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= 0002.0206.p (317 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309865|ref|YP_003773957.1| D-isomer specific 2-hydroxyacid... 620 e-179 gi|300313156|ref|YP_003777248.1| D-2-hydroxyacid dehydrogenase [... 237 1e-63 gi|300311988|ref|YP_003776080.1| D-3-phosphoglycerate dehydrogen... 171 8e-44 gi|300310832|ref|YP_003774924.1| D-isomer specific 2-hydroxyacid... 137 2e-33 gi|300310960|ref|YP_003775052.1| dehydrogenase oxidoreductase [H... 128 5e-31 >gi|300309865|ref|YP_003773957.1| D-isomer specific 2-hydroxyacid dehydrogenase NAD-binding protein [Herbaspirillum seropedicae SmR1] Length = 348 Score = 620 bits (1598), Expect = e-179, Method: Compositional matrix adjust. Identities = 311/317 (98%), Positives = 312/317 (98%) Query: 1 MKRHVLQLNPILVPAINDKLESLYHMHRLFEQEDKEAYIDRHGAVIEGVITGGHTGISNA 60 MKRHVLQLNPILVPAINDKLESLYHMHRLFEQEDKEAYI RHGAVIEGVITGGHTGISNA Sbjct: 32 MKRHVLQLNPILVPAINDKLESLYHMHRLFEQEDKEAYIARHGAVIEGVITGGHTGISNA 91 Query: 61 LMDRLPALKVVAVNGVGTDAVDLSHARSKGLPVTGTFGALTEDVADLALGLMLAVSRQIC 120 LMD LPALKVVAVNGVGTDAVDL+HARSKGLPVTGTFGALTEDVADLALGLMLAVSRQIC Sbjct: 92 LMDSLPALKVVAVNGVGTDAVDLNHARSKGLPVTGTFGALTEDVADLALGLMLAVSRQIC 151 Query: 121 PGHAFVQRGDWVRHPSPTAIPLSRRLSGKRVGIVGMGKVGRAIAQRAAAFGCPIAYTDLR 180 PGHAFVQRGDWVRHPSPTAIPLSRRLSGKRVGIVGMGKVGRAIAQRAAAFGCPI YTDLR Sbjct: 152 PGHAFVQRGDWVRHPSPTAIPLSRRLSGKRVGIVGMGKVGRAIAQRAAAFGCPITYTDLR 211 Query: 181 AMEDLPYTFQAELLQLARESDVLVLAAAADKAQGIINAAVLDALGREGILINIARGKLVV 240 AMEDLPY FQ ELLQLARESDVLVLAAAADKAQGIINAAVLDALGREGILINIARGKLVV Sbjct: 212 AMEDLPYAFQPELLQLARESDVLVLAAAADKAQGIINAAVLDALGREGILINIARGKLVV 271 Query: 241 EEDLVDALQRGVIAGAGLDVFVDEPNVPAALLQMDQVVLQAHRASATVESRTAMGEMVLA 300 EEDLVDALQRGVIAGAGLDVFVDEPNVPAALLQMDQVVLQAHRASATVESRTAMGEMVLA Sbjct: 272 EEDLVDALQRGVIAGAGLDVFVDEPNVPAALLQMDQVVLQAHRASATVESRTAMGEMVLA 331 Query: 301 SLAQGLAGQRPEGSLTT 317 SLAQGLAGQRPEGSLTT Sbjct: 332 SLAQGLAGQRPEGSLTT 348 >gi|300313156|ref|YP_003777248.1| D-2-hydroxyacid dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 316 Score = 237 bits (604), Expect = 1e-63, Method: Compositional matrix adjust. Identities = 131/292 (44%), Positives = 181/292 (61%), Gaps = 6/292 (2%) Query: 18 DKLESLYHMHRLFEQEDKEAYIDRHGAVIEGVITGGHTGISNALMDRLPALKVVAVNGVG 77 D L+ Y H L Q EA + I G+ G +S M R PAL++V+V GVG Sbjct: 21 DLLQQHYTCHNLILQPHSEAELAAIAPQIRGIAANGEAKVSREFMARFPALEIVSVFGVG 80 Query: 78 TDAVDLSHARSKGLPVTGTFGALTEDVADLALGLMLAVSRQICPGHAFVQRGDWVRHPSP 137 D VD+ AR +G+ VT T L +DVADLA+ LMLA +R + F + G+W + P Sbjct: 81 YDGVDVPAARERGIHVTHTPDVLNDDVADLAMALMLATARNVVRADRFARSGEWKKGP-- 138 Query: 138 TAIPLSRRLSGKRVGIVGMGKVGRAIAQRAAAFGCPIAYTDLRAMEDLPYTFQAELLQLA 197 P + ++SG R+GIVG+G++G+AIA+RAAAF I+Y + R+ +D+PYT+ + LA Sbjct: 139 --FPFTTKVSGARLGIVGLGRIGQAIAKRAAAFDMQISYHN-RSRKDVPYTYVDSITALA 195 Query: 198 RESDVLVLAAAADK-AQGIINAAVLDALGREGILINIARGKLVVEEDLVDALQRGVIAGA 256 RE D LV+ + ++NA VL+ALG +G LIN+ARG +V E L+ AL+ GVIAGA Sbjct: 196 REVDFLVMITPGGAGTRALVNAEVLEALGPKGFLINVARGSVVDEAALIAALKTGVIAGA 255 Query: 257 GLDVFVDEPNVPAALLQMDQVVLQAHRASATVESRTAMGEMVLASLAQGLAG 308 GLDVF DEPNVPA L +D VVL H AS T+ +RTAM ++ +L +G Sbjct: 256 GLDVFADEPNVPAELAALDNVVLTPHMASGTLVTRTAMADLAFNNLQAHFSG 307 >gi|300311988|ref|YP_003776080.1| D-3-phosphoglycerate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 310 Score = 171 bits (433), Expect = 8e-44, Method: Compositional matrix adjust. Identities = 106/264 (40%), Positives = 153/264 (57%), Gaps = 6/264 (2%) Query: 49 VITGGHTGISNALMDRLPALKVVAVNGVGTDAVDLSHARSKGLPVTGTFGALTEDVADLA 108 V+T G TG++ M LP L++V G G + VD++HA + G+ + G + VAD A Sbjct: 48 VLTNGSTGLTAEEMRALPHLQLVCTLGAGFENVDVAHAEAHGIEIATGAGTNEDCVADHA 107 Query: 109 LGLMLAVSRQICPGHAFVQRGDWVRHPSPTAIPLSRRLSGKRVGIVGMGKVGRAIAQRAA 168 LGL+LA+ R I + + G W IPL +L+GKRVGIVGMG +G+ IA+RAA Sbjct: 108 LGLLLAILRNIPVLDRYTRDGGWRE-----TIPLQPQLAGKRVGIVGMGNIGKKIARRAA 162 Query: 169 AFGCPIAYTDLRAMEDLPYTFQAELLQLARESDVLVLAAAAD-KAQGIINAAVLDALGRE 227 AF IAY + + +D+ Y + ++ QLA +D L++AA + + +INA VL+ LG + Sbjct: 163 AFDAEIAYCNRKKRDDVDYHYFPDVAQLAGWADCLIVAAPGGAQTRHLINARVLEELGPQ 222 Query: 228 GILINIARGKLVVEEDLVDALQRGVIAGAGLDVFVDEPNVPAALLQMDQVVLQAHRASAT 287 G L+NI RG +V + L AL G +AGAGLDV+ EP PAAL+ + VVL H A + Sbjct: 223 GYLVNIGRGSIVDTDALGAALSSGRLAGAGLDVYEGEPQPPAALIALPNVVLTPHIAGWS 282 Query: 288 VESRTAMGEMVLASLAQGLAGQRP 311 E+ A L + + A P Sbjct: 283 PEAIRASVTQFLRNCEEHFAAAEP 306 >gi|300310832|ref|YP_003774924.1| D-isomer specific 2-hydroxyacid dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 319 Score = 137 bits (344), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 94/266 (35%), Positives = 142/266 (53%), Gaps = 8/266 (3%) Query: 50 ITGGHTGISNALMDRLPALKVVAVNGVGTDAVDLSHARSKGLPVTGTFGALTEDVADLAL 109 + G I+NA+++ P LK+V+ VG D DL + R +GL + T G LTE AD Sbjct: 49 MIGASLPITNAMLEAAPQLKIVSTISVGVDNFDLDYFRQRGLMLAHTPGVLTEATADTIF 108 Query: 110 GLMLAVSRQICPGHAFVQRGDWVRHPSPTAIPLSRRLSGKRVGIVGMGKVGRAIAQRA-A 168 L+LA +R++ +V+ G W S + GK +G++GMG++G A+A+RA Sbjct: 109 ALILASARRVVELAEYVKAGRW--KGSIGEAQFGVNVHGKTLGLIGMGRIGSAVARRAHH 166 Query: 169 AFGCPIAYTDLR----AMEDLPYTFQAELLQLARESDVLVLAAAADKAQGIINAAVLDAL 224 FG PI Y + R A +L + ++ LA+ V V+ + + + A + Sbjct: 167 GFGMPILYHNRRPDPEAERELGARYVSKEDLLAQADFVCVMLPLTPQTERMFGAPEFALM 226 Query: 225 GREGILINIARGKLVVEEDLVDALQRGVIAGAGLDVFVDEP-NVPAALLQMDQVVLQAHR 283 R I IN +RG++V E L+ ALQ I GAGLDVF EP + + LL++ VV H Sbjct: 227 KRSAIFINASRGRIVDEAALIAALQDKTIHGAGLDVFEVEPLPLQSPLLKLPNVVALPHI 286 Query: 284 ASATVESRTAMGEMVLASLAQGLAGQ 309 SAT E+R AM E+ + +L GL G+ Sbjct: 287 GSATHETRLAMAELAVTNLIAGLRGE 312 >gi|300310960|ref|YP_003775052.1| dehydrogenase oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 326 Score = 128 bits (322), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 94/280 (33%), Positives = 139/280 (49%), Gaps = 16/280 (5%) Query: 47 EGVITGGHTGISNALMDRLPALKVVAVNGVGTDAVDLSHARSKGLPVTGTFGALTEDVAD 106 +G+ T ++ AL P LK V VG + +D++ A G+ T T L E AD Sbjct: 47 DGLFTTPSEPVTAALFAANPQLKAVCNMAVGYNNIDVAAATQAGVMATNTPDVLNETTAD 106 Query: 107 LALGLMLAVSRQICPGHAFVQRGDWVRHPSPTAIPLSRRLSGKRVGIVGMGKVGRAIAQR 166 LM+A +R+I F++ G W + + + + G +GI+GMG++G+AIA+R Sbjct: 107 FGWALMMAAARRITESEHFLRAGKWKKWSYDSFV--GPDIHGATLGIIGMGRIGQAIARR 164 Query: 167 AAAFGCPIAYTDL-RAMEDLP-------YTFQAELLQLARESD--VLVLAAAADKAQGII 216 + F + Y + R +L Y + ELL R++D +LVL + D I Sbjct: 165 SLGFDMQVLYHNRSRLAPELEARANHARYVSKEELL---RQADHVILVLPYSKD-THHTI 220 Query: 217 NAAVLDALGREGILINIARGKLVVEEDLVDALQRGVIAGAGLDVFVDEPNVPAALLQMDQ 276 AA L + L NIARG +V + L+ AL+ G IA AG+DVF +EP L + Sbjct: 221 AAAELALMKPTATLTNIARGGIVDDAALIAALREGRIAAAGVDVFENEPAFKPEFLDLSN 280 Query: 277 VVLQAHRASATVESRTAMGEMVLASLAQGLAGQRPEGSLT 316 VVL H ASA+ +R AM +L L+GQRP L Sbjct: 281 VVLTPHIASASTPTRLAMANCAADNLIAALSGQRPPNLLN 320 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 0.136 0.385 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: 1,001,505 Number of extensions: 43809 Number of successful extensions: 225 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 206 Number of HSP's successfully gapped: 11 Length of query: 317 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 232 Effective length of database: 1,217,395 Effective search space: 282435640 Effective search space used: 282435640 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: 130 (54.7 bits)