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= 0001.4442.p (590 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313846|ref|YP_003777938.1| choline dehydrogenase-like prot... 1199 0.0 gi|300312639|ref|YP_003776731.1| choline dehydrogenase [Herbaspi... 580 e-166 gi|300313761|ref|YP_003777853.1| gluconate dehydrogenase [Herbas... 509 e-145 gi|300313052|ref|YP_003777144.1| choline dehydrogenase [Herbaspi... 80 5e-16 >gi|300313846|ref|YP_003777938.1| choline dehydrogenase-like protein [Herbaspirillum seropedicae SmR1] Length = 590 Score = 1199 bits (3102), Expect = 0.0, Method: Compositional matrix adjust. Identities = 573/590 (97%), Positives = 582/590 (98%) Query: 1 MPNITNDDVDVVIVGLGWAGSLMAIELAQAGLKVRALERGPDRPPEDFAYPKPADQYGYA 60 MP+ITNDDVDVVIVGLGWAGSLMAIELAQAGLKVRALERGPDRPPEDFAYPKPADQYGYA Sbjct: 1 MPDITNDDVDVVIVGLGWAGSLMAIELAQAGLKVRALERGPDRPPEDFAYPKPADQYGYA 60 Query: 61 TRNKVFATPRDAALTVRYNTAQQALPTRKWGAFAPGTGVGGSGLHWTAVLIRPTPTDIKL 120 TRNKVFATPRDAALTVRYNTAQQALPTRKWGAFAPGTGVGGSGLHWTAVLIR TPTD+KL Sbjct: 61 TRNKVFATPRDAALTVRYNTAQQALPTRKWGAFAPGTGVGGSGLHWTAVLIRATPTDLKL 120 Query: 121 KTYADQAYKHSKLDPEMRIKDFPFTWNEIEPHFDFFEKVCGQSGKTGNLRGQIQPGGDPF 180 KTYADQAYKHS LDPEMRIKDFPFTWNEIEPH+DFF+KVCG SG TGNLRGQIQPGGDPF Sbjct: 121 KTYADQAYKHSNLDPEMRIKDFPFTWNEIEPHYDFFDKVCGLSGTTGNLRGQIQPGGDPF 180 Query: 181 EGPRSNPYPLPPLHDTYNNSLFAEVARKLGYHPFPNPSANVSQAWTNPYGAQIAPCNYCG 240 EGPRSNPYPLP LHDTYNN+LFA+VARKLGYHPFPNPSANVSQAWTNPYGAQIAPCNYCG Sbjct: 181 EGPRSNPYPLPALHDTYNNTLFADVARKLGYHPFPNPSANVSQAWTNPYGAQIAPCNYCG 240 Query: 241 FCSKYPCLNYSKASPQTTILDVVKRMPNFDYKVNANVIRVDLHADKKTARGVTYIDENMK 300 FCSKYPCLNYSKASPQTTILDVVKR+PNFDYKVNANVIRVDLHADKKTARGVTY+DENMK Sbjct: 241 FCSKYPCLNYSKASPQTTILDVVKRLPNFDYKVNANVIRVDLHADKKTARGVTYVDENMK 300 Query: 301 EVFQPAKIVILSSFQFANVRLMLLSGIGKPYDPITETGVIGRNYAFLSNGGATLFFKDKH 360 EVFQPAKIVILSSFQFANVRLMLLSGIGKPYDPITETGVIGRNYAFLSNGGATLFFKDKH Sbjct: 301 EVFQPAKIVILSSFQFANVRLMLLSGIGKPYDPITETGVIGRNYAFLSNGGATLFFKDKH 360 Query: 361 FNSFATAGATGEMFNDISPGNFDDGIKLGFIGGAKIHSSQASGAPIGTALPPGTPSWGRG 420 FNSFATAGATGEMFNDISPGNFDDG+KLGFIGGAKIHSSQASGAPIGTALPPGTPSWGRG Sbjct: 361 FNSFATAGATGEMFNDISPGNFDDGVKLGFIGGAKIHSSQASGAPIGTALPPGTPSWGRG 420 Query: 421 WKEGMIDWYDHSMKISITTTCMSYRGHFLDLDPNYKDPWGQPLLRMTFDWRQNELKLQRY 480 WKEGMIDWYDHSMKISITTTCMSYRGHFLDLDPNYKDPWGQPLLRMTFDWRQNELKLQRY Sbjct: 421 WKEGMIDWYDHSMKISITTTCMSYRGHFLDLDPNYKDPWGQPLLRMTFDWRQNELKLQRY 480 Query: 481 LRDIVLKISKELNPDHMSESFLALDSHWDITKYVSTHNVGGAIMGDSPRDSALNKYLQSW 540 LRDIVLKISKELNPDHMSESFLALDSHWDITKYVSTHNVGGAIMGDSPRDSALNKYLQSW Sbjct: 481 LRDIVLKISKELNPDHMSESFLALDSHWDITKYVSTHNVGGAIMGDSPRDSALNKYLQSW 540 Query: 541 DVHNVFVPGGNAFPQNFQANPTDTIGAITLMAAQAIKTQYLKNPGPLVQV 590 DVHNVFVPGGNAFPQNFQANPT TIGAITLMAA AIKTQYLKNPGPLVQ Sbjct: 541 DVHNVFVPGGNAFPQNFQANPTATIGAITLMAAHAIKTQYLKNPGPLVQA 590 >gi|300312639|ref|YP_003776731.1| choline dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 593 Score = 580 bits (1494), Expect = e-166, Method: Compositional matrix adjust. Identities = 287/591 (48%), Positives = 382/591 (64%), Gaps = 6/591 (1%) Query: 4 ITNDDVDVVIVGLGWAGSLMAIELAQAGLKVRALERGPDRPPE-DFAYPKPADQYGYATR 62 I D VDVV+VGLGW GS+M +EL +AGL V ALERG R D YPK D+ Y+ R Sbjct: 3 IKKDKVDVVMVGLGWTGSIMGMELTEAGLSVLALERGDMRDTNTDTPYPKAVDELKYSVR 62 Query: 63 NKVFATPRDAALTVRYNTAQQALPTRKWGAFAPGTGVGGSGLHWTAVLIRPTPTDIKLKT 122 +F +T+R+ + A+P R+ G+F G GVGG+G HW ++ R P +++++T Sbjct: 63 GALFQDLSRETVTIRHTLSDVAVPYRQHGSFLLGDGVGGAGFHWNGMMYRNLPEELEMRT 122 Query: 123 YADQAYKHSKLDPEMRIKDFPFTWNEIEPHFDFFEKVCGQSGKTGNLRGQIQPGGDPFEG 182 + +Q Y + +M I+D T+ E+EP +DF EKV SGK GNL+GQI PGG+P EG Sbjct: 123 HHEQKYGKKFIPEDMTIQDHGVTYKELEPFYDFSEKVMAVSGKAGNLKGQIVPGGNPLEG 182 Query: 183 PRSNPYPLPPLHDTYNNSLFAEVARKLGYHPFPNPSANVSQAWTNPYGAQIAPCNYCGFC 242 RS+ +P PPL Y+ SL + R +GYHP+P P+AN SQ +TNPYG +I PCNYCGFC Sbjct: 183 ERSDEFPTPPLQYQYSASLVEKAMRDVGYHPYPAPAANASQPFTNPYGVRIGPCNYCGFC 242 Query: 243 SKYPCLNYSKASPQTTILDVVKRMPNFDYKVNANVIRVDLHADKKTARGVTYIDENMKEV 302 Y C YSKASPQTTIL V+ + NF+ + A VI+V+L A K A GVTYID +EV Sbjct: 243 ENYGCYMYSKASPQTTILPVLLKRKNFEVRTKAQVIKVNLDASGKRATGVTYIDAQGREV 302 Query: 303 FQPAKIVILSSFQFANVRLMLLSGIGKPYDPITETGVIGRNYAFLSNGGATLFF-KDKHF 361 QPA +V+L++FQ NVRL+LLSGIGKPYDP+T GV+G+N+A+ NGG + K F Sbjct: 303 EQPADLVLLTAFQTHNVRLLLLSGIGKPYDPVTGEGVVGKNFAYQYNGGINVIMPKGTQF 362 Query: 362 NSFATAGATGEMFNDISPGNFDDGIKLGFIGGAKIHSSQASGAPI---GTALPPGTPSWG 418 N F GA G +D++ FD G LGFIGGA I + G PI GT PSWG Sbjct: 363 NPFIGTGAGGVGMDDLNADQFDHG-PLGFIGGASIRHVRYGGRPIKQAGTMPGEKVPSWG 421 Query: 419 RGWKEGMIDWYDHSMKISITTTCMSYRGHFLDLDPNYKDPWGQPLLRMTFDWRQNELKLQ 478 WK + D Y ++ I ++ + M+YR +L LDP Y+D GQPLLR+T +W++NE K+ Sbjct: 422 SEWKASVQDAYQRTLTIGMSGSVMAYRDCYLSLDPTYRDANGQPLLRLTLNWKENEGKML 481 Query: 479 RYLRDIVLKISKELNPDHMSESFLALDSHWDITKYVSTHNVGGAIMGDSPRDSALNKYLQ 538 Y+ + K+ + +NP+ + ++ S WD Y STH GGAIMG +P++S +NKYLQ Sbjct: 482 TYIASQMEKVGQAMNPEKVVKAVRKTGSSWDTRVYQSTHLTGGAIMGTTPKNSVVNKYLQ 541 Query: 539 SWDVHNVFVPGGNAFPQNFQANPTDTIGAITLMAAQAIKTQYLKNPGPLVQ 589 SWDV NVFV G AFPQN NPT + A+ +A+AI+ QYLKNPGPLVQ Sbjct: 542 SWDVPNVFVYGACAFPQNMGYNPTGLVTALAYHSAKAIREQYLKNPGPLVQ 592 >gi|300313761|ref|YP_003777853.1| gluconate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 593 Score = 509 bits (1311), Expect = e-145, Method: Compositional matrix adjust. Identities = 256/593 (43%), Positives = 361/593 (60%), Gaps = 5/593 (0%) Query: 1 MPNITNDDVDVVIVGLGWAGSLMAIELAQAGLKVRALERGPDRPPE-DFAYPKPADQYGY 59 M N VDVVIVG GW G++MA E+ +AG +V ALERG R D AYPK ++ Y Sbjct: 1 MANKNMKPVDVVIVGFGWTGAIMAKEMTEAGQRVVALERGVYRDTYPDGAYPKTINELEY 60 Query: 60 ATRNKVFATPRDAALTVRYNTAQQALPTRKWGAFAPGTGVGGSGLHWTAVLIRPTPTDIK 119 R K+F ++ T R T A+P R+ F PG GVGG+GLHW+ R P +++ Sbjct: 61 QQRFKLFQNLNKSSFTFRRKTGDSAIPYRQIAMFKPGEGVGGAGLHWSGCHWRILPEELR 120 Query: 120 LKTYADQAYKHSKLDPEMRIKDFPFTWNEIEPHFDFFEKVCGQSGKTGNLRGQI-QPGGD 178 ++++ ++ Y + + +M ++D+ ++ E+EP+FDF EK+ G SG + G++ G+ Sbjct: 121 MRSHYEERYGKNFIPKDMTLQDWGVSYEELEPYFDFAEKMMGTSGTAYRVGGKVVDESGN 180 Query: 179 PFEGPRSNPYPLPPLHDTYNNSLFAEVARKLGYHPFPNPSANVSQAWTNPYGAQIAPCNY 238 PFE RS+ +PLP + Y +LF + A++ G HPF PSAN + + N YG Q+ PC + Sbjct: 181 PFEADRSDNFPLPAQKEQYQAALFRKAAQQAGLHPFTLPSANAAAPYVNQYGCQMGPCTF 240 Query: 239 CGFCSKYPCLNYSKASPQTTILDVVKRMPNFDYKVNANVIRVDLHADKKTARGVTYIDEN 298 CGFCS Y C NYSKASP I+ +++ F+ + + NV+R++L + +K A GVTY+D N Sbjct: 241 CGFCSGYACYNYSKASPNVNIMPALRQSNLFELRSSCNVLRIELDSSRKKATGVTYVDIN 300 Query: 299 MKEVFQPAKIVILSSFQFANVRLMLLSGIGKPYDPITETGVIGRNYAFLSNGGATLFFK- 357 VFQPA IVI S+F + N RL LLSGIGKPYDP++ TG +GRN AF FF+ Sbjct: 301 GDTVFQPASIVIASTFAYNNARLFLLSGIGKPYDPVSNTGAVGRNIAFQMMSTINAFFEP 360 Query: 358 DKHFNSFATAGATGEMFNDISPGNFDDGIKLGFIGGAKIHSSQASGAPI-GTALPPGTPS 416 K+ N F AG G +D + + D G LGF+GG+ I + + PI G A+P GTP Sbjct: 361 GKNINGFIGAGGNGVAVDDFNGDHMDHG-PLGFVGGSPIWCNPSGSKPISGIAVPSGTPR 419 Query: 417 WGRGWKEGMIDWYDHSMKISITTTCMSYRGHFLDLDPNYKDPWGQPLLRMTFDWRQNELK 476 WGR WK+ + D Y ++M + M YR ++DLDPNYKD +GQPLLR TFDW+ N+++ Sbjct: 420 WGRAWKQAVKDSYLNTMSFDVHGANMVYRDVYVDLDPNYKDAFGQPLLRFTFDWKDNDIR 479 Query: 477 LQRYLRDIVLKISKELNPDHMSESFLALDSHWDITKYVSTHNVGGAIMGDSPRDSALNKY 536 + RY+ D +KI+ EL + + + D+ Y +TH GG MG P S +N+Y Sbjct: 480 MSRYVTDQAVKIAHELKAREIKVTVKDFGAAPDLRSYQTTHWAGGVAMGTDPSTSVVNRY 539 Query: 537 LQSWDVHNVFVPGGNAFPQNFQANPTDTIGAITLMAAQAIKTQYLKNPGPLVQ 589 LQSWDVHNVF G F Q NPT A+T +A+AI+ QYL +P PLVQ Sbjct: 540 LQSWDVHNVFAVGSGVFAQGIGYNPTGAAVALTYWSARAIREQYLNDPRPLVQ 592 >gi|300313052|ref|YP_003777144.1| choline dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 543 Score = 80.1 bits (196), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 120/505 (23%), Positives = 190/505 (37%), Gaps = 85/505 (16%) Query: 99 VGGSGLHWTAVLIRPTPTDIKLKTYADQAYKHSKLDPEMRIKDFPFTWNEIEPHFDFFEK 158 GGS HW R TP D++L + +D+ F ++ +EP++ E Sbjct: 102 AGGSTWHWAGTCWRLTPEDMRLHSLYGVG------------RDWAFGYDVLEPYYTRVEH 149 Query: 159 VCGQSGKTGNLRGQIQPGGDPFEGP--RSNPYPLPPLHDTYNNSLFAEVARKLGYHPFPN 216 G G P + P RS PYP+P L + F EV + LGY P Sbjct: 150 QLGICG----------PSDPALQWPPQRSAPYPMPALPFSPGEQRFTEVVQALGYRNIPT 199 Query: 217 PSANVSQAWTNPYGAQIAPCN------YCGFCSKY---PCLNYSKASPQTTILDVVKRMP 267 A S PY + A C C +KY L +A T + D V Sbjct: 200 AQARNSGM---PYDDRPACCANNNCVPVCPVGAKYDAATALARLEAKGATILTDAV---- 252 Query: 268 NFDYKVNANVIRVDLHADKKTARGVTYIDENMKEVFQPAKIVILSSFQFANVRLMLLSGI 327 V RVD A+ + V Y D N KI +L+ +L+L+S Sbjct: 253 ---------VYRVDTDANDRV-EAVNYFDANKLSHRITGKIFVLACNGIETPKLLLMSAN 302 Query: 328 GK-PYDPITETGVIGRNYAFLSNGGATLFFKDKHFNSFATAGATGEMFNDISPGNFDDGI 386 + P+ + +GRN TL + +++ +G M + S G F Sbjct: 303 SRNPHGLANRSDQVGRNMMDHPQLTMTLTLSEPYWSGVGPVVNSGIM--ETSQGAF---- 356 Query: 387 KLGFIGGAKIHSSQASGAPIGTALPPGTPSWGRGWKEGMI-DWYDHSMKISITTTCMSYR 445 + G +++ A + A K+G++ D ++ T Sbjct: 357 RSEHAGAYFRYNNFARNRFVTFA----------ALKKGLVGQALDEEIRRMTACTADIVL 406 Query: 446 GHFLDLDPNYKDPWGQPLLRMTFDWRQNELKLQR----YLRDIVLKISKELNP----DHM 497 H ++ P+ ++ R+T +++ L L R Y + S EL + Sbjct: 407 AH--EVLPDAEN-------RLTLSSKKDWLGLPRPAIHYDVGDYTRRSAELYSLPIGRKI 457 Query: 498 SESFLALDSHWDITKYVSTHNVGGAIMGDSPRDSALNKYLQSWDVHNVFVPGGNAFPQNF 557 +E+ A D S H +GG IMG P +S ++ ++ D N+++PGG A P Sbjct: 458 AEAMGATDIKVSPKFAQSKHIMGGTIMGLDPANSVVDPDCRAHDHDNLYLPGGGAMPSTA 517 Query: 558 QANPTDTIGAITLMAAQAIKTQYLK 582 N T ++ A+ L AA AI Q K Sbjct: 518 CGNSTISMAALGLKAADAILRQLQK 542 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 0.137 0.433 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: 2,045,620 Number of extensions: 92589 Number of successful extensions: 235 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 225 Number of HSP's successfully gapped: 4 Length of query: 590 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 499 Effective length of database: 1,188,985 Effective search space: 593303515 Effective search space used: 593303515 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 (21.7 bits) S2: 133 (55.8 bits)