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= 0001.1312.p (359 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310800|ref|YP_003774892.1| tartrate dehydrogenase [Herbasp... 725 0.0 gi|300312594|ref|YP_003776686.1| 3-isopropylmalate dehydrogenase... 171 6e-44 gi|300310728|ref|YP_003774820.1| isocitrate dehydrogenase [Herba... 122 5e-29 >gi|300310800|ref|YP_003774892.1| tartrate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 359 Score = 725 bits (1872), Expect = 0.0, Method: Compositional matrix adjust. Identities = 347/359 (96%), Positives = 355/359 (98%) Query: 1 MSKTHRIAVIAGDGIGQEVMPEGLRAVEAASKKFGIDIEFTHFDWAHCGYYAKHGQMMPD 60 MSKTHRIAVIAGDGIGQEVMPEGLRAV+AASKKFGIDIEFTHFDWAHC YYA+HG+MMPD Sbjct: 1 MSKTHRIAVIAGDGIGQEVMPEGLRAVQAASKKFGIDIEFTHFDWAHCNYYAEHGKMMPD 60 Query: 61 DWFEQLKGFEAIFFGAVGWPATVPDHVSLWGSLLKFRRDFDLYVNLRPVRLMPGVPCPLA 120 DWFEQLKGFEAI+FGAVGWPATVPDHVSLWGSLLKFRRDFDLYVNLRPVRLMPGVPCPLA Sbjct: 61 DWFEQLKGFEAIYFGAVGWPATVPDHVSLWGSLLKFRRDFDLYVNLRPVRLMPGVPCPLA 120 Query: 121 NRKPGDIDFYVVRENTEGEYSAIGGRMFEGTERETVIQESVFSRKGTDRILKFAFDLAQS 180 NRKPGDIDFYVVRENTEGEYS+IGGRM+EGTERETVIQESVFSRKGTDRILKFAFDLAQS Sbjct: 121 NRKPGDIDFYVVRENTEGEYSSIGGRMYEGTERETVIQESVFSRKGTDRILKFAFDLAQS 180 Query: 181 RPKKHLTSATKSNGIAITMPYWDERVEAMGAKYPDVRRDKYHIDILTAHFVLNPDRFDVV 240 RPKKHLTSATKSNGIAITMPYWDERVEAMGAKYPDVRRDKYHIDILTAHFVLNPDRFDVV Sbjct: 181 RPKKHLTSATKSNGIAITMPYWDERVEAMGAKYPDVRRDKYHIDILTAHFVLNPDRFDVV 240 Query: 241 VASNLFGDILSDLGPACAGTIGIAPSANINPTRELPSLFEPVHGSAPDIFGKNIANPVAT 300 VASNLFGDILSDLGPACAGTIGIAPSANINPTRELPSLFEPVHGSAPDIFGKNIANPVA Sbjct: 241 VASNLFGDILSDLGPACAGTIGIAPSANINPTRELPSLFEPVHGSAPDIFGKNIANPVAM 300 Query: 301 IWSGAMMLDFLGNGEGKYRQAHDAMLAAIEQVLVNGPTTPDLGGKSNTTEVGQAIAAAI 359 IWSGAMMLDFLG+G+GKYRQAHDAMLAAIE VLVNGPTTPDLGGKSNT EVGQAIAAAI Sbjct: 301 IWSGAMMLDFLGDGQGKYRQAHDAMLAAIETVLVNGPTTPDLGGKSNTAEVGQAIAAAI 359 >gi|300312594|ref|YP_003776686.1| 3-isopropylmalate dehydrogenase oxidoreductase [Herbaspirillum seropedicae SmR1] Length = 356 Score = 171 bits (434), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 132/374 (35%), Positives = 186/374 (49%), Gaps = 40/374 (10%) Query: 6 RIAVIAGDGIGQEVMPEGLRAVEAASKKFGIDIEFTHFDWAHCGYYAKHGQMMPDDWFEQ 65 +IA++ GDGIG E++ E +R + A +KF E GY A HG +PD + Sbjct: 2 KIAILPGDGIGPEIVNEAVRVLNALDEKF----EMETAPVGGAGYEA-HGHPLPDGTLKL 56 Query: 66 LKGFEAIFFGAVG-WP------ATVPDHVSLWGSLLKFRRDFDLYVNLRPVRLMPGVPCP 118 K +AI FGAVG W A P+ ++L R+ L+ N RP P + Sbjct: 57 AKEADAILFGAVGDWKYDKLERALRPEQ-----AILGLRKHLQLFANFRPAICYPEL-TG 110 Query: 119 LANRKP---GDIDFYVVRENTEGEYSAIGGRMFEGTE------RETVIQESVFSRKGTDR 169 ++ KP ++D +VRE Y M E + RE +S R Sbjct: 111 ASSLKPELVANLDILIVRELNGDIYFGQPRGMREAPDGPFKGAREG-FDTMRYSEPEIRR 169 Query: 170 ILKFAFDLAQSRPKKHLTSATKSNGIAITMPYWDERVEAMGAKYPDVRRDKYHIDILTAH 229 I AF A R K+ L S K+N + T +W + V +G +YPDV ++D Sbjct: 170 IAHVAFQAAAKRGKR-LCSVDKAN-VLETFQFWKDIVTEVGKEYPDVELSHMYVDNAAMQ 227 Query: 230 FVLNPDRFDVVVASNLFGDILSDLGPACAGTIGIAPSANINPTRELPSLFEPVHGSAPDI 289 V P FDV+V N+FGDILSD G+IG+ PSA+++ + L+EP HGSAPDI Sbjct: 228 LVKAPKNFDVIVTGNMFGDILSDAAAMLTGSIGMLPSASLDANNK--GLYEPSHGSAPDI 285 Query: 290 FGKNIANPVATIWSGAMMLDFLGNGEGKYRQAHDAMLAAIEQVLVNGPTTPDL----GGK 345 G+ IANP+ATI S AMML F N K QA D + A+++VL G T D+ K Sbjct: 286 AGRGIANPLATILSAAMMLRFSLN---KAEQA-DRIENAVKKVLAQGLRTADIYEEGCTK 341 Query: 346 SNTTEVGQAIAAAI 359 NT ++G+A+ A+ Sbjct: 342 VNTQQMGEAVVKAL 355 >gi|300310728|ref|YP_003774820.1| isocitrate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 418 Score = 122 bits (306), Expect = 5e-29, Method: Compositional matrix adjust. Identities = 108/377 (28%), Positives = 167/377 (44%), Gaps = 51/377 (13%) Query: 7 IAVIAGDGIGQEVMPEGLRAVEAASKKFGIDIEFTHFDWAHCGYYAKHGQMMPDDWF-EQ 65 I I GDG+G +V P L+ V AA +K H+ + G A PD W E+ Sbjct: 31 IPYIVGDGVGVDVTPVMLKVVNAAVEKAYGGARKIHWMEIYAGEKATR-LYGPDVWLPEE 89 Query: 66 LKGFEAIFFGAVGWPATVPDHVSLWGSLLKFRRDFDLYVNLRPVRLMPGVPCPLANRKPG 125 + A+ P + P + + R+ DLYV LRPVR GVP PL R+P Sbjct: 90 TLAVLKKYLVAIKGPLSTPVGGGIRSLNVAMRQQLDLYVCLRPVRYFKGVPSPL--REPE 147 Query: 126 DIDFYVVRENTEGEYSAIG--------GRMFEGTERETVIQESVF-----------SRKG 166 D + REN+E Y+ I ++ + RE +++ F SR+G Sbjct: 148 KTDMVIFRENSEDIYAGIEWAAGTPEVNKLIDLLTREMGVKKLRFPESSALGIKPVSREG 207 Query: 167 TDRILKFAFDLAQSRPKKHLTSATKSNGIAITMPYWDERVEAMGA--------------- 211 T+R+++ A A K +T K N + T + + A+ A Sbjct: 208 TERLVRQAIQYAIDHDKPSVTLVHKGNIMKFTEGAFRDWGYALAAREFGAELIDDGPWMR 267 Query: 212 -KYPDVRRDKYHIDILTAHF----VLNPDRFDVVVASNLFGDILSDLGPACAGTIGIAPS 266 K P R D +T F ++ P + V+ NL GD +SD A G IGIAP Sbjct: 268 LKNPKTGRAIIIKDAITDAFFQQVLMRPAEYSVIATLNLNGDYISDAVAAQVGGIGIAPG 327 Query: 267 ANINPTRELPSLFEPVHGSAPDIFGKNIANPVATIWSGAMMLDFLGNGEGKYRQAHDAML 326 AN++ + ++FE HG+AP GK+ NP ++I S MML +G + +A D ++ Sbjct: 328 ANMSDSV---AVFEATHGTAPKYAGKDYVNPGSSILSAEMMLRHMG-----WIEAADLII 379 Query: 327 AAIEQVLVNGPTTPDLG 343 +A+++ + + T D Sbjct: 380 SAMQKSVSSKRVTYDFA 396 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 0.321 0.138 0.426 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: 1,235,232 Number of extensions: 55870 Number of successful extensions: 153 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 146 Number of HSP's successfully gapped: 4 Length of query: 359 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 273 Effective length of database: 1,212,660 Effective search space: 331056180 Effective search space used: 331056180 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)