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= 0018.0063.p (383 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... 729 0.0 gi|300310800|ref|YP_003774892.1| tartrate dehydrogenase [Herbasp... 166 2e-42 gi|300310728|ref|YP_003774820.1| isocitrate dehydrogenase [Herba... 85 8e-18 >gi|300312594|ref|YP_003776686.1| 3-isopropylmalate dehydrogenase oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 356 Score = 729 bits (1881), Expect = 0.0, Method: Compositional matrix adjust. Identities = 355/356 (99%), Positives = 356/356 (100%) Query: 28 MKIAILPGDGIGPEIVNEAVRVLNALDEKFEMETAPVGGAGYEAHGHPLPDGTLKLAKEA 87 MKIAILPGDGIGPEIVNEAVRVLNALDEKFEMETAPVGGAGYEAHGHPLPDGTLKLAKEA Sbjct: 1 MKIAILPGDGIGPEIVNEAVRVLNALDEKFEMETAPVGGAGYEAHGHPLPDGTLKLAKEA 60 Query: 88 DAILFGAVGDWKYDKLERALRPEQAILGLRKHLQLFANFRPAICYPELTGASSLKPELVA 147 DAILFGAVGDWKYDKLERALRPEQAILGLRKHLQLFANFRPAICYPELTGASSLKPELVA Sbjct: 61 DAILFGAVGDWKYDKLERALRPEQAILGLRKHLQLFANFRPAICYPELTGASSLKPELVA 120 Query: 148 NLDILIVRELNGDIYFGQPRGMREAPDGPFKGAREGFDTMRYSEPEIRRIAHVAFQAAAK 207 NLDILIVRELNGDIYFGQPRGMREAPDGPFKGAREGFDTMRYSEPEIRRIAHVAFQAAAK Sbjct: 121 NLDILIVRELNGDIYFGQPRGMREAPDGPFKGAREGFDTMRYSEPEIRRIAHVAFQAAAK 180 Query: 208 RGKRLCSVDKANVLETFQFWKDIVTEVGKEYPDVELSHMYVDNAAMQLVKAPKNFDVIVT 267 RGKRLCSVDKANVLETFQFWKDIVTEVGKEYPDVELSHMYVDNAAMQLVKAPKNFDVIVT Sbjct: 181 RGKRLCSVDKANVLETFQFWKDIVTEVGKEYPDVELSHMYVDNAAMQLVKAPKNFDVIVT 240 Query: 268 GNMFGDILSDAAAMLTGSIGMLPSASLDANNKGLYEPSHGSAPDIAGKGIANPLATILSA 327 GNMFGDILSDAAAMLTGSIGMLPSASLDANNKGLYEPSHGSAPDIAG+GIANPLATILSA Sbjct: 241 GNMFGDILSDAAAMLTGSIGMLPSASLDANNKGLYEPSHGSAPDIAGRGIANPLATILSA 300 Query: 328 AMMLRFSLNKAEQADRIENAVKKVLAQGLRTADIYEEGCTKVNTQQMGEAVVKALA 383 AMMLRFSLNKAEQADRIENAVKKVLAQGLRTADIYEEGCTKVNTQQMGEAVVKALA Sbjct: 301 AMMLRFSLNKAEQADRIENAVKKVLAQGLRTADIYEEGCTKVNTQQMGEAVVKALA 356 >gi|300310800|ref|YP_003774892.1| tartrate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 359 Score = 166 bits (421), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 132/381 (34%), Positives = 188/381 (49%), Gaps = 54/381 (14%) Query: 29 KIAILPGDGIGPEIVNEAVRVLNALDEKF--EMETAPVGGAG---YEAHGHPLPDGTLKL 83 +IA++ GDGIG E++ E +R + A +KF ++E A Y HG +PD + Sbjct: 6 RIAVIAGDGIGQEVMPEGLRAVQAASKKFGIDIEFTHFDWAHCNYYAEHGKMMPDDWFEQ 65 Query: 84 AKEADAILFGAVGDWKYDKLERALRPEQ-----AILGLRKHLQLFANFRPAICYPELTGA 138 K +AI FGAVG W A P+ ++L R+ L+ N RP P + Sbjct: 66 LKGFEAIYFGAVG-WP------ATVPDHVSLWGSLLKFRRDFDLYVNLRPVRLMPGVPCP 118 Query: 139 -SSLKPELVANLDILIVRE--------LNGDIYFGQPRGMREAPDGPFKGAREGFDTMRY 189 ++ KP ++D +VRE + G +Y G R E +R+G D Sbjct: 119 LANRKP---GDIDFYVVRENTEGEYSSIGGRMYEGTER---ETVIQESVFSRKGTD---- 168 Query: 190 SEPEIRRIAHVAFQAAAKRGKR-LCSVDKAN-VLETFQFWKDIVTEVGKEYPDVELSHMY 247 RI AF A R K+ L S K+N + T +W + V +G +YPDV + Sbjct: 169 ------RILKFAFDLAQSRPKKHLTSATKSNGIAITMPYWDERVEAMGAKYPDVRRDKYH 222 Query: 248 VDNAAMQLVKAPKNFDVIVTGNMFGDILSDAAAMLTGSIGMLPSASLDANNK--GLYEPS 305 +D V P FDV+V N+FGDILSD G+IG+ PSA+++ + L+EP Sbjct: 223 IDILTAHFVLNPDRFDVVVASNLFGDILSDLGPACAGTIGIAPSANINPTRELPSLFEPV 282 Query: 306 HGSAPDIAGKGIANPLATILSAAMMLRF---SLNKAEQA-DRIENAVKKVLAQGLRTADI 361 HGSAPDI GK IANP+A I S AMML F K QA D + A++ VL G T D+ Sbjct: 283 HGSAPDIFGKNIANPVAMIWSGAMMLDFLGDGQGKYRQAHDAMLAAIETVLVNGPTTPDL 342 Query: 362 YEEGCTKVNTQQMGEAVVKAL 382 K NT ++G+A+ A+ Sbjct: 343 ----GGKSNTAEVGQAIAAAI 359 >gi|300310728|ref|YP_003774820.1| isocitrate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 418 Score = 85.1 bits (209), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 87/307 (28%), Positives = 138/307 (44%), Gaps = 44/307 (14%) Query: 114 LGLRKHLQLFANFRPAICYPELTGASSLKPELVANLDILIVRELNGDIYFG--QPRGMRE 171 + +R+ L L+ RP + Y + + +PE D++I RE + DIY G G E Sbjct: 118 VAMRQQLDLYVCLRP-VRYFKGVPSPLREPE---KTDMVIFRENSEDIYAGIEWAAGTPE 173 Query: 172 APDGPFKGARE-GFDTMRYSEPE-----------IRRIAHVAFQAAAKRGK-RLCSVDKA 218 RE G +R+ E R+ A Q A K + V K Sbjct: 174 VNKLIDLLTREMGVKKLRFPESSALGIKPVSREGTERLVRQAIQYAIDHDKPSVTLVHKG 233 Query: 219 NVLE----TFQFWKDIVT--EVGKEYPD---------------VELSHMYVDNAAMQLVK 257 N+++ F+ W + E G E D + + D Q++ Sbjct: 234 NIMKFTEGAFRDWGYALAAREFGAELIDDGPWMRLKNPKTGRAIIIKDAITDAFFQQVLM 293 Query: 258 APKNFDVIVTGNMFGDILSDAAAMLTGSIGMLPSASLDANNKGLYEPSHGSAPDIAGKGI 317 P + VI T N+ GD +SDA A G IG+ P A++ +++ ++E +HG+AP AGK Sbjct: 294 RPAEYSVIATLNLNGDYISDAVAAQVGGIGIAPGANM-SDSVAVFEATHGTAPKYAGKDY 352 Query: 318 ANPLATILSAAMMLRFSLNKAEQADRIENAVKKVLAQGLRTADIYE--EGCTKVNTQQMG 375 NP ++ILSA MMLR + E AD I +A++K ++ T D EG T+V+ G Sbjct: 353 VNPGSSILSAEMMLR-HMGWIEAADLIISAMQKSVSSKRVTYDFARLLEGATQVSCSGFG 411 Query: 376 EAVVKAL 382 E +++ + Sbjct: 412 EVMIENM 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 0.135 0.391 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: 1,219,672 Number of extensions: 53522 Number of successful extensions: 162 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 158 Number of HSP's successfully gapped: 3 Length of query: 383 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 296 Effective length of database: 1,207,925 Effective search space: 357545800 Effective search space used: 357545800 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)