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= 0029.0002.p (539 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314074|ref|YP_003778166.1| choline dehydrogenase [Herbaspi... 875 0.0 gi|300314045|ref|YP_003778137.1| choline dehydrogenase [Herbaspi... 329 4e-91 >gi|300314074|ref|YP_003778166.1| choline dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 539 Score = 875 bits (2260), Expect = 0.0, Method: Compositional matrix adjust. Identities = 411/533 (77%), Positives = 463/533 (86%), Gaps = 6/533 (1%) Query: 1 MESAGKYDYIIVGGGTAGCVLANRLSRDAGIKVLLIEAGAKDDYLWIHIPVGYLYCINNP 60 M+SAG+YDYII+G GTAGCV+ANRLSR G KVLLIEAGAKDDY+WIHIPVGYLYCINNP Sbjct: 1 MQSAGQYDYIIIGAGTAGCVMANRLSRKTGKKVLLIEAGAKDDYIWIHIPVGYLYCINNP 60 Query: 61 RTDWLYRTEAXG-----SLIYPRGKVLGGCSSINGMIYMRGQERDYNEWAQLSGDDSWRW 115 RTDW++RTEA SLIYPRGKVLGGCSSINGMIYMRGQ RDY+ WA ++GDDSWRW Sbjct: 61 RTDWMFRTEADAGLNGRSLIYPRGKVLGGCSSINGMIYMRGQARDYDHWADVTGDDSWRW 120 Query: 116 DRVLPLFRKSEDHYKGSDEFHGAGGEWRVEKQRLSWEILDAFRDAAAETGIPKIDDFNRG 175 VLPLF+KSED++ G+ +FHGAGGEWRVEKQRL W+ILDAFRDAAAE GIPK++DFN G Sbjct: 121 QNVLPLFKKSEDYHLGAGQFHGAGGEWRVEKQRLRWDILDAFRDAAAENGIPKVEDFNCG 180 Query: 176 HNEGSSYFDVNQKRGIRWNASKAFLKPAMKNGNLDVMTGSHVKRLRIEQRDTGPVCVGVE 235 NEG YFDVNQKRG+RWNASKAFL+PAMK+GNL +MTGSHV RLR+EQ + GPVC GVE Sbjct: 181 DNEGCGYFDVNQKRGVRWNASKAFLRPAMKDGNLTIMTGSHVSRLRMEQGEQGPVCTGVE 240 Query: 236 FTGGGSEWYAEATSETILAAGAVGSPHILQLSGIGPAALLQQHQIPVVKDLAGVGENLQD 295 FTGGGS W+AEA ETIL AGA+GSPHILQ+SGI ALLQQHQIPVV L GVGENLQD Sbjct: 241 FTGGGSAWFAEA-KETILCAGAIGSPHILQMSGIADPALLQQHQIPVVHALPGVGENLQD 299 Query: 296 HLQIRMAFKVKGVKTLNMMAGNWYGKMMIGVQYAMFQSGPMSMAPSQLGVFAKSDASQSS 355 HLQ+RM FKV G KTLN MA GKM IG+QY QSGPMSMAPSQLG FAKSDA Q+S Sbjct: 300 HLQMRMVFKVNGAKTLNAMASTLVGKMQIGLQYLFTQSGPMSMAPSQLGAFAKSDAQQAS 359 Query: 356 ANLEYHVQPLSLEKFGDPLHPFPAFTASVCNLRPTSRGHIRLGSNDGALAPKITLNYLST 415 ANL+YHVQPLSLEKFGDPLH FPAFTASVCNLRPTSRGH+RL S D ALAP+IT NYLST Sbjct: 360 ANLQYHVQPLSLEKFGDPLHAFPAFTASVCNLRPTSRGHVRLASGDHALAPRITTNYLST 419 Query: 416 EADRKVAADSLKLTRKIVSAPALRKYQPDECKPGVEYQSEEELYKAAGEIGTTIFHPVGT 475 E D KVAA++L+LTR+I ++PAL +Y+P+E KPG Y++EE+LY+AAGE+GTTIFHPVGT Sbjct: 420 EEDLKVAANALRLTRRIAASPALSRYRPEEYKPGAHYETEEDLYRAAGEVGTTIFHPVGT 479 Query: 476 CKMGRADDAQAVVDSQLRVRGVGGLRVVDASVMPTITSGNTNSPTLMIAEKAA 528 C+MGR+DDA AVVD+Q RVRGVGGL V DASVMP+ITSGNTNSPT+MIAEK A Sbjct: 480 CRMGRSDDAMAVVDAQGRVRGVGGLSVADASVMPSITSGNTNSPTVMIAEKVA 532 >gi|300314045|ref|YP_003778137.1| choline dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 543 Score = 329 bits (843), Expect = 4e-91, Method: Compositional matrix adjust. Identities = 202/541 (37%), Positives = 284/541 (52%), Gaps = 20/541 (3%) Query: 7 YDYIIVGGGTAGCVLANRLSRDAGIKVLLIEAGAKDDYLWIHIPVGYLYCINN--PRTDW 64 +DY+IVGGG+AG LA RLS D I V L+EAG + D L + P + + +W Sbjct: 3 FDYVIVGGGSAGATLAARLSEDPRISVCLLEAGGQGDSLLVRTPAAVVAMLPGYGKLNNW 62 Query: 65 LYRTEAXGSL-----IYPRGKVLGGCSSINGMIYMRGQERDYNEWAQLSGDDSWRWDRVL 119 +T L PRG+ LGG S+IN M+Y+RGQ +DY+ WAQ +G W W+ VL Sbjct: 63 ALQTTPQPGLNGRRGYQPRGRALGGSSAINAMLYVRGQRQDYDGWAQ-AGCPGWDWESVL 121 Query: 120 PLFRKSEDHYKGSDEFHGAGGEWRVEKQRLSWEILDAFRDAAAETGIPKIDDFNRGHNEG 179 P F+++E++ +G+D +HGA G +V +Q I AF +A G DFN G NEG Sbjct: 122 PYFKRAENNVRGADAWHGASGPLQVSEQNRPRPITRAFIEAGQARGHRLCQDFNTGDNEG 181 Query: 180 SSYFDVNQ-----KRGIRWNASKAFLKPAM-KNGNLDVMTGSHVKRLRIEQRDTGPVCVG 233 + V Q RG R +A+ A+L P M + NL V+ +RL E G +G Sbjct: 182 VGLYQVTQFHTPAHRGERCSAAAAYLHPVMGQRPNLSVLRQVRAQRLLFE----GKRAIG 237 Query: 234 VEFTGGGSEWYAEATSETILAAGAVGSPHILQLSGIGPAALLQQHQIPVVKDLAGVGENL 293 V + + A E I+AAGA GSP +LQLSG+G + + H I + L GVG+NL Sbjct: 238 VAYRQQQGDAQVRAAREVIIAAGAFGSPQLLQLSGVGRSDDILPHGIALHHPLPGVGQNL 297 Query: 294 QDHLQIRMAFKVKGVKTLNMMAGNWYGKMMIGVQYAMFQSGPMSMAPSQLGVFAKSDASQ 353 QDHL + + + + + + G ++ ++ F K+ Sbjct: 298 QDHLDFTQGWTTRDTDNFGLGVVGGLRLLGQLLPWKRHGEGLIATPFAEGAAFLKTRPEL 357 Query: 354 SSANLEYHVQPLSLEKFGDPLHPFPAFTASVCNLRPTSRGHIRLGSNDGALAPKITLNYL 413 +++ H ++ LH F+ +C LRP SRG + L S D P I YL Sbjct: 358 DRPDIQLHFCIAIVDDHARKLHAGYGFSLHMCMLRPHSRGRVGLQSADPMADPLIDPGYL 417 Query: 414 STEADRKVAADSLKLTRKIVSAPALRKYQPDECKPGVEYQSEEELYKAAGEIGTTIFHPV 473 S D D ++ R+IV LR Y E G + + + TI+HP Sbjct: 418 SDPRDLATMIDGARMARQIVMTEPLRHYCRRELFGGRDDMDDAQWESMIRHRADTIYHPA 477 Query: 474 GTCKMGRADDAQAVVDSQLRVRGVGGLRVVDASVMPTITSGNTNSPTLMIAEKAAELIRA 533 GTC+MG +DA AVVD+QLRV G+ GLRVVDASVMPT+ SGNTN+PT+MIAEKAA++IRA Sbjct: 478 GTCRMG--EDAMAVVDAQLRVHGLQGLRVVDASVMPTLVSGNTNAPTIMIAEKAADMIRA 535 Query: 534 A 534 + Sbjct: 536 S 536 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 0.135 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: 1,751,934 Number of extensions: 76223 Number of successful extensions: 249 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 241 Number of HSP's successfully gapped: 2 Length of query: 539 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 449 Effective length of database: 1,193,720 Effective search space: 535980280 Effective search space used: 535980280 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: 133 (55.8 bits)