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= 0002.0013.p (297 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312370|ref|YP_003776462.1| 3-hydroxyisobutyrate dehydrogen... 597 e-172 gi|300313519|ref|YP_003777611.1| 6-phosphogluconate dehydrogenas... 167 9e-43 gi|300310292|ref|YP_003774384.1| 3-hydroxyisobutyrate dehydrogen... 140 2e-34 gi|300311332|ref|YP_003775424.1| dehydrogenase [Herbaspirillum s... 102 3e-23 >gi|300312370|ref|YP_003776462.1| 3-hydroxyisobutyrate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 297 Score = 597 bits (1540), Expect = e-172, Method: Compositional matrix adjust. Identities = 296/297 (99%), Positives = 297/297 (100%) Query: 1 MSANIVFIGLGNMGLPMAQNLVKAGFSVSGHDLVKASVDKLVEVGGKTEADSMAAVAKAD 60 MSANIVFIGLGNMGLPMAQNLVKAGFSVSGHDLVKASVDKLVEVGGKTEADSMAAVAKAD Sbjct: 1 MSANIVFIGLGNMGLPMAQNLVKAGFSVSGHDLVKASVDKLVEVGGKTEADSMAAVAKAD 60 Query: 61 VVITMLPASRHVESLYLGEAGVLASAKPGTLLIDCSTIAPEAARKVAAAAKARGFEMLDA 120 VVITMLPASRHVESLYLGEAGVLASAKPGTLLIDCSTIAPEAARKVAAAAKARGFEMLDA Sbjct: 61 VVITMLPASRHVESLYLGEAGVLASAKPGTLLIDCSTIAPEAARKVAAAAKARGFEMLDA 120 Query: 121 PVSGGTNGATAGTLTFMVGGSKEAFEAAQPYLQKMGKAIYHAGESGSGQTVKVCNNMLLG 180 PVSGGTNGATAGTLTFMVGGSKEAFEAAQPYLQKMGKAIYHAGESGSGQTVKVCNNMLLG Sbjct: 121 PVSGGTNGATAGTLTFMVGGSKEAFEAAQPYLQKMGKAIYHAGESGSGQTVKVCNNMLLG 180 Query: 181 ILMIGTSEAIRLGMANGMDPKVLSEIMSKSSGRNWTLEVYNPCPGVMDTAPASKGYAGGF 240 ILMIGTSEAIRLGMANGMDPKVLSEIMSKSSGRNWTLEVYNPCPGVM+TAPASKGYAGGF Sbjct: 181 ILMIGTSEAIRLGMANGMDPKVLSEIMSKSSGRNWTLEVYNPCPGVMETAPASKGYAGGF 240 Query: 241 GVDLMLKDLGLAVENALATNCAIPLGATARNLYDIHSMNGAGKLDFSSIFNMLGKAQ 297 GVDLMLKDLGLAVENALATNCAIPLGATARNLYDIHSMNGAGKLDFSSIFNMLGKAQ Sbjct: 241 GVDLMLKDLGLAVENALATNCAIPLGATARNLYDIHSMNGAGKLDFSSIFNMLGKAQ 297 >gi|300313519|ref|YP_003777611.1| 6-phosphogluconate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 298 Score = 167 bits (423), Expect = 9e-43, Method: Compositional matrix adjust. Identities = 99/296 (33%), Positives = 163/296 (55%), Gaps = 12/296 (4%) Query: 1 MSANIVFIGLGNMGLPMAQNLVKAGFSVSGHDLVKASVDKLVEVGGKTEADSMAAVAKAD 60 MS N+ IGLG MG +A +L++AGF+V D+ K +DK GG A+ K D Sbjct: 1 MSRNVGVIGLGAMGYGVASSLLRAGFNVHACDVRKEVLDKFAAAGGVACANPAELAGKVD 60 Query: 61 VVITMLPASRHVESLYLGEAGVLASAKPGTLLIDCSTIAPEAARKVAAAAKARGFEMLDA 120 VVIT++ + E++ G+ G +++ KPG+++I +T+AP+ A ++ +G +LDA Sbjct: 61 VVITLVVNAAQTETVLFGDNGAVSAMKPGSVVISSATVAPDFAIELGKRLVEKGLLLLDA 120 Query: 121 PVSGGTNGATAGTLTFMVGGSKEAFEAAQPYLQKMGKAIYHAGES-GSGQTVKVCNNMLL 179 PVSGG A +G +T M G E + + L M +Y G++ G G VK+ N +L Sbjct: 121 PVSGGAARAASGEMTMMTSGPAEVYAKIEDVLAGMAGKVYRLGDTHGIGSKVKIINQLLA 180 Query: 180 GILMIGTSEAIRLGMANGMDPKVLSEIMSKSSGRNWTLEVYNPCPGVM--DTAPASKGYA 237 G+ + ++EA+ LG+ G++P L E+++ S+G +W E N P ++ D P S Sbjct: 181 GVHIAASAEAMALGLREGVNPDALYEVITHSAGNSWMFE--NRVPHILSGDYTPLS---- 234 Query: 238 GGFGVDLMLKDLGLAVENALATNCAIPLGATARNLYDIHSMNGAGKLDFSSIFNML 293 VD+ +KDLGL ++ A + +PL A A ++ + S G G D S++ + Sbjct: 235 ---AVDIFVKDLGLVLDTARRSKFPLPLSAAAHQMFMMASTAGHGGEDDSAVIKIF 287 >gi|300310292|ref|YP_003774384.1| 3-hydroxyisobutyrate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 288 Score = 140 bits (352), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 98/287 (34%), Positives = 151/287 (52%), Gaps = 8/287 (2%) Query: 8 IGLGNMGLPMAQNLVKAGFSVSGHDLVKASVDKLVEVGGKTEADSMAAVAKA-DVVITML 66 IGLGNMG MA +L + G+ V G+D +++ L + G DS+AA+A A ++V+ L Sbjct: 7 IGLGNMGRGMAFSLQRGGYEVLGYDAQESTRTALAQQGLHC-VDSIAALAPAVEMVVLSL 65 Query: 67 PASRHVESLYLGEAGVLASAKPGTLLIDCSTIAPEAARKVAAAAKARGFEMLDAPVSGGT 126 P S VE + GE G+L PG +++D +T P + R++AA +A G E++DAPVSGG Sbjct: 66 PTSDIVEQVVEGEGGLLQHGAPGLVIVDTTTADPNSTRRLAARLQAAGMELVDAPVSGGP 125 Query: 127 NGATAGTLTFMVGGSKEAFEAAQPYLQKMGKAIYHAGESGSGQTVKVCNNMLLGILMIGT 186 GA T+ ++GGS E +P L M H G G+G K+ NN++ G ++ Sbjct: 126 KGAATATMGMVIGGSAETVARIEPVLAVMSAKRVHVGPVGAGHVAKLLNNLVTGTHLLIA 185 Query: 187 SEAIRLGMANGMDPKVLSEIMSKSSGRNWTLEVYNPCPGVMDTAPASKGYAGGFGVDLML 246 EA R+ A G+D + + + ++ S + +EV+ P T ++ + GF + LM Sbjct: 186 GEAARIAAAAGLDARQIFQGLAAGSANSKVIEVFYP------TWIFNEAFDSGFTMKLMR 239 Query: 247 KDLGLAVENALATNCAIPLGATARNLYDIHSMNGAGKLDFSSIFNML 293 KDL LA+ T PL A L+ A DF+ I N + Sbjct: 240 KDLRLAMNLIEETRSTTPLAREAGRLWARSVEGLADAEDFNRIVNYI 286 >gi|300311332|ref|YP_003775424.1| dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 292 Score = 102 bits (255), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 91/297 (30%), Positives = 145/297 (48%), Gaps = 28/297 (9%) Query: 4 NIVFIGLGNMGLPMAQNLVKAGFSVSGHDLVKASVDKLVEVGGKTEADSMAAVAKADVVI 63 I F+GLG MG PMA NLV+AG++V + A V++L +G + A A A ADV+I Sbjct: 2 KIAFLGLGTMGFPMAANLVRAGYAVRAWNRSPAPVERLAALGAQAAATPAEAAADADVLI 61 Query: 64 TMLPASRHVESLYLGEAGVLASAKPGTLLIDCSTIAPEAARKVAAAAKARGFEMLDAPVS 123 +ML E+ L +AG LA+ +PG + ++ +TI+ A ++A +ARG + APV Sbjct: 62 SMLADDDATET-SLLDAGALAALRPGAIHVNMATISVALALRLAGLHQARGVAYVAAPVL 120 Query: 124 GGTNGATAGTLTFMVGGSKEAFEAAQPYLQKMGKAIYHAG-ESGSGQTVKVCNNMLLGIL 182 G N A AG L + G ++A A QP L +G+ + G + K+ N ++ Sbjct: 121 GRVNVAEAGQLNILAAGEEQALAAVQPLLDVLGQKTWRLGRQPEQANAAKLAMNFMIASA 180 Query: 183 MIGTSEAIRLGMANGMDPKVLSEIMSKSSGRNWTLEVYNPCPGVMDTAPASKGYA----- 237 + SEA+ L G+D E+ + ++ AP KGY Sbjct: 181 IGAMSEAVALVQGYGLDKAGFIELATSTAF----------------AAPVYKGYGQAIAD 224 Query: 238 -----GGFGVDLMLKDLGLAVENALATNCAIPLGATARNLYDIHSMNGAGKLDFSSI 289 GF + L LKD+ LA+E + + L + R+L+ +G G LD++++ Sbjct: 225 DRFEPAGFKLALGLKDVRLALEAGEQAHVPLSLASALRDLHIDGLAHGEGHLDWAAL 281 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 0.316 0.132 0.372 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: 854,246 Number of extensions: 33534 Number of successful extensions: 162 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 157 Number of HSP's successfully gapped: 4 Length of query: 297 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 212 Effective length of database: 1,217,395 Effective search space: 258087740 Effective search space used: 258087740 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 130 (54.7 bits)