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= 0001.1506.p (326 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310960|ref|YP_003775052.1| dehydrogenase oxidoreductase [H... 646 0.0 gi|300310832|ref|YP_003774924.1| D-isomer specific 2-hydroxyacid... 242 4e-65 gi|300313156|ref|YP_003777248.1| D-2-hydroxyacid dehydrogenase [... 212 4e-56 gi|300311988|ref|YP_003776080.1| D-3-phosphoglycerate dehydrogen... 149 3e-37 gi|300313735|ref|YP_003777827.1| D-3-phosphoglycerate dehydrogen... 145 4e-36 >gi|300310960|ref|YP_003775052.1| dehydrogenase oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 326 Score = 646 bits (1666), Expect = 0.0, Method: Compositional matrix adjust. Identities = 312/326 (95%), Positives = 320/326 (98%) Query: 1 MKPKIFVARAVFPEVLARLEQHFEVESNQDDRIYTADELQAKTQGKEGLFTTPSEPVTAA 60 MKPKIFVARAVFPEVLARLEQHFEVESNQDDRIY+A ELQAK QGK+GLFTTPSEPVTAA Sbjct: 1 MKPKIFVARAVFPEVLARLEQHFEVESNQDDRIYSAAELQAKAQGKDGLFTTPSEPVTAA 60 Query: 61 LLTANPQLKAVCNMAVGYNNIDLAAATQAGVMATNTPDVLNETTADFGWALMMAAARRIT 120 L ANPQLKAVCNMAVGYNNID+AAATQAGVMATNTPDVLNETTADFGWALMMAAARRIT Sbjct: 61 LFAANPQLKAVCNMAVGYNNIDVAAATQAGVMATNTPDVLNETTADFGWALMMAAARRIT 120 Query: 121 ESEHFLRAGQWKKWSYDSFVGPDIHGATLGIIGMGRIGQAIARRSLGFDMQVLYHNRSRL 180 ESEHFLRAG+WKKWSYDSFVGPDIHGATLGIIGMGRIGQAIARRSLGFDMQVLYHNRSRL Sbjct: 121 ESEHFLRAGKWKKWSYDSFVGPDIHGATLGIIGMGRIGQAIARRSLGFDMQVLYHNRSRL 180 Query: 181 APELEARANHARYVSKEELLRQADHVVLVLPYSKETHHTIAAAELALMKPTATLTNIARG 240 APELEARANHARYVSKEELLRQADHV+LVLPYSK+THHTIAAAELALMKPTATLTNIARG Sbjct: 181 APELEARANHARYVSKEELLRQADHVILVLPYSKDTHHTIAAAELALMKPTATLTNIARG 240 Query: 241 GIVDDAALIVALREGRIAAAGVDVFENEPAFKPEFLALSNVVLTPHIASASTPTRLAMAN 300 GIVDDAALI ALREGRIAAAGVDVFENEPAFKPEFL LSNVVLTPHIASASTPTRLAMAN Sbjct: 241 GIVDDAALIAALREGRIAAAGVDVFENEPAFKPEFLDLSNVVLTPHIASASTPTRLAMAN 300 Query: 301 CAADNLIAALSGRRPPNLLNPDVLKG 326 CAADNLIAALSG+RPPNLLNPDV+KG Sbjct: 301 CAADNLIAALSGQRPPNLLNPDVVKG 326 >gi|300310832|ref|YP_003774924.1| D-isomer specific 2-hydroxyacid dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 319 Score = 242 bits (617), Expect = 4e-65, Method: Compositional matrix adjust. Identities = 147/316 (46%), Positives = 195/316 (61%), Gaps = 9/316 (2%) Query: 1 MKPKIFVARAVFPEVLARLEQHFEVESNQDDRIYTAD--ELQAKTQGKEGLFTTPSEPVT 58 MKP + V + + ++ RL+ F++ DRI + + A G+ S P+T Sbjct: 1 MKPHVVVYKKLPEHLVQRLQAEFDL--TLFDRITDDNRADFIAALATAHGMIGA-SLPIT 57 Query: 59 AALLTANPQLKAVCNMAVGYNNIDLAAATQAGVMATNTPDVLNETTADFGWALMMAAARR 118 A+L A PQLK V ++VG +N DL Q G+M +TP VL E TAD +AL++A+ARR Sbjct: 58 NAMLEAAPQLKIVSTISVGVDNFDLDYFRQRGLMLAHTPGVLTEATADTIFALILASARR 117 Query: 119 ITESEHFLRAGQWKKWSYDSFVGPDIHGATLGIIGMGRIGQAIARRS-LGFDMQVLYHNR 177 + E +++AG+WK ++ G ++HG TLG+IGMGRIG A+ARR+ GF M +LYHNR Sbjct: 118 VVELAEYVKAGRWKGSIGEAQFGVNVHGKTLGLIGMGRIGSAVARRAHHGFGMPILYHNR 177 Query: 178 SRLAPELEARANHARYVSKEELLRQADHVVLVLPYSKETHHTIAAAELALMKPTATLTNI 237 R PE E R ARYVSKE+LL QAD V ++LP + +T A E ALMK +A N Sbjct: 178 -RPDPEAE-RELGARYVSKEDLLAQADFVCVMLPLTPQTERMFGAPEFALMKRSAIFINA 235 Query: 238 ARGGIVDDAALIVALREGRIAAAGVDVFENEP-AFKPEFLALSNVVLTPHIASASTPTRL 296 +RG IVD+AALI AL++ I AG+DVFE EP + L L NVV PHI SA+ TRL Sbjct: 236 SRGRIVDEAALIAALQDKTIHGAGLDVFEVEPLPLQSPLLKLPNVVALPHIGSATHETRL 295 Query: 297 AMANCAADNLIAALSG 312 AMA A NLIA L G Sbjct: 296 AMAELAVTNLIAGLRG 311 >gi|300313156|ref|YP_003777248.1| D-2-hydroxyacid dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 316 Score = 212 bits (539), Expect = 4e-56, Method: Compositional matrix adjust. Identities = 125/312 (40%), Positives = 176/312 (56%), Gaps = 11/312 (3%) Query: 2 KPKIFVARAVFPEVLARLEQHFEVESNQDDRIYTADELQAKTQGKEGLFTTPSEPVTAAL 61 +P + + + +L L+QH+ N + ++ EL A G+ V+ Sbjct: 6 RPHVLIVARLPQHLLDLLQQHYTCH-NLILQPHSEAELAAIAPQIRGIAANGEAKVSREF 64 Query: 62 LTANPQLKAVCNMAVGYNNIDLAAATQAGVMATNTPDVLNETTADFGWALMMAAARRITE 121 + P L+ V VGY+ +D+ AA + G+ T+TPDVLN+ AD ALM+A AR + Sbjct: 65 MARFPALEIVSVFGVGYDGVDVPAARERGIHVTHTPDVLNDDVADLAMALMLATARNVVR 124 Query: 122 SEHFLRAGQWKKWSYDSFVGPDIHGATLGIIGMGRIGQAIARRSLGFDMQVLYHNRSRLA 181 ++ F R+G+WKK + + GA LGI+G+GRIGQAIA+R+ FDMQ+ YHNRSR Sbjct: 125 ADRFARSGEWKKGPFP--FTTKVSGARLGIVGLGRIGQAIAKRAAAFDMQISYHNRSR-- 180 Query: 182 PELEARANHARYV-SKEELLRQADHVVLVLPYSKETHHTIAAAELALMKPTATLTNIARG 240 + YV S L R+ D +V++ P T + A L + P L N+ARG Sbjct: 181 -----KDVPYTYVDSITALAREVDFLVMITPGGAGTRALVNAEVLEALGPKGFLINVARG 235 Query: 241 GIVDDAALIVALREGRIAAAGVDVFENEPAFKPEFLALSNVVLTPHIASASTPTRLAMAN 300 +VD+AALI AL+ G IA AG+DVF +EP E AL NVVLTPH+AS + TR AMA+ Sbjct: 236 SVVDEAALIAALKTGVIAGAGLDVFADEPNVPAELAALDNVVLTPHMASGTLVTRTAMAD 295 Query: 301 CAADNLIAALSG 312 A +NL A SG Sbjct: 296 LAFNNLQAHFSG 307 >gi|300311988|ref|YP_003776080.1| D-3-phosphoglycerate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 310 Score = 149 bits (377), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 98/292 (33%), Positives = 144/292 (49%), Gaps = 11/292 (3%) Query: 1 MKPKIFVARAVFPEVLARLEQHFEVESNQDDRIYTADELQAKTQGKEGL-FTTPSEPVTA 59 MKP + V + E A + H+++ D + DE+ A K + T S +TA Sbjct: 1 MKPPLLVLIHLSEESTATIAAHYDILYAPDRQ--RRDEMIAGPARKVAVVLTNGSTGLTA 58 Query: 60 ALLTANPQLKAVCNMAVGYNNIDLAAATQAGVMATNTPDVLNETTADFGWALMMAAARRI 119 + A P L+ VC + G+ N+D+A A G+ + AD L++A R I Sbjct: 59 EEMRALPHLQLVCTLGAGFENVDVAHAEAHGIEIATGAGTNEDCVADHALGLLLAILRNI 118 Query: 120 TESEHFLRAGQWKKWSYDSFVGPDIHGATLGIIGMGRIGQAIARRSLGFDMQVLYHNRSR 179 + + R G W++ + P + G +GI+GMG IG+ IARR+ FD ++ Y NR + Sbjct: 119 PVLDRYTRDGGWRE---TIPLQPQLAGKRVGIVGMGNIGKKIARRAAAFDAEIAYCNRKK 175 Query: 180 LAPELEARANHARYVSKEELLRQADHVVLVLPYSKETHHTIAAAELALMKPTATLTNIAR 239 ++ + +L AD +++ P +T H I A L + P L NI R Sbjct: 176 -----RDDVDYHYFPDVAQLAGWADCLIVAAPGGAQTRHLINARVLEELGPQGYLVNIGR 230 Query: 240 GGIVDDAALIVALREGRIAAAGVDVFENEPAFKPEFLALSNVVLTPHIASAS 291 G IVD AL AL GR+A AG+DV+E EP +AL NVVLTPHIA S Sbjct: 231 GSIVDTDALGAALSSGRLAGAGLDVYEGEPQPPAALIALPNVVLTPHIAGWS 282 >gi|300313735|ref|YP_003777827.1| D-3-phosphoglycerate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 308 Score = 145 bits (367), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 90/256 (35%), Positives = 133/256 (51%), Gaps = 9/256 (3%) Query: 57 VTAALLTANPQLKAVCNMAVGYNNIDLAAATQAGVMATNTPDVLNETTADFGWALMMAAA 116 V+A ++ A P L+ + G ++ID AA Q G+ A+ WAL+MA A Sbjct: 60 VSARVMDAAPILRVISKHGTGIDSIDSQAAQQRGIAVKAAAGANAPAVAEHTWALIMACA 119 Query: 117 RRITESEHFLRAGQWKKWSYDSFVGPDIHGATLGIIGMGRIGQAIARRSLGFDMQVLYHN 176 + + + +R G W K ++ S ++ G TLG++G+G IG+ +A + M VL H+ Sbjct: 120 KNVVGLDQRMREGHWDKSTHKSL---ELQGRTLGLVGLGAIGRRVAAVAAALGMPVLAHD 176 Query: 177 RSRLAPELEARANHARYVSKEELLRQADHVVLVLPYSKETHHTIAAAELALMKPTATLTN 236 P + + V + L Q+D V L P + E H I A LA MK A L N Sbjct: 177 -----PYAKEAPQGVQLVDLDTLFAQSDVVSLHCPLTAENKHMINAQSLARMKDGAILVN 231 Query: 237 IARGGIVDDAALIVALREGRIAAAGVDVFENEPAFKPEFLA-LSNVVLTPHIASASTPTR 295 ARGG++D+ ALI AL G++ AAG+D FE EP P L + N VL+PHI ++ Sbjct: 232 TARGGLIDEQALIAALDSGKLRAAGLDSFEKEPFTAPHPLQRVGNAVLSPHIGGVTSDAY 291 Query: 296 LAMANCAADNLIAALS 311 +AM AA N++A L Sbjct: 292 IAMGTGAASNVLAVLG 307 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 0.319 0.132 0.380 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: 1,016,854 Number of extensions: 42260 Number of successful extensions: 182 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 161 Number of HSP's successfully gapped: 11 Length of query: 326 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 241 Effective length of database: 1,217,395 Effective search space: 293392195 Effective search space used: 293392195 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)