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= 0025.0043.p (356 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... 681 0.0 gi|300310800|ref|YP_003774892.1| tartrate dehydrogenase [Herbasp... 155 3e-39 gi|300310728|ref|YP_003774820.1| isocitrate dehydrogenase [Herba... 80 3e-16 >gi|300312594|ref|YP_003776686.1| 3-isopropylmalate dehydrogenase oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 356 Score = 681 bits (1758), Expect = 0.0, Method: Compositional matrix adjust. Identities = 331/355 (93%), Positives = 341/355 (96%) Query: 1 MKIAILPGDGIGPEIIEQAVRVLNTLGEKFEMETAPVGGAGYEAHGHPLPDGTLKLAKES 60 MKIAILPGDGIGPEI+ +AVRVLN L EKFEMETAPVGGAGYEAHGHPLPDGTLKLAKE+ Sbjct: 1 MKIAILPGDGIGPEIVNEAVRVLNALDEKFEMETAPVGGAGYEAHGHPLPDGTLKLAKEA 60 Query: 61 DAILFGAVGDWKYDTLDRPLRPEQAILGLRKHLQLFANFRPAICYPELTGASSLKPELVA 120 DAILFGAVGDWKYD L+R LRPEQAILGLRKHLQLFANFRPAICYPELTGASSLKPELVA Sbjct: 61 DAILFGAVGDWKYDKLERALRPEQAILGLRKHLQLFANFRPAICYPELTGASSLKPELVA 120 Query: 121 GLDILIVRELNGDIYFGQPRGMREAPDGPFKGAREGFDTMRYSEPEIRRIAHVAFQAAAK 180 LDILIVRELNGDIYFGQPRGMREAPDGPFKGAREGFDTMRYSEPEIRRIAHVAFQAAAK Sbjct: 121 NLDILIVRELNGDIYFGQPRGMREAPDGPFKGAREGFDTMRYSEPEIRRIAHVAFQAAAK 180 Query: 181 RGNRLCSVDKANVLETFQFWKDIVTDVHKEYPQVELTHMYVDNAAMQLVKAPKNFDVIVT 240 RG RLCSVDKANVLETFQFWKDIVT+V KEYP VEL+HMYVDNAAMQLVKAPKNFDVIVT Sbjct: 181 RGKRLCSVDKANVLETFQFWKDIVTEVGKEYPDVELSHMYVDNAAMQLVKAPKNFDVIVT 240 Query: 241 GNMFGDILSDAAAMLTGSIGMLPSASLDANNKGLYEPSHGSAPDIAGKGIANPLATILSA 300 GNMFGDILSDAAAMLTGSIGMLPSASLDANNKGLYEPSHGSAPDIAG+GIANPLATILSA Sbjct: 241 GNMFGDILSDAAAMLTGSIGMLPSASLDANNKGLYEPSHGSAPDIAGRGIANPLATILSA 300 Query: 301 AMMLRFSLNKAEQADRIEAAVKKVLAQGYRTGDIYEEGTTKVGTKEMGDAVVKAL 355 AMMLRFSLNKAEQADRIE AVKKVLAQG RT DIYEEG TKV T++MG+AVVKAL Sbjct: 301 AMMLRFSLNKAEQADRIENAVKKVLAQGLRTADIYEEGCTKVNTQQMGEAVVKAL 355 >gi|300310800|ref|YP_003774892.1| tartrate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 359 Score = 155 bits (393), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 127/376 (33%), Positives = 181/376 (48%), Gaps = 44/376 (11%) Query: 2 KIAILPGDGIGPEIIEQAVRVLNTLGEKF--EMETAPVGGAG---YEAHGHPLPDGTLKL 56 +IA++ GDGIG E++ + +R + +KF ++E A Y HG +PD + Sbjct: 6 RIAVIAGDGIGQEVMPEGLRAVQAASKKFGIDIEFTHFDWAHCNYYAEHGKMMPDDWFEQ 65 Query: 57 AKESDAILFGAVGDWKYDTLDRPLRPEQAILGLRKHLQLFANFRPAICYPEL-TGASSLK 115 K +AI FGAVG W D + ++L R+ L+ N RP P + ++ K Sbjct: 66 LKGFEAIYFGAVG-WPATVPDH-VSLWGSLLKFRRDFDLYVNLRPVRLMPGVPCPLANRK 123 Query: 116 PELVAGLDILIVRE--------LNGDIYFGQPRGMREAPDGPFKGAREGFDTMRYSEPEI 167 P +D +VRE + G +Y G R E +R+G D Sbjct: 124 P---GDIDFYVVRENTEGEYSSIGGRMYEGTER---ETVIQESVFSRKGTD--------- 168 Query: 168 RRIAHVAFQAAAKRGNR-LCSVDKAN-VLETFQFWKDIVTDVHKEYPQVELTHMYVDNAA 225 RI AF A R + L S K+N + T +W + V + +YP V ++D Sbjct: 169 -RILKFAFDLAQSRPKKHLTSATKSNGIAITMPYWDERVEAMGAKYPDVRRDKYHIDILT 227 Query: 226 MQLVKAPKNFDVIVTGNMFGDILSDAAAMLTGSIGMLPSASLDANNK--GLYEPSHGSAP 283 V P FDV+V N+FGDILSD G+IG+ PSA+++ + L+EP HGSAP Sbjct: 228 AHFVLNPDRFDVVVASNLFGDILSDLGPACAGTIGIAPSANINPTRELPSLFEPVHGSAP 287 Query: 284 DIAGKGIANPLATILSAAMMLRF---SLNKAEQA-DRIEAAVKKVLAQGYRTGDIYEEGT 339 DI GK IANP+A I S AMML F K QA D + AA++ VL G T D+ Sbjct: 288 DIFGKNIANPVAMIWSGAMMLDFLGDGQGKYRQAHDAMLAAIETVLVNGPTTPDL----G 343 Query: 340 TKVGTKEMGDAVVKAL 355 K T E+G A+ A+ Sbjct: 344 GKSNTAEVGQAIAAAI 359 >gi|300310728|ref|YP_003774820.1| isocitrate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 418 Score = 79.7 bits (195), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 83/307 (27%), Positives = 138/307 (44%), Gaps = 44/307 (14%) Query: 87 LGLRKHLQLFANFRPAICYPELTGASSLKPELVAGLDILIVRELNGDIYFG--QPRGMRE 144 + +R+ L L+ RP + Y + + +PE D++I RE + DIY G G E Sbjct: 118 VAMRQQLDLYVCLRP-VRYFKGVPSPLREPEKT---DMVIFRENSEDIYAGIEWAAGTPE 173 Query: 145 APDGPFKGARE-GFDTMRYSEPE-----------IRRIAHVAFQAAAKRGN-RLCSVDKA 191 RE G +R+ E R+ A Q A + V K Sbjct: 174 VNKLIDLLTREMGVKKLRFPESSALGIKPVSREGTERLVRQAIQYAIDHDKPSVTLVHKG 233 Query: 192 NVLE----TFQFW------KDIVTDVHKEYPQVELTH-----------MYVDNAAMQLVK 230 N+++ F+ W ++ ++ + P + L + D Q++ Sbjct: 234 NIMKFTEGAFRDWGYALAAREFGAELIDDGPWMRLKNPKTGRAIIIKDAITDAFFQQVLM 293 Query: 231 APKNFDVIVTGNMFGDILSDAAAMLTGSIGMLPSASLDANNKGLYEPSHGSAPDIAGKGI 290 P + VI T N+ GD +SDA A G IG+ P A++ +++ ++E +HG+AP AGK Sbjct: 294 RPAEYSVIATLNLNGDYISDAVAAQVGGIGIAPGANM-SDSVAVFEATHGTAPKYAGKDY 352 Query: 291 ANPLATILSAAMMLRFSLNKAEQADRIEAAVKKVLAQGYRTGDIYE--EGTTKVGTKEMG 348 NP ++ILSA MMLR + E AD I +A++K ++ T D EG T+V G Sbjct: 353 VNPGSSILSAEMMLR-HMGWIEAADLIISAMQKSVSSKRVTYDFARLLEGATQVSCSGFG 411 Query: 349 DAVVKAL 355 + +++ + 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 0.137 0.398 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: 1,194,879 Number of extensions: 53496 Number of successful extensions: 167 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 163 Number of HSP's successfully gapped: 3 Length of query: 356 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 270 Effective length of database: 1,212,660 Effective search space: 327418200 Effective search space used: 327418200 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)