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= 0002.0241.p (430 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312596|ref|YP_003776688.1| 3-isopropylmalate dehydratase l... 142 8e-35 gi|300311598|ref|YP_003775690.1| aconitate hydratase [Herbaspiri... 97 4e-21 gi|300312283|ref|YP_003776375.1| aconitate hydratase [Herbaspiri... 80 3e-16 >gi|300312596|ref|YP_003776688.1| 3-isopropylmalate dehydratase large subunit [Herbaspirillum seropedicae SmR1] Length = 466 Score = 142 bits (357), Expect = 8e-35, Method: Compositional matrix adjust. Identities = 123/408 (30%), Positives = 188/408 (46%), Gaps = 50/408 (12%) Query: 62 VIIDHEVPVHSVAGAERNKLTRQL-------AQEWSVGHF---FDGVGITHPLMVEQGLV 111 ++ DH VP A + ++R A+E+S+ +F GI H + EQG Sbjct: 59 MVADHNVPTTDRAHGIADPISRLQVETLDGNAKEYSLTYFGMNDKRQGIVHVIGPEQGAT 118 Query: 112 APGMFAAGADSHAPGLGAVGALSVPFGF-EVSMVLATGQIWMKVPETIRVRLHGACRPGV 170 PGM DSH GA AL+ G EV VLAT + + + + V++ GA GV Sbjct: 119 LPGMTVVCGDSHTSTHGAFAALAHGIGTSEVEHVLATQTLLARKSKAMLVQVDGALPAGV 178 Query: 171 AARDIVLATMQQLDDEATSYRVIEYQGEGLATLSVPERMTICGLCVDAGAKSGIAAVDQR 230 A+DIVLA + ++ + IE+ G + +LS+ RMT+C + ++AGA++G+ A D Sbjct: 179 TAKDIVLAVIGKIGTAGGTGYAIEFAGSTIRSLSMEGRMTVCNMAIEAGARAGMVAFDDT 238 Query: 231 CIDYLRYLR-----AHGVTDLPAPESINSDADAEYAMTIDIDLSTLTPRVSIPPSPNHVR 285 ++YL+ H + S++SD A++ M + ++ + + P+V+ SP V Sbjct: 239 TLEYLKGRPFSPSGPHWERAVSYWRSLHSDPGAKFDMVVTLNAAEIKPQVTWGTSPEMVV 298 Query: 286 EAQA-------------------------------MSGIVIQHAYIGSCVSGSIEDIRSA 314 A + I I +IGSC + IED+R A Sbjct: 299 AVDARVPDPDKEKDPTKRDGMEKALAYMALKPNTPIEDIRIDKVFIGSCTNSRIEDLREA 358 Query: 315 AAILRGRKVHAGVHL-LVIPATQQVFQQALQEGLLTELTAAGATISPSTCGPCFGGIA-Q 372 A ++RG+ + V L +V+P + V +QA +EGL AG C C A + Sbjct: 359 AKVVRGKFRASNVKLAMVVPGSGLVKEQAEREGLDKIFRDAGFEWREPGCSMCLAMNADR 418 Query: 373 LAAGERRISTSTRNDPGRMGSNEAEIFLASAMTVAASAITGHITDPRA 420 L GER STS RN GR G+ L S AA+ I GH D R+ Sbjct: 419 LEPGERCASTSNRNFEGRQGAG-GRTHLVSPAMAAAAGIAGHFVDVRS 465 >gi|300311598|ref|YP_003775690.1| aconitate hydratase [Herbaspirillum seropedicae SmR1] Length = 873 Score = 96.7 bits (239), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 104/370 (28%), Positives = 156/370 (42%), Gaps = 53/370 (14%) Query: 97 GVGITHPLMVEQ---------GLVAPGMFAAGADSHAPGLGAVGALSVPFG-FEVSMVLA 146 G GI H + +E+ G+ P G DSH P + A+G +++ G E V+ Sbjct: 168 GNGIMHQINLEKMSPVIHAKDGVAFPDTLV-GTDSHTPHVDALGVIAIGVGGLEAENVML 226 Query: 147 TGQIWMKVPETIRVRLHGACRPGVAARDIVLATMQQLDDEATSYRVIEYQGEGLATLSVP 206 WM++P+ I V L G +PG+ A DIVL+ + L + +E+ G+G A+L++ Sbjct: 227 GRASWMRLPDIIGVELTGRRQPGITATDIVLSLTEFLRKQKVVGAYLEFYGDGAASLTLG 286 Query: 207 ERMTICGLCVDAGAKSGIAAVDQRCIDYLRYL-----RAHGVTDLPAPESINSD--ADAE 259 +R TI + + GA + + ++DQ+ IDYL+ + V + SD A E Sbjct: 287 DRATISNMAPEYGATAAMFSIDQQTIDYLKLTGREDEQVKLVETYAKEAGLWSDTLAKVE 346 Query: 260 YAMTIDIDLSTLTPRVSIPPSPNHVR------EAQAMSGIVIQH-----------AYIGS 302 Y + DLST+ ++ P +P H R AQ ++G V A I S Sbjct: 347 YERVLRFDLSTVVRTLAGPSNP-HKRLPVSELAAQGIAGKVENEPGKMPDGAVIIAAITS 405 Query: 303 CVSGSIEDIRSAAAILRGRKVHAG------VHLLVIPATQQVFQQALQEGLLTELTAAGA 356 C + S AA +L G V + P ++ V + GL +L G Sbjct: 406 CTNTSNPRNVIAAGLLARNANRLGLARKPWVKSSLAPGSKAVELYLEEAGLTADLEKLGF 465 Query: 357 TISPSTCGPCFG-------GIAQLAAGERRISTS----TRNDPGRMGSNEAEIFLASAMT 405 I C C G I Q ST+ RN GR+ + FLAS Sbjct: 466 GIVAFACTTCNGMSGALDPKIQQEIIDRDLYSTAVLSGNRNFDGRIHPYAKQAFLASPPL 525 Query: 406 VAASAITGHI 415 V A AI G I Sbjct: 526 VVAYAIAGTI 535 >gi|300312283|ref|YP_003776375.1| aconitate hydratase [Herbaspirillum seropedicae SmR1] Length = 903 Score = 80.1 bits (196), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 78/334 (23%), Positives = 127/334 (38%), Gaps = 73/334 (21%) Query: 150 IWMKVPETIRVRLHGACRPGVAARDIVLATMQQLDDEATSYRVIEYQGEGLATLSVPERM 209 ++ P+ + V L GA R GV A D+VL + L + +E+ GEG +LS+ +R Sbjct: 239 VYFLTPDVVGVNLTGALREGVTATDLVLTITELLRQTKVVGKFVEFFGEGTESLSLTDRA 298 Query: 210 TICGLCVDAGAKSGIAAVDQRCIDYLR--------------YLRAHGVTDLPAPESINSD 255 TI + + GA G VD I+Y + Y +A + +P I Sbjct: 299 TIANMAPEYGATMGFFPVDDATIEYFKGTGRTKAEIDAFEAYFKAQELYGVPKAGQI--- 355 Query: 256 ADAEYAMTIDIDLSTLTPRVSIPPSPN------------------------HVREAQAM- 290 +Y + +DL T+ P ++ P P ++A+ + Sbjct: 356 ---DYTQEVSLDLGTVAPSLAGPKRPQDRIEIGNVKSTFSDLFTKPTAENGFNKKAEDLG 412 Query: 291 ------SGIVIQH-----AYIGSCVSGSIEDIRSAAAILRGRKVHAGVHLL------VIP 333 G+ + + A I SC + S + AA +L + V AG+ + + P Sbjct: 413 ASYKNADGVDLHNGDVLIAAITSCTNTSNPSVLLAAGLLAKKAVEAGLKVAPHIKTSLAP 472 Query: 334 ATQQVFQQALQEGLLTELTAAGATISPSTCGPCFGGIAQLAAGERR-----------IST 382 ++ V + GLL L G ++ C C G L + + Sbjct: 473 GSRVVTKYLEAAGLLPYLEKLGFGVTAYGCTTCIGNAGDLTPAMNEAIVKNDVVAAAVLS 532 Query: 383 STRNDPGRMGSNEAEIFLASAMTVAASAITGHIT 416 RN R+ N FLAS V A AI G++T Sbjct: 533 GNRNFEARIHPNIRANFLASPPLVVAYAIAGNVT 566 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 0.319 0.133 0.388 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: 1,397,226 Number of extensions: 60610 Number of successful extensions: 184 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 176 Number of HSP's successfully gapped: 3 Length of query: 430 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 342 Effective length of database: 1,203,190 Effective search space: 411490980 Effective search space used: 411490980 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: 132 (55.5 bits)