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= 0004.0025.p (459 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310489|ref|YP_003774581.1| glucarate dehydratase [Herbaspi... 831 0.0 gi|300310475|ref|YP_003774567.1| mandelate racemase/muconate lac... 239 5e-64 >gi|300310489|ref|YP_003774581.1| glucarate dehydratase [Herbaspirillum seropedicae SmR1] Length = 455 Score = 831 bits (2147), Expect = 0.0, Method: Compositional matrix adjust. Identities = 430/454 (94%), Positives = 438/454 (96%), Gaps = 3/454 (0%) Query: 7 SASSP-TSSPSQHKGAPRVTDMRVIPVAGHDSMLLNLSGAHGPYFTRNIVILTDSAGNTG 65 SA+ P T P Q GAPRVT+MRVIPVAGHDSMLLNLSGAHGPYFTRN+VILTDSAGNTG Sbjct: 4 SAAIPHTVQPVQ--GAPRVTEMRVIPVAGHDSMLLNLSGAHGPYFTRNLVILTDSAGNTG 61 Query: 66 VGEVPGGEGIRQTLDDARSLVVGQSIGNVQAILNRARTAFADRDVGGRGLQTFDLRIAIH 125 VGEVPGGEGIRQTL+DAR+LVVGQSIGNVQ ILNRARTAFADRD GGRGLQTFDLRIAIH Sbjct: 62 VGEVPGGEGIRQTLEDARTLVVGQSIGNVQGILNRARTAFADRDTGGRGLQTFDLRIAIH 121 Query: 126 AVTALEAALLDLLGKFLDVPVAALLGEGQQRDEVEMLGYLFYVADRRKTDLPYLAAADAD 185 AVTALEAALLDLLGKFLDVPVAALLGEGQQRDEVEMLGYLFYVADR KTDLPYLAA DA Sbjct: 122 AVTALEAALLDLLGKFLDVPVAALLGEGQQRDEVEMLGYLFYVADRNKTDLPYLAAPDAQ 181 Query: 186 DDWLRLRHEAALTPDAVVRLAEAAYARYGFNDFKLKGGVMRGEEEIAAVTALAERFPKAR 245 DDW RLRHEAALTP+AVVRLAEAAYARYGFNDFKLKGGVMRGEEEIAAVTALAERFPKAR Sbjct: 182 DDWTRLRHEAALTPEAVVRLAEAAYARYGFNDFKLKGGVMRGEEEIAAVTALAERFPKAR 241 Query: 246 ITLDPNGGWLLKDAIRLCRDQHDVLAYAEDPCGAEGGYSGREVMAEFRRATGLQTATNMV 305 ITLDPNGGWLLKDAIRLCRDQHDVLAYAEDPCGAE GYSGREVMAEFRRATGLQTATNMV Sbjct: 242 ITLDPNGGWLLKDAIRLCRDQHDVLAYAEDPCGAEDGYSGREVMAEFRRATGLQTATNMV 301 Query: 306 ATDWRQMGHAISLQSVDIPLADPHFWTMQGSVRVAQMCHEWGLTWGSHSNNHFDISLAMF 365 ATDWRQMGHAISLQSVDIPLADPHFWTMQGSVRVAQMCHEWGLTWGSHSNNHFD+SLAMF Sbjct: 302 ATDWRQMGHAISLQSVDIPLADPHFWTMQGSVRVAQMCHEWGLTWGSHSNNHFDVSLAMF 361 Query: 366 THVAAAAPGKITAIDTHWIWQDGQRLTREPLQIVGGKVKVPGKPGLGVELDMEQVEAAHQ 425 THVAAAAPGKITAIDTHWIWQDGQRLTREPLQIVGGKV+VP KPGLGVELDM QVEAAHQ Sbjct: 362 THVAAAAPGKITAIDTHWIWQDGQRLTREPLQIVGGKVQVPTKPGLGVELDMAQVEAAHQ 421 Query: 426 TYRNMGLGARDDAVAMQYLIPGWKFDPKKPCLVR 459 TYRNMGLGARDDAVAMQYLIPGWKFDPKKPCLVR Sbjct: 422 TYRNMGLGARDDAVAMQYLIPGWKFDPKKPCLVR 455 >gi|300310475|ref|YP_003774567.1| mandelate racemase/muconate lactonizing [Herbaspirillum seropedicae SmR1] Length = 424 Score = 239 bits (609), Expect = 5e-64, Method: Compositional matrix adjust. Identities = 159/435 (36%), Positives = 223/435 (51%), Gaps = 26/435 (5%) Query: 23 RVTDMRVIPVAGHDSMLLNLSGAHGPYFTRNIVILTDSAGNTGVGEVPGGEGIRQTLDDA 82 ++T + V P+A D LLN SG H PY R+I+ + G G+GE G + LD Sbjct: 2 KITRVTVTPIAFKDGPLLNASGIHEPYALRSIIEIETDNGYIGLGESYGDAPALKILDLV 61 Query: 83 RSLVVGQ---SIGNVQAILNRARTAFADRDVGGRGLQ--TFDLRIAIHAVTALEAALLDL 137 + +VG ++ ++AI+ A A G L + + +A +A E A LD Sbjct: 62 KERLVGLDPFNLNGLRAIVRGVVAAMAPASNAGAELAPGSHASKAVSNAYSAFEVACLDA 121 Query: 138 LGKFLDVPVAALLGEGQQRDEVEMLGYLFYVADRRKTDLPYLAAADADDDWLRLRHEAAL 197 ++L+VP+ LLG G R E+ YLF+ + D PY A D W AL Sbjct: 122 QARYLNVPLVDLLG-GAVRKEIPFSAYLFF-KYAQHIDSPY-----APDAW-----GEAL 169 Query: 198 TPDAVVRLAEAAYARYGFNDFKLKGGVMRGEEEIAAVTALAERFPKARITLDPNGGWLLK 257 + + +V A GF KLK G + E E+A + AL + FP A + +DPNG W L+ Sbjct: 170 SEEQIVAQARKMIEENGFQSIKLKAGALAPEHEVACIKALRKAFPDAPLRIDPNGNWSLQ 229 Query: 258 DAIRLCRDQHDVLAYAEDPCGAEGGYSGREVMAEFRRATGLQTATNMVATDWRQMGHAIS 317 AIR+ D L Y EDP G E MAE R TGL ATNMV TD+ ++ +++ Sbjct: 230 TAIRMAELLGDDLQYYEDPT------PGLEGMAELHRRTGLPLATNMVVTDFDELRRSVA 283 Query: 318 LQSVDIPLADPHFW-TMQGSVRVAQMCHEWGLTWGSHSNNHFDISLAMFTHVAAAAPGKI 376 L SV I LAD H+W ++ + ++A+MC +GL HSN+H ISL +HVAAA Sbjct: 284 LDSVQIVLADHHYWGGLRDTQQLAKMCDVFGLGVSMHSNSHLGISLMAMSHVAAAVENLS 343 Query: 377 TAIDTHWIWQ--DGQRLTREPLQIVGGKVKVPGKPGLGVELDMEQVEAAHQTYRNMGLGA 434 A DTH+ WQ D + + L I G V++ PGLGVE+D +Q+ HQ Y G+ Sbjct: 344 YACDTHYPWQEPDEEVIQGGKLPIRNGCVQITDAPGLGVEVDQDQLRKLHQLYLECGIRQ 403 Query: 435 RDDAVAMQYLIPGWK 449 RDD M+ P WK Sbjct: 404 RDDVGQMRKYQPDWK 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 0.320 0.136 0.414 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: 1,418,662 Number of extensions: 58684 Number of successful extensions: 176 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 171 Number of HSP's successfully gapped: 2 Length of query: 459 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 371 Effective length of database: 1,203,190 Effective search space: 446383490 Effective search space used: 446383490 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)