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= 0022.0206.p (320 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... 200 1e-52 gi|300311801|ref|YP_003775893.1| D-isomer specific 2-hydroxyacid... 132 3e-32 gi|300311988|ref|YP_003776080.1| D-3-phosphoglycerate dehydrogen... 92 5e-20 gi|300313156|ref|YP_003777248.1| D-2-hydroxyacid dehydrogenase [... 80 2e-16 gi|300310832|ref|YP_003774924.1| D-isomer specific 2-hydroxyacid... 72 8e-14 >gi|300310460|ref|YP_003774552.1| D-3-phosphoglycerate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 308 Score = 200 bits (509), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 122/301 (40%), Positives = 162/301 (53%), Gaps = 6/301 (1%) Query: 21 AEWRASFHEFAPGLGLDVRAWDDPEVDPARVQFVLVWQPEAGRLAQFPNLKAIISAAAGV 80 AEW F + AP L + D D A V+++ W P +FP L+ + S AG+ Sbjct: 13 AEWAQLFAQKAPELPFQIWPHDG---DGASVRYLAAWTPPDDIAERFPKLEILFSVGAGI 69 Query: 81 DHILADPHLPELPIVRMVTPETQQRMAEFTLMSSLMLLKDMPRIIAQQMRAE-WREFSTP 139 D P LP+VRM P M ++ + L L +D R+ A+Q R + WR Sbjct: 70 DQFDMSTLPPALPVVRMTEPGIAAGMVQYVTHAVLGLHRD-SRVYARQQRDQVWRAHRV- 127 Query: 140 RTARETRVGVLGLGALGLSAARMHAAVGFETAGWARSPRSEKGLACFAGADALPDFLGRT 199 R A RVGVLGLG LG + + +GF AGW+RS G+ C++G+ L FL RT Sbjct: 128 RPASACRVGVLGLGMLGRAVLQQLHGLGFPCAGWSRSAHQMDGIDCYSGSAGLRAFLART 187 Query: 200 DILICLLPETTDTRHLINADLLRQLPRGAAVINVGRGSHVCLTDLLAALDSGHLSGAVLD 259 D+L+CL+P T +TR L+ DL QLPRGAA+INVGRG H+ DLLAAL+ G LS AVLD Sbjct: 188 DVLVCLVPLTEETRGLLCRDLFAQLPRGAALINVGRGGHLVEDDLLAALNDGQLSAAVLD 247 Query: 260 VFDEEPLPAEAAVWRHPRVLVTPHAAATPSRRERARQAAVAIAAMLGGLPPPHLYDRAKG 319 V + EPLP W HP +++TPH A+ + GLP L DR +G Sbjct: 248 VCEVEPLPPGHPFWTHPDIVLTPHIASMTQPDGAVDAVLENLRRYREGLPLLGLIDRQRG 307 Query: 320 Y 320 Y Sbjct: 308 Y 308 >gi|300311801|ref|YP_003775893.1| D-isomer specific 2-hydroxyacid dehydrogenase NAD-binding protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 132 bits (333), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 110/290 (37%), Positives = 150/290 (51%), Gaps = 5/290 (1%) Query: 6 LAPVLLIKSGGAAALAEWRASFHEFAPGLG-LDVRAWDDPEVDPARVQFVLVWQPEAGRL 64 ++P+ + GA+ + +W ++ P L D ++ RV V P+ +L Sbjct: 7 ISPIAFVSQAGASEVQQWISALQAAMPEERILPCEQLDADQLAQCRVAIVA--NPDPAQL 64 Query: 65 AQFPNLKAIISAAAGVDHILADPHLPELPIVRMVTPETQQRMAEFTLMSSLMLLKDMPRI 124 + PNL + S AGV+ ++AD +L + R+V P MAE L +L L +DMP Sbjct: 65 KRMPNLLWVHSVWAGVERLVADLGQSDLQLTRLVDPRLAATMAEAVLAWTLYLHRDMPLY 124 Query: 125 IAQQMRAEWREFSTPRTARETRVGVLGLGALGLSAARMHAAVGFETAGWARSPRSEKGLA 184 +Q W E + RV +LGLGALG +AA F GW+RS R +G+ Sbjct: 125 ARRQREHHW-EAQPYVLPEQRRVSLLGLGALGEAAAAALRQARFAVNGWSRSAREAEGVQ 183 Query: 185 CFAGADALPDFLGRTDILICLLPETTDTRHLINADLLRQLPRGAAVINVGRGSHVCLTDL 244 F G L L +TDIL+CLLP T +TR LI+A L LP A +IN RG + L Sbjct: 184 TFHGPAGLAQMLAQTDILVCLLPLTAETRGLIDAAHLAMLPPQAQLINFARGPIIDDAAL 243 Query: 245 LAALDSGHLSGAVLDVFDEEPLPAEAAVWRHPRVLVTPHAAATPSRRERA 294 AALD+G L AVLDVF EPLP A W HP V V PH +A P+ R+ A Sbjct: 244 KAALDAGQLRHAVLDVFAVEPLPPAAWPWSHPAVTVLPHCSA-PTDRQTA 292 >gi|300311988|ref|YP_003776080.1| D-3-phosphoglycerate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 310 Score = 92.0 bits (227), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 85/260 (32%), Positives = 125/260 (48%), Gaps = 21/260 (8%) Query: 37 DVRAWDDPEVDPARVQFVLVWQPEAGRLAQ----FPNLKAIISAAAGVDHILADPHLPEL 92 D + D+ PAR V++ G A+ P+L+ + + AG +++ D E Sbjct: 30 DRQRRDEMIAGPARKVAVVLTNGSTGLTAEEMRALPHLQLVCTLGAGFENV--DVAHAEA 87 Query: 93 PIVRMVTP--ETQQRMAEFTLMSSLMLLKDMPRIIAQQMRAEWREFS--TPRTARETRVG 148 + + T + +A+ L L +L+++P + WRE P+ A + RVG Sbjct: 88 HGIEIATGAGTNEDCVADHALGLLLAILRNIPVLDRYTRDGGWRETIPLQPQLAGK-RVG 146 Query: 149 VLGLGALGLSAARMHAAVGFETAGWARSPRSEKGLACFAGADALPD---FLGRTDILICL 205 ++G+G +G AR AA E A R R + F PD G D LI Sbjct: 147 IVGMGNIGKKIARRAAAFDAEIAYCNRKKRDDVDYHYF------PDVAQLAGWADCLIVA 200 Query: 206 LPETTDTRHLINADLLRQLPRGAAVINVGRGSHVCLTDLLAALDSGHLSGAVLDVFDEEP 265 P TRHLINA +L +L ++N+GRGS V L AAL SG L+GA LDV++ EP Sbjct: 201 APGGAQTRHLINARVLEELGPQGYLVNIGRGSIVDTDALGAALSSGRLAGAGLDVYEGEP 260 Query: 266 LPAEAAVWRHPRVLVTPHAA 285 P AA+ P V++TPH A Sbjct: 261 QP-PAALIALPNVVLTPHIA 279 >gi|300313156|ref|YP_003777248.1| D-2-hydroxyacid dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 316 Score = 80.1 bits (196), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 69/227 (30%), Positives = 113/227 (49%), Gaps = 11/227 (4%) Query: 64 LAQFPNLKAIISAAAGVDHILADPHLPELPIVRMVTPET-QQRMAEFTLMSSLMLLKDMP 122 +A+FP L+ + G D + P E I TP+ +A+ + L +++ Sbjct: 65 MARFPALEIVSVFGVGYDGVDV-PAARERGIHVTHTPDVLNDDVADLAMALMLATARNVV 123 Query: 123 RIIAQQMRAEWREFSTPRTARET--RVGVLGLGALGLSAARMHAAVGFETAGWARSPRSE 180 R EW++ P T + + R+G++GLG +G + A+ AA + + RS + Sbjct: 124 RADRFARSGEWKKGPFPFTTKVSGARLGIVGLGRIGQAIAKRAAAFDMQISYHNRSRKD- 182 Query: 181 KGLACFAGADALPDFLGRTDILICLLPETTDTRHLINADLLRQLPRGAAVINVGRGSHVC 240 + D++ D L+ + P TR L+NA++L L +INV RGS V Sbjct: 183 ---VPYTYVDSITALAREVDFLVMITPGGAGTRALVNAEVLEALGPKGFLINVARGSVVD 239 Query: 241 LTDLLAALDSGHLSGAVLDVFDEEP-LPAEAAVWRHPRVLVTPHAAA 286 L+AAL +G ++GA LDVF +EP +PAE A + V++TPH A+ Sbjct: 240 EAALIAALKTGVIAGAGLDVFADEPNVPAELAALDN--VVLTPHMAS 284 >gi|300310832|ref|YP_003774924.1| D-isomer specific 2-hydroxyacid dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 319 Score = 71.6 bits (174), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 71/255 (27%), Positives = 107/255 (41%), Gaps = 11/255 (4%) Query: 68 PNLKAIISAAAGVDHILADPH------LPELPIVRMVTPETQQRMAEFTLMSSLMLLKDM 121 P LK + + + GVD+ D L P V +T T + L S+ +++ Sbjct: 65 PQLKIVSTISVGVDNFDLDYFRQRGLMLAHTPGV--LTEATADTIFALILASARRVVELA 122 Query: 122 PRIIAQQMRAEWREFSTPRTARETRVGVLGLGALGLSAAR-MHAAVGFETAGWARSPRSE 180 + A + + E +G++G+G +G + AR H G R P E Sbjct: 123 EYVKAGRWKGSIGEAQFGVNVHGKTLGLIGMGRIGSAVARRAHHGFGMPILYHNRRPDPE 182 Query: 181 KGLACFAGADALPDFLGRTDILICLLPETTDTRHLINADLLRQLPRGAAVINVGRGSHVC 240 A + D L + D + +LP T T + A + R A IN RG V Sbjct: 183 AERELGARYVSKEDLLAQADFVCVMLPLTPQTERMFGAPEFALMKRSAIFINASRGRIVD 242 Query: 241 LTDLLAALDSGHLSGAVLDVFDEEPLPAEAAVWRHPRVLVTPH--AAATPSRRERARQAA 298 L+AAL + GA LDVF+ EPLP ++ + + P V+ PH +A +R A A Sbjct: 243 EAALIAALQDKTIHGAGLDVFEVEPLPLQSPLLKLPNVVALPHIGSATHETRLAMAELAV 302 Query: 299 VAIAAMLGGLPPPHL 313 + A L G P HL Sbjct: 303 TNLIAGLRGEPVAHL 317 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 0.322 0.136 0.416 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: 1,063,473 Number of extensions: 44425 Number of successful extensions: 168 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 164 Number of HSP's successfully gapped: 11 Length of query: 320 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 235 Effective length of database: 1,217,395 Effective search space: 286087825 Effective search space used: 286087825 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)