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= 0007.0033.p (555 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314045|ref|YP_003778137.1| choline dehydrogenase [Herbaspi... 306 2e-84 gi|300314074|ref|YP_003778166.1| choline dehydrogenase [Herbaspi... 278 8e-76 >gi|300314045|ref|YP_003778137.1| choline dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 543 Score = 306 bits (785), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 199/537 (37%), Positives = 280/537 (52%), Gaps = 37/537 (6%) Query: 49 YDYIVVGAGSSGCVIASRLSENPDLSVLLLEAGGSDDAPSILDPGVWFTNL---GTEREW 105 +DY++VG GS+G +A+RLSE+P +SV LLEAGG D+ + P L G W Sbjct: 3 FDYVIVGGGSAGATLAARLSEDPRISVCLLEAGGQGDSLLVRTPAAVVAMLPGYGKLNNW 62 Query: 106 GDKSLPQRHLHQRTLSLAMGRAIGGGSSINVMAYARGHKSDYDHWAAEAGDAAWNYDHVL 165 ++ PQ L+ R GRA+GG S+IN M Y RG + DYD WA +AG W+++ VL Sbjct: 63 ALQTTPQPGLNGRRGYQPRGRALGGSSAINAMLYVRGQRQDYDGWA-QAGCPGWDWESVL 121 Query: 166 AIYKRIEDWQGAPDPAYRGQGGNVWVQPAKDPNPIAPAMKRAAAAIGIPSFEDHNGAMME 225 +KR E+ D A+ G G + V P PI A A A G +D N E Sbjct: 122 PYFKRAENNVRGAD-AWHGASGPLQVSEQNRPRPITRAFIEAGQARGHRLCQDFNTGDNE 180 Query: 226 GPGGCAIA--NTSIKDGRRRNMASHYLHPVM-QRKNLTVLTRAEVQRLTLSGKRATGVEL 282 G G + +T G R + A+ YLHPVM QR NL+VL + QRL GKRA GV Sbjct: 181 GVGLYQVTQFHTPAHRGERCSAAAAYLHPVMGQRPNLSVLRQVRAQRLLFEGKRAIGVAY 240 Query: 283 NWQGRQRRIGARREVILSAGALNSPKLLMLSGIGDETMLRRAGVPVRHTLAGVGRNFMDH 342 Q ++ A REVI++AGA SP+LL LSG+G + G+ + H L GVG+N DH Sbjct: 241 RQQQGDAQVRAAREVIIAAGAFGSPQLLQLSGVGRSDDILPHGIALHHPLPGVGQNLQDH 300 Query: 343 ILLG-------------GCL-----------WEYNTPEAPRNNLAECTFFWKSDSKLASP 378 + G + W+ + AE F K+ +L P Sbjct: 301 LDFTQGWTTRDTDNFGLGVVGGLRLLGQLLPWKRHGEGLIATPFAEGAAFLKTRPELDRP 360 Query: 379 DLQPFQIEIPFTSEATAKQYQVPQAAWSIAPGLVQPKSRGHLELQSADPRDRLKIHANFL 438 D+Q I + K + +S+ +++P SRG + LQSADP I +L Sbjct: 361 DIQ-LHFCIAIVDDHARKLHA--GYGFSLHMCMLRPHSRGRVGLQSADPMADPLIDPGYL 417 Query: 439 SDPADVKALVRAVELCREIGNQAELRAYAKREVMPG--PLSPKQMESFVRDAALTYWHET 496 SDP D+ ++ + R+I LR Y +RE+ G + Q ES +R A T +H Sbjct: 418 SDPRDLATMIDGARMARQIVMTEPLRHYCRRELFGGRDDMDDAQWESMIRHRADTIYHPA 477 Query: 497 GTCKMGRDQMAVVDSQLRVYGIDGLRVADGSIMPRVTTGNTMAPCMIIGERMAEILK 553 GTC+MG D MAVVD+QLRV+G+ GLRV D S+MP + +GNT AP ++I E+ A++++ Sbjct: 478 GTCRMGEDAMAVVDAQLRVHGLQGLRVVDASVMPTLVSGNTNAPTIMIAEKAADMIR 534 >gi|300314074|ref|YP_003778166.1| choline dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 539 Score = 278 bits (711), Expect = 8e-76, Method: Compositional matrix adjust. Identities = 192/540 (35%), Positives = 274/540 (50%), Gaps = 45/540 (8%) Query: 48 QYDYIVVGAGSSGCVIASRLSENPDLSVLLLEAGGSDDAPSILDPGVWFTNLGTER-EWG 106 QYDYI++GAG++GCV+A+RLS VLL+EAG DD I P + + R +W Sbjct: 6 QYDYIIIGAGTAGCVMANRLSRKTGKKVLLIEAGAKDDYIWIHIPVGYLYCINNPRTDWM 65 Query: 107 DKSLPQRHLHQRTLSLAMGRAIGGGSSINVMAYARGHKSDYDHWAAEAGDAAWNYDHVLA 166 ++ L+ R+L G+ +GG SSIN M Y RG DYDHWA GD +W + +VL Sbjct: 66 FRTEADAGLNGRSLIYPRGKVLGGCSSINGMIYMRGQARDYDHWADVTGDDSWRWQNVLP 125 Query: 167 IYKRIEDWQ-GAPDPAYRGQGGNVWVQPAKDPNPIAPAMKRAAAAIGIPSFEDHNGAMME 225 ++K+ ED+ GA + G GG V+ + I A + AAA GIP ED N E Sbjct: 126 LFKKSEDYHLGAGQ--FHGAGGEWRVEKQRLRWDILDAFRDAAAENGIPKVEDFNCGDNE 183 Query: 226 GPGGCAIANTSIKDGRRRNMASHYLHPVMQRKNLTVLTRAEVQRLTLS----GKRATGVE 281 G C + + K G R N + +L P M+ NLT++T + V RL + G TGVE Sbjct: 184 G---CGYFDVNQKRGVRWNASKAFLRPAMKDGNLTIMTGSHVSRLRMEQGEQGPVCTGVE 240 Query: 282 LNWQGRQRRIGARREVILSAGALNSPKLLMLSGIGDETMLRRAGVPVRHTLAGVGRNFMD 341 G +E IL AGA+ SP +L +SGI D +L++ +PV H L GVG N D Sbjct: 241 FT-GGGSAWFAEAKETILCAGAIGSPHILQMSGIADPALLQQHQIPVVHALPGVGENLQD 299 Query: 342 HI--------------------LLG----GCLWEYNTPEAPRNNLAECTFFWKSDSKLAS 377 H+ L+G G + + ++ F KSD++ AS Sbjct: 300 HLQMRMVFKVNGAKTLNAMASTLVGKMQIGLQYLFTQSGPMSMAPSQLGAFAKSDAQQAS 359 Query: 378 PDLQPFQIEIPFTSEATAKQ-YQVPQAAWSIAPGLVQPKSRGHLELQSADPRDRLKIHAN 436 +LQ + ++ P + E + P S+ ++P SRGH+ L S D +I N Sbjct: 360 ANLQ-YHVQ-PLSLEKFGDPLHAFPAFTASVCN--LRPTSRGHVRLASGDHALAPRITTN 415 Query: 437 FLSDPADVKALVRAVELCREIGNQAELRAYAKREVMPGPLSPKQMESF--VRDAALTYWH 494 +LS D+K A+ L R I L Y E PG + + + + T +H Sbjct: 416 YLSTEEDLKVAANALRLTRRIAASPALSRYRPEEYKPGAHYETEEDLYRAAGEVGTTIFH 475 Query: 495 ETGTCKMGR--DQMAVVDSQLRVYGIDGLRVADGSIMPRVTTGNTMAPCMIIGERMAEIL 552 GTC+MGR D MAVVD+Q RV G+ GL VAD S+MP +T+GNT +P ++I E++A L Sbjct: 476 PVGTCRMGRSDDAMAVVDAQGRVRGVGGLSVADASVMPSITSGNTNSPTVMIAEKVASSL 535 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 0.133 0.403 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: 1,817,148 Number of extensions: 77692 Number of successful extensions: 258 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 246 Number of HSP's successfully gapped: 2 Length of query: 555 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 465 Effective length of database: 1,193,720 Effective search space: 555079800 Effective search space used: 555079800 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)