGMLGRAVLQQLHGLGFPCAGWSRSAHQMDGIDCYSGSAGL 180 Query: 181 RDFLARTDVLVCLLPLTDDTRGLLCRELFAQLPRGAALVNVGRGGHLVEDDLLAALQEGQ 240 R FLARTDVLVCL+PLT++TRGLLCR+LFAQLPRGAAL+NVGRGGHLVEDDLLAAL +GQ Sbjct: 181 RAFLARTDVLVCLVPLTEETRGLLCRDLFAQLPRGAALINVGRGGHLVEDDLLAALNDGQ 240 Query: 241 LSAAVLDVCQTEPLPADHPFWSHPDIVLTPHIASMTQPDGAVDAVLENLRRHQAGLPLLG 300 LSAAVLDVC+ EPLP HPFW+HPDIVLTPHIASMTQPDGAVDAVLENLRR++ GLPLLG Sbjct: 241 LSAAVLDVCEVEPLPPGHPFWTHPDIVLTPHIASMTQPDGAVDAVLENLRRYREGLPLLG 300 Query: 301 LVDRQRGY 308 L+DRQRGY Sbjct: 301 LIDRQRGY 308 >gi|300311801|ref|YP_003775893.1| D-isomer specific 2-hydroxyacid dehydrogenase NAD-binding protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 151 bits (381), Expect = 8e-38, Method: Compositional matrix adjust. Identities = 106/255 (41%), Positives = 143/255 (56%) Query: 54 QRFPNLEILFSVGAGIDQFDMSILPPELPVVRMTEPGIVAGMVQYVTHAVLGLHREARLY 113 +R PNL + SV AG+++ + +L + R+ +P + A M + V L LHR+ LY Sbjct: 65 KRMPNLLWVHSVWAGVERLVADLGQSDLQLTRLVDPRLAATMAEAVLAWTLYLHRDMPLY 124 Query: 114 ARQQRQQVWQAHRVRPASACRVGVLGLGMLGRAVLQQLQGLGFPCAGWSRSAHQLEGITC 173 AR+QR+ W+A RV +LGLG LG A L+ F GWSRSA + EG+ Sbjct: 125 ARRQREHHWEAQPYVLPEQRRVSLLGLGALGEAAAAALRQARFAVNGWSRSAREAEGVQT 184 Query: 174 YSGSAGLRDFLARTDVLVCLLPLTDDTRGLLCRELFAQLPRGAALVNVGRGGHLVEDDLL 233 + G AGL LA+TD+LVCLLPLT +TRGL+ A LP A L+N RG + + L Sbjct: 185 FHGPAGLAQMLAQTDILVCLLPLTAETRGLIDAAHLAMLPPQAQLINFARGPIIDDAALK 244 Query: 234 AALQEGQLSAAVLDVCQTEPLPADHPFWSHPDIVLTPHIASMTQPDGAVDAVLENLRRHQ 293 AAL GQL AVLDV EPLP WSHP + + PH ++ T A V N+RR++ Sbjct: 245 AALDAGQLRHAVLDVFAVEPLPPAAWPWSHPAVTVLPHCSAPTDRQTASAIVAANIRRYR 304 Query: 294 AGLPLLGLVDRQRGY 308 + VD +RGY Sbjct: 305 HSGEIAANVDLRRGY 319 >gi|300310832|ref|YP_003774924.1| D-isomer specific 2-hydroxyacid dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 319 Score = 81.6 bits (200), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 61/227 (26%), Positives = 95/227 (41%), Gaps = 6/227 (2%) Query: 57 PNLEILFSVGAGIDQFDMSILPPELPVVRMTEPGIVAGMVQYVTHAVLGLHREARLYARQ 116 P L+I+ ++ G+D FD+ ++ T + + +L R A Sbjct: 65 PQLKIVSTISVGVDNFDLDYFRQRGLMLAHTPGVLTEATADTIFALILASARRVVELAEY 124 Query: 117 QRQQVWQAHRVRPASACRV-----GVLGLGMLGRAVLQQLQ-GLGFPCAGWSRSAHQLEG 170 + W+ V G++G+G +G AV ++ G G P +R Sbjct: 125 VKAGRWKGSIGEAQFGVNVHGKTLGLIGMGRIGSAVARRAHHGFGMPILYHNRRPDPEAE 184 Query: 171 ITCYSGSAGLRDFLARTDVLVCLLPLTDDTRGLLCRELFAQLPRGAALVNVGRGGHLVED 230 + D LA+ D + +LPLT T + FA + R A +N RG + E Sbjct: 185 RELGARYVSKEDLLAQADFVCVMLPLTPQTERMFGAPEFALMKRSAIFINASRGRIVDEA 244 Query: 231 DLLAALQEGQLSAAVLDVCQTEPLPADHPFWSHPDIVLTPHIASMTQ 277 L+AALQ+ + A LDV + EPLP P P++V PHI S T Sbjct: 245 ALIAALQDKTIHGAGLDVFEVEPLPLQSPLLKLPNVVALPHIGSATH 291 >gi|300310960|ref|YP_003775052.1| dehydrogenase oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 326 Score = 76.3 bits (186), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 48/147 (32%), Positives = 82/147 (55%), Gaps = 5/147 (3%) Query: 135 VGVLGLGMLGRAVLQQLQGLGFPCAGWSRS--AHQLEGITCYSGSAGLRDFLARTDVLVC 192 +G++G+G +G+A+ ++ G +RS A +LE ++ + L + D ++ Sbjct: 149 LGIIGMGRIGQAIARRSLGFDMQVLYHNRSRLAPELEARANHARYVSKEELLRQADHVIL 208 Query: 193 LLPLTDDTRGLLCRELFAQLPRGAALVNVGRGGHLVEDDLLAALQEGQLSAAVLDVCQTE 252 +LP + DT + A + A L N+ RGG + + L+AAL+EG+++AA +DV + E Sbjct: 209 VLPYSKDTHHTIAAAELALMKPTATLTNIARGGIVDDAALIAALREGRIAAAGVDVFENE 268 Query: 253 PLPADHP-FWSHPDIVLTPHIASMTQP 278 PA P F ++VLTPHIAS + P Sbjct: 269 --PAFKPEFLDLSNVVLTPHIASASTP 293 >gi|300313735|ref|YP_003777827.1| D-3-phosphoglycerate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 308 Score = 75.1 bits (183), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 53/166 (31%), Positives = 81/166 (48%), Gaps = 7/166 (4%) Query: 115 RQQRQQVW--QAHRVRPASACRVGVLGLGMLGRAVLQQLQGLGFPCAGWSRSAHQL-EGI 171 ++ R+ W H+ +G++GLG +GR V LG P A + +G+ Sbjct: 127 QRMREGHWDKSTHKSLELQGRTLGLVGLGAIGRRVAAVAAALGMPVLAHDPYAKEAPQGV 186 Query: 172 TCYSGSAGLRDFLARTDVLVCLLPLTDDTRGLLCRELFAQLPRGAALVNVGRGGHLVEDD 231 L A++DV+ PLT + + ++ + A++ GA LVN RGG + E Sbjct: 187 QLVD----LDTLFAQSDVVSLHCPLTAENKHMINAQSLARMKDGAILVNTARGGLIDEQA 242 Query: 232 LLAALQEGQLSAAVLDVCQTEPLPADHPFWSHPDIVLTPHIASMTQ 277 L+AAL G+L AA LD + EP A HP + VL+PHI +T Sbjct: 243 LIAALDSGKLRAAGLDSFEKEPFTAPHPLQRVGNAVLSPHIGGVTS 288 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 0.324 0.140 0.441 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: 1,078,407 Number of extensions: 48082 Number of successful extensions: 148 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 142 Number of HSP's successfully gapped: 10 Length of query: 308 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 223 Effective length of database: 1,217,395 Effective search space: 271479085 Effective search space used: 271479085 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 130 (54.7 bits)