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= 0020.0402.p (424 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310475|ref|YP_003774567.1| mandelate racemase/muconate lac... 875 0.0 gi|300310489|ref|YP_003774581.1| glucarate dehydratase [Herbaspi... 221 8e-59 gi|300310362|ref|YP_003774454.1| galactonate dehydratase [Herbas... 69 5e-13 gi|300310638|ref|YP_003774730.1| muconate cycloisomerase [Herbas... 67 2e-12 gi|300312959|ref|YP_003777051.1| muconate and chloromuconate cyc... 67 3e-12 >gi|300310475|ref|YP_003774567.1| mandelate racemase/muconate lactonizing [Herbaspirillum seropedicae SmR1] Length = 424 Score = 875 bits (2261), Expect = 0.0, Method: Compositional matrix adjust. Identities = 424/424 (100%), Positives = 424/424 (100%) Query: 1 MKITRVTVTPIAFKDGPLLNASGIHEPYALRSIIEIETDNGYIGLGESYGDAPALKILDL 60 MKITRVTVTPIAFKDGPLLNASGIHEPYALRSIIEIETDNGYIGLGESYGDAPALKILDL Sbjct: 1 MKITRVTVTPIAFKDGPLLNASGIHEPYALRSIIEIETDNGYIGLGESYGDAPALKILDL 60 Query: 61 VKERLVGLDPFNLNGLRAIVRGVVAAMAPASNAGAELAPGSHASKAVSNAYSAFEVACLD 120 VKERLVGLDPFNLNGLRAIVRGVVAAMAPASNAGAELAPGSHASKAVSNAYSAFEVACLD Sbjct: 61 VKERLVGLDPFNLNGLRAIVRGVVAAMAPASNAGAELAPGSHASKAVSNAYSAFEVACLD 120 Query: 121 AQARYLNVPLVDLLGGAVRKEIPFSAYLFFKYAQHIDSPYAPDAWGEALSEEQIVAQARK 180 AQARYLNVPLVDLLGGAVRKEIPFSAYLFFKYAQHIDSPYAPDAWGEALSEEQIVAQARK Sbjct: 121 AQARYLNVPLVDLLGGAVRKEIPFSAYLFFKYAQHIDSPYAPDAWGEALSEEQIVAQARK 180 Query: 181 MIEENGFQSIKLKAGALAPEHEVACIKALRKAFPDAPLRIDPNGNWSLQTAIRMAELLGD 240 MIEENGFQSIKLKAGALAPEHEVACIKALRKAFPDAPLRIDPNGNWSLQTAIRMAELLGD Sbjct: 181 MIEENGFQSIKLKAGALAPEHEVACIKALRKAFPDAPLRIDPNGNWSLQTAIRMAELLGD 240 Query: 241 DLQYYEDPTPGLEGMAELHRRTGLPLATNMVVTDFDELRRSVALDSVQIVLADHHYWGGL 300 DLQYYEDPTPGLEGMAELHRRTGLPLATNMVVTDFDELRRSVALDSVQIVLADHHYWGGL Sbjct: 241 DLQYYEDPTPGLEGMAELHRRTGLPLATNMVVTDFDELRRSVALDSVQIVLADHHYWGGL 300 Query: 301 RDTQQLAKMCDVFGLGVSMHSNSHLGISLMAMSHVAAAVENLSYACDTHYPWQEPDEEVI 360 RDTQQLAKMCDVFGLGVSMHSNSHLGISLMAMSHVAAAVENLSYACDTHYPWQEPDEEVI Sbjct: 301 RDTQQLAKMCDVFGLGVSMHSNSHLGISLMAMSHVAAAVENLSYACDTHYPWQEPDEEVI 360 Query: 361 QGGKLPIRNGCVQITDAPGLGVEVDQDQLRKLHQLYLECGIRQRDDVGQMRKYQPDWKTV 420 QGGKLPIRNGCVQITDAPGLGVEVDQDQLRKLHQLYLECGIRQRDDVGQMRKYQPDWKTV Sbjct: 361 QGGKLPIRNGCVQITDAPGLGVEVDQDQLRKLHQLYLECGIRQRDDVGQMRKYQPDWKTV 420 Query: 421 KPRF 424 KPRF Sbjct: 421 KPRF 424 >gi|300310489|ref|YP_003774581.1| glucarate dehydratase [Herbaspirillum seropedicae SmR1] Length = 455 Score = 221 bits (564), Expect = 8e-59, Method: Compositional matrix adjust. Identities = 161/435 (37%), Positives = 223/435 (51%), Gaps = 26/435 (5%) Query: 2 KITRVTVTPIAFKDGPLLNASGIHEPYALRSIIEIETDNGYIGLGESYGDAPALKILDLV 61 ++T + V P+A D LLN SG H PY R+++ + G G+GE G + L+ Sbjct: 19 RVTEMRVIPVAGHDSMLLNLSGAHGPYFTRNLVILTDSAGNTGVGEVPGGEGIRQTLEDA 78 Query: 62 KERLVGLDPFNLNGLRAIVRGVVAAMAPASNAGAELAPGSHASKAVSNAYSAFEVACLDA 121 + +VG N+ G+ R A A G L + + +A +A E A LD Sbjct: 79 RTLVVGQSIGNVQGILNRAR---TAFADRDTGGRGLQ--TFDLRIAIHAVTALEAALLDL 133 Query: 122 QARYLNVPLVDLLG-GAVRKEIPFSAYLFFKYAQH-IDSPY--APDA---WGE-----AL 169 ++L+VP+ LLG G R E+ YLF+ ++ D PY APDA W AL Sbjct: 134 LGKFLDVPVAALLGEGQQRDEVEMLGYLFYVADRNKTDLPYLAAPDAQDDWTRLRHEAAL 193 Query: 170 SEEQIVAQARKMIEENGFQSIKLKAGALAPEHEVACIKALRKAFPDAPLRIDPNGNWSLQ 229 + E +V A GF KLK G + E E+A + AL + FP A + +DPNG W L+ Sbjct: 194 TPEAVVRLAEAAYARYGFNDFKLKGGVMRGEEEIAAVTALAERFPKARITLDPNGGWLLK 253 Query: 230 TAIRMAELLGDDLQYYEDPT------PGLEGMAELHRRTGLPLATNMVVTDFDELRRSVA 283 AIR+ D L Y EDP G E MAE R TGL ATNMV TD+ ++ +++ Sbjct: 254 DAIRLCRDQHDVLAYAEDPCGAEDGYSGREVMAEFRRATGLQTATNMVATDWRQMGHAIS 313 Query: 284 LDSVQIVLADHHYWGGLRDTQQLAKMCDVFGLGVSMHSNSHLGISLMAMSHVAAAVENLS 343 L SV I LAD H+W ++ + ++A+MC +GL HSN+H +SL +HVAAA Sbjct: 314 LQSVDIPLADPHFW-TMQGSVRVAQMCHEWGLTWGSHSNNHFDVSLAMFTHVAAAAPGKI 372 Query: 344 YACDTHYPWQEPDEEVIQGGKLPIRNGCVQITDAPGLGVEVDQDQLRKLHQLYLECGIRQ 403 A DTH+ WQ D + + L I G VQ+ PGLGVE+D Q+ HQ Y G+ Sbjct: 373 TAIDTHWIWQ--DGQRLTREPLQIVGGKVQVPTKPGLGVELDMAQVEAAHQTYRNMGLGA 430 Query: 404 RDDVGQMRKYQPDWK 418 RDD M+ P WK Sbjct: 431 RDDAVAMQYLIPGWK 445 >gi|300310362|ref|YP_003774454.1| galactonate dehydratase [Herbaspirillum seropedicae SmR1] Length = 382 Score = 69.3 bits (168), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 95/400 (23%), Positives = 172/400 (43%), Gaps = 57/400 (14%) Query: 33 IIEIETDNGYIGLGESYGDAPALKILDLVKE---RLVGLDPFNL-NGLRAIVRGVVAAMA 88 ++IETD G +G GE + A + V+E L+G DP N+ + + RG Sbjct: 17 FLKIETDEGVVGWGEPIVEGRAHSVAAAVEELSDYLIGKDPRNIEDHWTVLYRG------ 70 Query: 89 PASNAGAELAPGSHASKAVS-NAYSAFEVACLDAQARYLNVPLVDLLGGAVRKEIPFSAY 147 G + A+ +A + + A D + + L VP+ LLGGAVR I ++ Sbjct: 71 -----------GFYRGGAIHMSALAGIDQALWDIKGKDLGVPVHQLLGGAVRNSIRVYSW 119 Query: 148 LFFKYAQHIDSPYAPDAWGEALSEEQIVAQARKMIEENGFQSIKLKAGALAPEHEVACIK 207 + D P A ++ A ++ NG + ++ E +A ++ Sbjct: 120 IGG------DRPADTAAAAKSAVARGFTA-----VKMNGTEELQFIDSHDKIELTLANVQ 168 Query: 208 ALRKAF-PDAPLRIDPNGNWSLQTAIRM-AELLGDDLQYYEDP--TPGLEGMAELHRRTG 263 A+R+A P+ + +D +G A + EL L + E+P + E + E+ T Sbjct: 169 AVREAVGPNVGIGVDFHGRVHKPMAKALIKELEPYKLMFIEEPVLSENAEALKEIAHLTS 228 Query: 264 LPLATNMVVTDFDELRRSVALDSVQIVLADHHYWGGLRDTQQLAKMCDVFGLGVSMHSNS 323 P+A + + +R ++ V I+ D + GG+ +T+++A M + + + +++H Sbjct: 229 TPIALGERLYSRWDFKRILSEGYVDIIQPDVSHAGGITETRKIAMMAEAYDVALALHCP- 287 Query: 324 HLG-ISLMAMSHVAAAVENL---SYACDTHYPWQEPDEEVIQGGK-LPIRNGCVQITDAP 378 LG I+L + V A N + HY + I+ +G V+I P Sbjct: 288 -LGPIALASCLQVDAGSYNAFIQEQSLGIHYNESNDLLDYIRDKNVFAYEDGYVKIPQGP 346 Query: 379 GLGVEVDQDQLRKLHQLYLECGIRQRDDVGQMRKYQPDWK 418 GLG+E++++ +RQR +VG R P W+ Sbjct: 347 GLGIEINEEY------------VRQRAEVGH-RWRNPIWR 373 >gi|300310638|ref|YP_003774730.1| muconate cycloisomerase [Herbaspirillum seropedicae SmR1] Length = 398 Score = 67.4 bits (163), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 72/288 (25%), Positives = 120/288 (41%), Gaps = 24/288 (8%) Query: 110 AYSAFEVACLDAQARYLNVPLVDLLGGAVRKEIPFSAYLFF-KYAQHIDSPYAPDAWGEA 168 A A E A DA + +P+ LLGG R+ +P + L A+ ID Sbjct: 114 AKCAIETALFDALGQRTGLPVSQLLGGRSRESLPIAWTLASGDTAKDIDEA--------- 164 Query: 169 LSEEQIVAQARKMIEENGFQSIKLKAGALAPEHEVACIKALRKAFPD-APLRIDPNGNWS 227 E+++AQ R I KLK G + +VA + A++KA D +R+D N WS Sbjct: 165 ---ERMLAQRRHNI-------FKLKIGRREVDADVAHVAAIKKALGDRGAVRVDVNMAWS 214 Query: 228 LQTAIR-MAELLGDDLQYYEDPTPGLEGMAELHRRTGLPLATNMVVTDFDELRRSVALDS 286 A R +A L+ + E P + +A L R + + + +T + Sbjct: 215 ELEAQRGLAGLVDAGCELVEQPVASPQALARLKGRHAIAIMADESLTGPASAFALARIGG 274 Query: 287 VQIVLADHHYWGGLRDTQQLAKMCDVFGLGVSMHSNSHLGISLMAMSHVAAAVENLSYAC 346 + GGLR QQ+A + D G+ + + I +A +H A L + Sbjct: 275 ADVFAIKIEQSGGLRAAQQVAAIGDAAGIELYGGTMLEGAIGTIASAHAFATFRELQWGT 334 Query: 347 DTHYPWQEPDEEVIQGGKLPIRNGCVQITDAPGLGVEVDQDQLRKLHQ 394 + P +E I L ++ + I PGLG+ +D+++L+ + Sbjct: 335 ELFGPLLLTEE--ILAEPLQYQDFQLAIPHRPGLGITLDEERLQYFRR 380 >gi|300312959|ref|YP_003777051.1| muconate and chloromuconate cycloisomerase [Herbaspirillum seropedicae SmR1] Length = 386 Score = 67.0 bits (162), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 74/295 (25%), Positives = 127/295 (43%), Gaps = 36/295 (12%) Query: 110 AYSAFEVACLDAQARYLNVPLVDLLGGAVRKEIPFSAYLFF-KYAQHIDSPYAPDAWGEA 168 A A E A DA AR L VPL L GG VR +P + L A+ ID Sbjct: 108 AKCAIETALSDALARRLGVPLSTLFGGRVRDSLPIAWTLASGDTARDID----------- 156 Query: 169 LSEEQIVAQARKMIEENGFQSIKLKAGALAPEHEVACIKALRKAFPD-APLRIDPNGNWS 227 +A KM+ + KLK GA + + A + A+++A + +R+D N W+ Sbjct: 157 --------EAEKMLAQRRHNLFKLKIGARTVQQDCAHVAAIKRALGERGSVRVDVNQAWT 208 Query: 228 LQTAIRMAELLGD-DLQYYEDPTPGL--EGMAELHRRTGLPLATNMVV---TDFDELRRS 281 A+ + L D + E P +G+ L ++ + + + + D +L R+ Sbjct: 209 ETEAMLGMQWLADAGVDLVEQPIAASNHDGLRRLRQKNRIAIMADESLHGPQDAYQLARA 268 Query: 282 VALDSVQIVLADHHYWGGLRDTQQLAKMCDVFGLGVSMHSNSHL--GISLMAMSHVAAAV 339 A D + + + GGL QQ+A + V ++ + L I MA + + A Sbjct: 269 GAADVFAVKI---NQSGGLAGAQQVAAIASAA--QVELYGGTMLEGAIGTMASAQLFATF 323 Query: 340 ENLSYACDTHYPWQEPDEEVIQGGKLPIRNGCVQITDAPGLGVEVDQDQLRKLHQ 394 L++ + P +E I L R+ +++ PGLG+ +D+D++ L + Sbjct: 324 GTLAWGSELFGPLLLTEE--ILATPLRYRDFALELPTGPGLGITLDEDRVNALRR 376 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 0.136 0.408 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: 1,401,061 Number of extensions: 60966 Number of successful extensions: 183 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 174 Number of HSP's successfully gapped: 5 Length of query: 424 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 336 Effective length of database: 1,203,190 Effective search space: 404271840 Effective search space used: 404271840 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)