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= 0015.0270.p (354 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312594|ref|YP_003776686.1| 3-isopropylmalate dehydrogenase... 704 0.0 gi|300310800|ref|YP_003774892.1| tartrate dehydrogenase [Herbasp... 165 5e-42 gi|300310728|ref|YP_003774820.1| isocitrate dehydrogenase [Herba... 82 6e-17 >gi|300312594|ref|YP_003776686.1| 3-isopropylmalate dehydrogenase oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 356 Score = 704 bits (1818), Expect = 0.0, Method: Compositional matrix adjust. Identities = 347/356 (97%), Positives = 351/356 (98%), Gaps = 2/356 (0%) Query: 1 MKIAILPGDGIGPEIVDEAVRVLNALDEKFEMETAPVGGAGYEAHGHPLPDGTLKLAKEA 60 MKIAILPGDGIGPEIV+EAVRVLNALDEKFEMETAPVGGAGYEAHGHPLPDGTLKLAKEA Sbjct: 1 MKIAILPGDGIGPEIVNEAVRVLNALDEKFEMETAPVGGAGYEAHGHPLPDGTLKLAKEA 60 Query: 61 DAILFGAVGDWKYDKLERALRPEQAILGLRKHLQLFANFRPAICYPELTGASSLKPELVA 120 DAILFGAVGDWKYDKLERALRPEQAILGLRKHLQLFANFRPAICYPELTGASSLKPELVA Sbjct: 61 DAILFGAVGDWKYDKLERALRPEQAILGLRKHLQLFANFRPAICYPELTGASSLKPELVA 120 Query: 121 NLDILIVRELNG--FDLXPRGMREAPDGPFKGAREGFDTMRYSEPEIRRIAHVAFQAAAK 178 NLDILIVRELNG + PRGMREAPDGPFKGAREGFDTMRYSEPEIRRIAHVAFQAAAK Sbjct: 121 NLDILIVRELNGDIYFGQPRGMREAPDGPFKGAREGFDTMRYSEPEIRRIAHVAFQAAAK 180 Query: 179 RGKRLCSVDKANVLETFQFWKDIVTEVGKEYPDVELSHMYVDNAAMQLVKAPKNFDVIVT 238 RGKRLCSVDKANVLETFQFWKDIVTEVGKEYPDVELSHMYVDNAAMQLVKAPKNFDVIVT Sbjct: 181 RGKRLCSVDKANVLETFQFWKDIVTEVGKEYPDVELSHMYVDNAAMQLVKAPKNFDVIVT 240 Query: 239 GNMFGDILSDAAAMLTGSIGMLPSASLDANNKGLYEPSHGSAPDIAGKGIANPLATILSA 298 GNMFGDILSDAAAMLTGSIGMLPSASLDANNKGLYEPSHGSAPDIAG+GIANPLATILSA Sbjct: 241 GNMFGDILSDAAAMLTGSIGMLPSASLDANNKGLYEPSHGSAPDIAGRGIANPLATILSA 300 Query: 299 AMMLRFSLNRAEQADRIENAVKKVLAQGLRTADIYEEGCTKVNTQQMGEAVVKALA 354 AMMLRFSLN+AEQADRIENAVKKVLAQGLRTADIYEEGCTKVNTQQMGEAVVKALA Sbjct: 301 AMMLRFSLNKAEQADRIENAVKKVLAQGLRTADIYEEGCTKVNTQQMGEAVVKALA 356 >gi|300310800|ref|YP_003774892.1| tartrate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 359 Score = 165 bits (418), Expect = 5e-42, Method: Compositional matrix adjust. Identities = 129/373 (34%), Positives = 186/373 (49%), Gaps = 40/373 (10%) Query: 2 KIAILPGDGIGPEIVDEAVRVLNALDEKF--EMETAPVGGAG---YEAHGHPLPDGTLKL 56 +IA++ GDGIG E++ E +R + A +KF ++E A Y HG +PD + Sbjct: 6 RIAVIAGDGIGQEVMPEGLRAVQAASKKFGIDIEFTHFDWAHCNYYAEHGKMMPDDWFEQ 65 Query: 57 AKEADAILFGAVGDWKYDKLERALRPEQ-----AILGLRKHLQLFANFRPAICYPEL-TG 110 K +AI FGAVG W A P+ ++L R+ L+ N RP P + Sbjct: 66 LKGFEAIYFGAVG-WP------ATVPDHVSLWGSLLKFRRDFDLYVNLRPVRLMPGVPCP 118 Query: 111 ASSLKPELVANLDILIVRELNGFDLXPRGMREAPDGPFKGA-REG-FDTMRYSEPEIRRI 168 ++ KP ++D +VRE + G R ++G RE +S RI Sbjct: 119 LANRKP---GDIDFYVVRENTEGEYSSIGGRM-----YEGTERETVIQESVFSRKGTDRI 170 Query: 169 AHVAFQAAAKRGKR-LCSVDKAN-VLETFQFWKDIVTEVGKEYPDVELSHMYVDNAAMQL 226 AF A R K+ L S K+N + T +W + V +G +YPDV ++D Sbjct: 171 LKFAFDLAQSRPKKHLTSATKSNGIAITMPYWDERVEAMGAKYPDVRRDKYHIDILTAHF 230 Query: 227 VKAPKNFDVIVTGNMFGDILSDAAAMLTGSIGMLPSASLDANNK--GLYEPSHGSAPDIA 284 V P FDV+V N+FGDILSD G+IG+ PSA+++ + L+EP HGSAPDI Sbjct: 231 VLNPDRFDVVVASNLFGDILSDLGPACAGTIGIAPSANINPTRELPSLFEPVHGSAPDIF 290 Query: 285 GKGIANPLATILSAAMMLRF---SLNRAEQA-DRIENAVKKVLAQGLRTADIYEEGCTKV 340 GK IANP+A I S AMML F + QA D + A++ VL G T D+ K Sbjct: 291 GKNIANPVAMIWSGAMMLDFLGDGQGKYRQAHDAMLAAIETVLVNGPTTPDL----GGKS 346 Query: 341 NTQQMGEAVVKAL 353 NT ++G+A+ A+ Sbjct: 347 NTAEVGQAIAAAI 359 >gi|300310728|ref|YP_003774820.1| isocitrate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 418 Score = 82.0 bits (201), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 49/131 (37%), Positives = 78/131 (59%), Gaps = 4/131 (3%) Query: 225 QLVKAPKNFDVIVTGNMFGDILSDAAAMLTGSIGMLPSASLDANNKGLYEPSHGSAPDIA 284 Q++ P + VI T N+ GD +SDA A G IG+ P A++ +++ ++E +HG+AP A Sbjct: 290 QVLMRPAEYSVIATLNLNGDYISDAVAAQVGGIGIAPGANM-SDSVAVFEATHGTAPKYA 348 Query: 285 GKGIANPLATILSAAMMLRFSLNRAEQADRIENAVKKVLAQGLRTADIYE--EGCTKVNT 342 GK NP ++ILSA MMLR + E AD I +A++K ++ T D EG T+V+ Sbjct: 349 GKDYVNPGSSILSAEMMLR-HMGWIEAADLIISAMQKSVSSKRVTYDFARLLEGATQVSC 407 Query: 343 QQMGEAVVKAL 353 GE +++ + Sbjct: 408 SGFGEVMIENM 418 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 0.318 0.136 0.392 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: 1,139,423 Number of extensions: 49532 Number of successful extensions: 156 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 151 Number of HSP's successfully gapped: 3 Length of query: 354 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 268 Effective length of database: 1,212,660 Effective search space: 324992880 Effective search space used: 324992880 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 (21.7 bits) S2: 131 (55.1 bits)