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= 0001.0036.p (325 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311988|ref|YP_003776080.1| D-3-phosphoglycerate dehydrogen... 625 e-180 gi|300313156|ref|YP_003777248.1| D-2-hydroxyacid dehydrogenase [... 219 3e-58 gi|300309865|ref|YP_003773957.1| D-isomer specific 2-hydroxyacid... 171 1e-43 gi|300310960|ref|YP_003775052.1| dehydrogenase oxidoreductase [H... 147 1e-36 gi|300310832|ref|YP_003774924.1| D-isomer specific 2-hydroxyacid... 123 2e-29 >gi|300311988|ref|YP_003776080.1| D-3-phosphoglycerate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 310 Score = 625 bits (1611), Expect = e-180, Method: Compositional matrix adjust. Identities = 309/310 (99%), Positives = 309/310 (99%) Query: 16 MKPPLLVLIHLSEESTATIAAHYDILYAPDRQRRDEMIAGPARKVAVVLTNGSTGLTAEE 75 MKPPLLVLIHLSEESTATIAAHYDILYAPDRQRRDEMIAGPARKVAVVLTNGSTGLTAEE Sbjct: 1 MKPPLLVLIHLSEESTATIAAHYDILYAPDRQRRDEMIAGPARKVAVVLTNGSTGLTAEE 60 Query: 76 MRALPHLQLVCTLGAGFENVDVAHAEAHGIEIATGAGTNEDCVADHTLGLLLAILRNIPV 135 MRALPHLQLVCTLGAGFENVDVAHAEAHGIEIATGAGTNEDCVADH LGLLLAILRNIPV Sbjct: 61 MRALPHLQLVCTLGAGFENVDVAHAEAHGIEIATGAGTNEDCVADHALGLLLAILRNIPV 120 Query: 136 LDRYTRDGGWRETIPLQPQLAGKRVGIVGMGNIGKKIARRAAAFDAEIAYCNRKKRDDVD 195 LDRYTRDGGWRETIPLQPQLAGKRVGIVGMGNIGKKIARRAAAFDAEIAYCNRKKRDDVD Sbjct: 121 LDRYTRDGGWRETIPLQPQLAGKRVGIVGMGNIGKKIARRAAAFDAEIAYCNRKKRDDVD 180 Query: 196 YHYFPDVAQLAGWADCLIVAAPGGAQTRHLINARVLEELGPQGYLVNIGRGSIVDTDALG 255 YHYFPDVAQLAGWADCLIVAAPGGAQTRHLINARVLEELGPQGYLVNIGRGSIVDTDALG Sbjct: 181 YHYFPDVAQLAGWADCLIVAAPGGAQTRHLINARVLEELGPQGYLVNIGRGSIVDTDALG 240 Query: 256 AALSSGRLAGAGLDVYEGEPQPPAALIALPNVVLTPHIAGWSPEAIRASVTQFLRNCEEH 315 AALSSGRLAGAGLDVYEGEPQPPAALIALPNVVLTPHIAGWSPEAIRASVTQFLRNCEEH Sbjct: 241 AALSSGRLAGAGLDVYEGEPQPPAALIALPNVVLTPHIAGWSPEAIRASVTQFLRNCEEH 300 Query: 316 FAAAEPVLRA 325 FAAAEPVLRA Sbjct: 301 FAAAEPVLRA 310 >gi|300313156|ref|YP_003777248.1| D-2-hydroxyacid dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 316 Score = 219 bits (557), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 126/307 (41%), Positives = 175/307 (57%), Gaps = 8/307 (2%) Query: 17 KPPLLVLIHLSEESTATIAAHY---DILYAPDRQRRDEMIAGPARKVAVVLTNGSTGLTA 73 +P +L++ L + + HY +++ P + IA R +A NG ++ Sbjct: 6 RPHVLIVARLPQHLLDLLQQHYTCHNLILQPHSEAELAAIAPQIRGIA---ANGEAKVSR 62 Query: 74 EEMRALPHLQLVCTLGAGFENVDVAHAEAHGIEIATGAGTNEDCVADHTLGLLLAILRNI 133 E M P L++V G G++ VDV A GI + D VAD + L+LA RN+ Sbjct: 63 EFMARFPALEIVSVFGVGYDGVDVPAARERGIHVTHTPDVLNDDVADLAMALMLATARNV 122 Query: 134 PVLDRYTRDGGWRE-TIPLQPQLAGKRVGIVGMGNIGKKIARRAAAFDAEIAYCNRKKRD 192 DR+ R G W++ P +++G R+GIVG+G IG+ IA+RAAAFD +I+Y NR R Sbjct: 123 VRADRFARSGEWKKGPFPFTTKVSGARLGIVGLGRIGQAIAKRAAAFDMQISYHNRS-RK 181 Query: 193 DVDYHYFPDVAQLAGWADCLIVAAPGGAQTRHLINARVLEELGPQGYLVNIGRGSIVDTD 252 DV Y Y + LA D L++ PGGA TR L+NA VLE LGP+G+L+N+ RGS+VD Sbjct: 182 DVPYTYVDSITALAREVDFLVMITPGGAGTRALVNAEVLEALGPKGFLINVARGSVVDEA 241 Query: 253 ALGAALSSGRLAGAGLDVYEGEPQPPAALIALPNVVLTPHIAGWSPEAIRASVTQFLRNC 312 AL AAL +G +AGAGLDV+ EP PA L AL NVVLTPH+A + A N Sbjct: 242 ALIAALKTGVIAGAGLDVFADEPNVPAELAALDNVVLTPHMASGTLVTRTAMADLAFNNL 301 Query: 313 EEHFAAA 319 + HF+ A Sbjct: 302 QAHFSGA 308 >gi|300309865|ref|YP_003773957.1| D-isomer specific 2-hydroxyacid dehydrogenase NAD-binding protein [Herbaspirillum seropedicae SmR1] Length = 348 Score = 171 bits (432), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 105/264 (39%), Positives = 152/264 (57%), Gaps = 6/264 (2%) Query: 63 VLTNGSTGLTAEEMRALPHLQLVCTLGAGFENVDVAHAEAHGIEIATGAGTNEDCVADHT 122 V+T G TG++ M +LP L++V G G + VD+ HA + G+ + G + VAD Sbjct: 80 VITGGHTGISNALMDSLPALKVVAVNGVGTDAVDLNHARSKGLPVTGTFGALTEDVADLA 139 Query: 123 LGLLLAILRNIPVLDRYTRDGGWRE-----TIPLQPQLAGKRVGIVGMGNIGKKIARRAA 177 LGL+LA+ R I + + G W IPL +L+GKRVGIVGMG +G+ IA+RAA Sbjct: 140 LGLMLAVSRQICPGHAFVQRGDWVRHPSPTAIPLSRRLSGKRVGIVGMGKVGRAIAQRAA 199 Query: 178 AFDAEIAYCNRKKRDDVDYHYFPDVAQLAGWADCLIVAAPGGAQTRHLINARVLEELGPQ 237 AF I Y + + +D+ Y + P++ QLA +D L++AA + + +INA VL+ LG + Sbjct: 200 AFGCPITYTDLRAMEDLPYAFQPELLQLARESDVLVLAAAAD-KAQGIINAAVLDALGRE 258 Query: 238 GYLVNIGRGSIVDTDALGAALSSGRLAGAGLDVYEGEPQPPAALIALPNVVLTPHIAGWS 297 G L+NI RG +V + L AL G +AGAGLDV+ EP PAAL+ + VVL H A + Sbjct: 259 GILINIARGKLVVEEDLVDALQRGVIAGAGLDVFVDEPNVPAALLQMDQVVLQAHRASAT 318 Query: 298 PEAIRASVTQFLRNCEEHFAAAEP 321 E+ A L + + A P Sbjct: 319 VESRTAMGEMVLASLAQGLAGQRP 342 >gi|300310960|ref|YP_003775052.1| dehydrogenase oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 326 Score = 147 bits (371), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 98/291 (33%), Positives = 140/291 (48%), Gaps = 9/291 (3%) Query: 16 MKPPLLVLIHLSEESTATIAAHYDI-LYAPDRQRRDEMIAGPARKVAVVLTNGSTGLTAE 74 MKP + V + E A + H+++ DR + A+ + T S +TA Sbjct: 1 MKPKIFVARAVFPEVLARLEQHFEVESNQDDRIYSAAELQAKAQGKDGLFTTPSEPVTAA 60 Query: 75 EMRALPHLQLVCTLGAGFENVDVAHAEAHGIEIATGAGTNEDCVADHTLGLLLAILRNIP 134 A P L+ VC + G+ N+DVA A G+ + AD L++A R I Sbjct: 61 LFAANPQLKAVCNMAVGYNNIDVAAATQAGVMATNTPDVLNETTADFGWALMMAAARRIT 120 Query: 135 VLDRYTRDGGWRE---TIPLQPQLAGKRVGIVGMGNIGKKIARRAAAFDAEIAYCNRKK- 190 + + R G W++ + P + G +GI+GMG IG+ IARR+ FD ++ Y NR + Sbjct: 121 ESEHFLRAGKWKKWSYDSFVGPDIHGATLGIIGMGRIGQAIARRSLGFDMQVLYHNRSRL 180 Query: 191 ----RDDVDYHYFPDVAQLAGWADCLIVAAPGGAQTRHLINARVLEELGPQGYLVNIGRG 246 ++ + +L AD +I+ P T H I A L + P L NI RG Sbjct: 181 APELEARANHARYVSKEELLRQADHVILVLPYSKDTHHTIAAAELALMKPTATLTNIARG 240 Query: 247 SIVDTDALGAALSSGRLAGAGLDVYEGEPQPPAALIALPNVVLTPHIAGWS 297 IVD AL AAL GR+A AG+DV+E EP + L NVVLTPHIA S Sbjct: 241 GIVDDAALIAALREGRIAAAGVDVFENEPAFKPEFLDLSNVVLTPHIASAS 291 >gi|300310832|ref|YP_003774924.1| D-isomer specific 2-hydroxyacid dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 319 Score = 123 bits (308), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 96/295 (32%), Positives = 136/295 (46%), Gaps = 14/295 (4%) Query: 16 MKPPLLVLIHLSEESTATIAAHYDILYAPDR---QRRDEMIAGPARKVAVVLTNGSTGLT 72 MKP ++V L E + A +D L DR R + IA A A + S +T Sbjct: 1 MKPHVVVYKKLPEHLVQRLQAEFD-LTLFDRITDDNRADFIAALA--TAHGMIGASLPIT 57 Query: 73 AEEMRALPHLQLVCTLGAGFENVDVAHAEAHGIEIATGAGTNEDCVADHTLGLLLAILRN 132 + A P L++V T+ G +N D+ + G+ +A G + AD L+LA R Sbjct: 58 NAMLEAAPQLKIVSTISVGVDNFDLDYFRQRGLMLAHTPGVLTEATADTIFALILASARR 117 Query: 133 IPVLDRYTRDGGWRETI---PLQPQLAGKRVGIVGMGNIGKKIARRA-AAFDAEIAYCNR 188 + L Y + G W+ +I + GK +G++GMG IG +ARRA F I Y NR Sbjct: 118 VVELAEYVKAGRWKGSIGEAQFGVNVHGKTLGLIGMGRIGSAVARRAHHGFGMPILYHNR 177 Query: 189 KKRDDVDYHY---FPDVAQLAGWADCLIVAAPGGAQTRHLINARVLEELGPQGYLVNIGR 245 + + + + L AD + V P QT + A + +N R Sbjct: 178 RPDPEAERELGARYVSKEDLLAQADFVCVMLPLTPQTERMFGAPEFALMKRSAIFINASR 237 Query: 246 GSIVDTDALGAALSSGRLAGAGLDVYEGEPQP-PAALIALPNVVLTPHIAGWSPE 299 G IVD AL AAL + GAGLDV+E EP P + L+ LPNVV PHI + E Sbjct: 238 GRIVDEAALIAALQDKTIHGAGLDVFEVEPLPLQSPLLKLPNVVALPHIGSATHE 292 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 0.137 0.413 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: 1,051,539 Number of extensions: 43805 Number of successful extensions: 203 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 182 Number of HSP's successfully gapped: 11 Length of query: 325 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 240 Effective length of database: 1,217,395 Effective search space: 292174800 Effective search space used: 292174800 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: 131 (55.1 bits)