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= 0002.0711.p (328 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313598|ref|YP_003777690.1| D-3-phosphoglycerate dehydrogen... 506 e-144 gi|300310832|ref|YP_003774924.1| D-isomer specific 2-hydroxyacid... 133 2e-32 gi|300310960|ref|YP_003775052.1| dehydrogenase oxidoreductase [H... 127 1e-30 gi|300313735|ref|YP_003777827.1| D-3-phosphoglycerate dehydrogen... 108 7e-25 gi|300311826|ref|YP_003775918.1| D-lactate dehydrogenase [Herbas... 100 2e-22 >gi|300313598|ref|YP_003777690.1| D-3-phosphoglycerate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 328 Score = 506 bits (1302), Expect = e-144, Method: Compositional matrix adjust. Identities = 250/327 (76%), Positives = 280/327 (85%) Query: 1 MKIAILDDYQDSVRQLDCFKLLDGHDVKVFNNTVRGAGQLVARLAPFEALVLIRERTVFT 60 MKIAILDDYQD+VR LDCF+LLDGHDVKVFNNT+RG GQL ARL+PF+A+VLIRERT T Sbjct: 1 MKIAILDDYQDAVRHLDCFRLLDGHDVKVFNNTIRGVGQLAARLSPFDAVVLIRERTALT 60 Query: 61 KAILEKLPALKLISQTGKISGHVDVAAATAQRIGIVEGVGDPTAPAELTWALIMAAARRI 120 + +LEKLP LKL+SQTGK+SGHVDVAA T + I IVEGVGDPTAPAELTWALIMAA RR+ Sbjct: 61 RPLLEKLPLLKLVSQTGKVSGHVDVAACTERGIAIVEGVGDPTAPAELTWALIMAAMRRV 120 Query: 121 PQYTANLKAGIWQQVSAAPERNAIGVALKGRTLGIWGYGKIGRMVAGYGKAFGMKIVVWG 180 PQY + L+AG WQQVS P N IG ALKGRTLGIWGYGKIGR+VAGYG+AFGM+++VWG Sbjct: 121 PQYCSALRAGAWQQVSPTPHHNLIGTALKGRTLGIWGYGKIGRLVAGYGRAFGMQVLVWG 180 Query: 181 RDASLEQAQKDGYTAAASKEEFFSTTDFISVHLRLNDATRGIVTAQDLALMKPTATFINT 240 RD+S EQA KDGY AAASKEEFF+ D +S+HLRLNDATRGIV A DLA MK TA F+NT Sbjct: 181 RDSSREQAIKDGYQAAASKEEFFAQADVLSLHLRLNDATRGIVKASDLARMKATACFVNT 240 Query: 241 SRAELVASGALETALQQGRPGFAGIDVFETEPLPHDSPLLRMDNVVATPHLGYVEKDGYE 300 SRAELV ALE AL GRPG A +DV+E EPLP +S LL+MDNVVA PHLGYVEKDGYE Sbjct: 241 SRAELVEPDALEAALIAGRPGLAALDVYEREPLPVESALLQMDNVVAAPHLGYVEKDGYE 300 Query: 301 LYFRAAFQNIVDFANGAPKNVLNPEAL 327 LYFRAAFQNIV +A GAP +VLNPEAL Sbjct: 301 LYFRAAFQNIVAYAAGAPTHVLNPEAL 327 >gi|300310832|ref|YP_003774924.1| D-isomer specific 2-hydroxyacid dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 319 Score = 133 bits (335), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 94/262 (35%), Positives = 133/262 (50%), Gaps = 6/262 (2%) Query: 59 FTKAILEKLPALKLISQTGKISGHVDVAAATAQRIGIVEGVGDPT-APAELTWALIMAAA 117 T A+LE P LK++S + D+ + + + G T A A+ +ALI+A+A Sbjct: 56 ITNAMLEAAPQLKIVSTISVGVDNFDLDYFRQRGLMLAHTPGVLTEATADTIFALILASA 115 Query: 118 RRIPQYTANLKAGIWQQVSAAPERNAIGVALKGRTLGIWGYGKIGRMVAGYGK-AFGMKI 176 RR+ + +KAG W+ + GV + G+TLG+ G G+IG VA FGM I Sbjct: 116 RRVVELAEYVKAGRWKGSIGEAQ---FGVNVHGKTLGLIGMGRIGSAVARRAHHGFGMPI 172 Query: 177 VVWGRDASLEQAQKDGYTAAASKEEFFSTTDFISVHLRLNDATRGIVTAQDLALMKPTAT 236 + R E A+++ SKE+ + DF+ V L L T + A + ALMK +A Sbjct: 173 LYHNRRPDPE-AERELGARYVSKEDLLAQADFVCVMLPLTPQTERMFGAPEFALMKRSAI 231 Query: 237 FINTSRAELVASGALETALQQGRPGFAGIDVFETEPLPHDSPLLRMDNVVATPHLGYVEK 296 FIN SR +V AL ALQ AG+DVFE EPLP SPLL++ NVVA PH+G Sbjct: 232 FINASRGRIVDEAALIAALQDKTIHGAGLDVFEVEPLPLQSPLLKLPNVVALPHIGSATH 291 Query: 297 DGYELYFRAAFQNIVDFANGAP 318 + A N++ G P Sbjct: 292 ETRLAMAELAVTNLIAGLRGEP 313 >gi|300310960|ref|YP_003775052.1| dehydrogenase oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 326 Score = 127 bits (320), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 94/274 (34%), Positives = 136/274 (49%), Gaps = 13/274 (4%) Query: 60 TKAILEKLPALKLISQTGKISGHVDVAAATAQRIGIVEGVGDPTAPAELT----WALIMA 115 T A+ P LK + ++DVAAAT + G++ P E T WAL+MA Sbjct: 58 TAALFAANPQLKAVCNMAVGYNNIDVAAAT--QAGVM-ATNTPDVLNETTADFGWALMMA 114 Query: 116 AARRIPQYTANLKAGIWQQVSAAPERNAIGVALKGRTLGIWGYGKIGRMVAGYGKAFGMK 175 AARRI + L+AG W++ S + +G + G TLGI G G+IG+ +A F M+ Sbjct: 115 AARRITESEHFLRAGKWKKWS---YDSFVGPDIHGATLGIIGMGRIGQAIARRSLGFDMQ 171 Query: 176 IVVWGRDA-SLEQAQKDGYTAAASKEEFFSTTDFISVHLRLNDATRGIVTAQDLALMKPT 234 ++ R + E + + SKEE D + + L + T + A +LALMKPT Sbjct: 172 VLYHNRSRLAPELEARANHARYVSKEELLRQADHVILVLPYSKDTHHTIAAAELALMKPT 231 Query: 235 ATFINTSRAELVASGALETALQQGRPGFAGIDVFETEPLPHDSPLLRMDNVVATPHLGYV 294 AT N +R +V AL AL++GR AG+DVFE EP L + NVV TPH+ Sbjct: 232 ATLTNIARGGIVDDAALIAALREGRIAAAGVDVFENEP-AFKPEFLDLSNVVLTPHIASA 290 Query: 295 EKDGYELYFRAAFQNIVDFANGA-PKNVLNPEAL 327 A N++ +G P N+LNP+ + Sbjct: 291 STPTRLAMANCAADNLIAALSGQRPPNLLNPDVV 324 >gi|300313735|ref|YP_003777827.1| D-3-phosphoglycerate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 308 Score = 108 bits (270), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 81/252 (32%), Positives = 121/252 (48%), Gaps = 15/252 (5%) Query: 63 ILEKLPALKLISQTGKISGHVDVAAATAQRIGIVEGVGDPTAPA---ELTWALIMAAARR 119 +++ P L++IS+ G +D AA Q+ GI E TWALIMA A+ Sbjct: 64 VMDAAPILRVISKHGTGIDSIDSQAA--QQRGIAVKAAAGANAPAVAEHTWALIMACAKN 121 Query: 120 IPQYTANLKAGIWQQVSAAPERNAIGVALKGRTLGIWGYGKIGRMVAGYGKAFGMKIVVW 179 + ++ G W + + + L+GRTLG+ G G IGR VA A GM ++ Sbjct: 122 VVGLDQRMREGHWDKSTHK------SLELQGRTLGLVGLGAIGRRVAAVAAALGMPVL-- 173 Query: 180 GRDASLEQAQKDGYTAAASKEEFFSTTDFISVHLRLNDATRGIVTAQDLALMKPTATFIN 239 D ++A + + F+ +D +S+H L + ++ AQ LA MK A +N Sbjct: 174 AHDPYAKEAPQG--VQLVDLDTLFAQSDVVSLHCPLTAENKHMINAQSLARMKDGAILVN 231 Query: 240 TSRAELVASGALETALQQGRPGFAGIDVFETEPLPHDSPLLRMDNVVATPHLGYVEKDGY 299 T+R L+ AL AL G+ AG+D FE EP PL R+ N V +PH+G V D Y Sbjct: 232 TARGGLIDEQALIAALDSGKLRAAGLDSFEKEPFTAPHPLQRVGNAVLSPHIGGVTSDAY 291 Query: 300 ELYFRAAFQNIV 311 A N++ Sbjct: 292 IAMGTGAASNVL 303 >gi|300311826|ref|YP_003775918.1| D-lactate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 330 Score = 100 bits (248), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 85/271 (31%), Positives = 127/271 (46%), Gaps = 26/271 (9%) Query: 63 ILEKLPALKLISQTGKISG--HVDVAAATAQRIGIVEGVGD--PTAPAELTWALIMAAAR 118 +LEKL L + T + +G H+DVAAA A + + V D P + AE L+ A R Sbjct: 60 VLEKLAELGVRFVTTRSTGFNHIDVAAARALGLTVAR-VADYSPYSVAEFAVGLLQAVNR 118 Query: 119 RIPQYTANLKAGIWQQVSAAPERNAIGVALKGRTLGIWGYGKIGRMVAGYGKAFGMKIVV 178 +I + + + G ++ +GV L G+T+G+ G GKIG + A FG +I+ Sbjct: 119 KIARASMRTREGNFEL------DGLMGVDLHGKTVGVIGTGKIGVLFARIMAGFGCQIL- 171 Query: 179 WGRDASLEQAQKDGYTAAASKEEFFSTTDFISVHLRLNDATRGIVTAQDLALMKPTATFI 238 G D + E F+ +D IS+H L +ATR +V AQ LAL KP + Sbjct: 172 -GSDVHRNPDFDALGGRYVERTELFAASDVISLHCPLTEATRYLVNAQSLALAKPGCILV 230 Query: 239 NTSRAELVASGALETALQQGRPGFAGIDVFETE----------PLPHDSPLLRM---DNV 285 NTSR LV + A AL+ GR IDV+E E + D + R+ NV Sbjct: 231 NTSRGGLVDTEAAIAALKSGRLRGLAIDVYEQEASLFFQDLSSTIITDDVIQRLVSFPNV 290 Query: 286 VATPHLGYVEKDGYELYFRAAFQNIVDFANG 316 + T H + ++ + +N+ FA G Sbjct: 291 IVTGHQAFFTEEAIGQIMQTTIENLSAFAAG 321 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 0.135 0.394 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: 1,056,444 Number of extensions: 45954 Number of successful extensions: 208 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 189 Number of HSP's successfully gapped: 11 Length of query: 328 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 242 Effective length of database: 1,212,660 Effective search space: 293463720 Effective search space used: 293463720 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)