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= 0015.0397.p (568 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... 1177 0.0 gi|300312639|ref|YP_003776731.1| choline dehydrogenase [Herbaspi... 549 e-157 gi|300313761|ref|YP_003777853.1| gluconate dehydrogenase [Herbas... 487 e-138 gi|300313052|ref|YP_003777144.1| choline dehydrogenase [Herbaspi... 84 4e-17 >gi|300313846|ref|YP_003777938.1| choline dehydrogenase-like protein [Herbaspirillum seropedicae SmR1] Length = 590 Score = 1177 bits (3046), Expect = 0.0, Method: Compositional matrix adjust. Identities = 563/568 (99%), Positives = 567/568 (99%) Query: 1 MAIELAKAGLKVRALERGPDRPPEDFAYPKPADQYGYATRNKVFATPRDAALTVRYNTAQ 60 MAIELA+AGLKVRALERGPDRPPEDFAYPKPADQYGYATRNKVFATPRDAALTVRYNTAQ Sbjct: 23 MAIELAQAGLKVRALERGPDRPPEDFAYPKPADQYGYATRNKVFATPRDAALTVRYNTAQ 82 Query: 61 QALPTRKWGAFAPGTGVGGSGLHWTAVLIRATPTDLKLKTYADQAYKHSSLDPEMRIKDF 120 QALPTRKWGAFAPGTGVGGSGLHWTAVLIRATPTDLKLKTYADQAYKHS+LDPEMRIKDF Sbjct: 83 QALPTRKWGAFAPGTGVGGSGLHWTAVLIRATPTDLKLKTYADQAYKHSNLDPEMRIKDF 142 Query: 121 PFTWNEIEPHYDFFDKVCGLSGNTGNLRGQIQPGGDPFEGPRSNPYPLPALHDTYNNTLF 180 PFTWNEIEPHYDFFDKVCGLSG TGNLRGQIQPGGDPFEGPRSNPYPLPALHDTYNNTLF Sbjct: 143 PFTWNEIEPHYDFFDKVCGLSGTTGNLRGQIQPGGDPFEGPRSNPYPLPALHDTYNNTLF 202 Query: 181 ADVARKLGYHPFPNPSANVSQAWTNPYGAQIAPCNYCGFCSKYPCLNYSKASPQTTILDV 240 ADVARKLGYHPFPNPSANVSQAWTNPYGAQIAPCNYCGFCSKYPCLNYSKASPQTTILDV Sbjct: 203 ADVARKLGYHPFPNPSANVSQAWTNPYGAQIAPCNYCGFCSKYPCLNYSKASPQTTILDV 262 Query: 241 VKRLPNFDYKVNANVIRVDLHADKKTARGVTYIDENMKEVFQPAKIVILSSFQFANVRLM 300 VKRLPNFDYKVNANVIRVDLHADKKTARGVTY+DENMKEVFQPAKIVILSSFQFANVRLM Sbjct: 263 VKRLPNFDYKVNANVIRVDLHADKKTARGVTYVDENMKEVFQPAKIVILSSFQFANVRLM 322 Query: 301 LLSGIGKPYDPITETGVIGRNYAFLSNGGATLFFKDKHFNSFATAGATGEMFNDISPGNF 360 LLSGIGKPYDPITETGVIGRNYAFLSNGGATLFFKDKHFNSFATAGATGEMFNDISPGNF Sbjct: 323 LLSGIGKPYDPITETGVIGRNYAFLSNGGATLFFKDKHFNSFATAGATGEMFNDISPGNF 382 Query: 361 DDGIKLGFIGGAKIHSSQASGAPIGTALPPGTPSWGRGWKEGMIDWYDHSMKISITTTCM 420 DDG+KLGFIGGAKIHSSQASGAPIGTALPPGTPSWGRGWKEGMIDWYDHSMKISITTTCM Sbjct: 383 DDGVKLGFIGGAKIHSSQASGAPIGTALPPGTPSWGRGWKEGMIDWYDHSMKISITTTCM 442 Query: 421 SYRGHFLDLDPNYKDPWGQPLLRMTFDWRQNELKLQRYLRDIVLKISKELNPDHMSESFL 480 SYRGHFLDLDPNYKDPWGQPLLRMTFDWRQNELKLQRYLRDIVLKISKELNPDHMSESFL Sbjct: 443 SYRGHFLDLDPNYKDPWGQPLLRMTFDWRQNELKLQRYLRDIVLKISKELNPDHMSESFL 502 Query: 481 ALDSHWDITKYVSTHNVGGAIMGDSPRDSALNKYLQSWDVHNVFVPGGNAFPQNFQANPT 540 ALDSHWDITKYVSTHNVGGAIMGDSPRDSALNKYLQSWDVHNVFVPGGNAFPQNFQANPT Sbjct: 503 ALDSHWDITKYVSTHNVGGAIMGDSPRDSALNKYLQSWDVHNVFVPGGNAFPQNFQANPT 562 Query: 541 ATIGAITLMAAHAIKTQYLKNPGPLVQA 568 ATIGAITLMAAHAIKTQYLKNPGPLVQA Sbjct: 563 ATIGAITLMAAHAIKTQYLKNPGPLVQA 590 >gi|300312639|ref|YP_003776731.1| choline dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 593 Score = 549 bits (1415), Expect = e-157, Method: Compositional matrix adjust. Identities = 273/573 (47%), Positives = 365/573 (63%), Gaps = 6/573 (1%) Query: 1 MAIELAKAGLKVRALERGPDRPPE-DFAYPKPADQYGYATRNKVFATPRDAALTVRYNTA 59 M +EL +AGL V ALERG R D YPK D+ Y+ R +F +T+R+ + Sbjct: 22 MGMELTEAGLSVLALERGDMRDTNTDTPYPKAVDELKYSVRGALFQDLSRETVTIRHTLS 81 Query: 60 QQALPTRKWGAFAPGTGVGGSGLHWTAVLIRATPTDLKLKTYADQAYKHSSLDPEMRIKD 119 A+P R+ G+F G GVGG+G HW ++ R P +L+++T+ +Q Y + +M I+D Sbjct: 82 DVAVPYRQHGSFLLGDGVGGAGFHWNGMMYRNLPEELEMRTHHEQKYGKKFIPEDMTIQD 141 Query: 120 FPFTWNEIEPHYDFFDKVCGLSGNTGNLRGQIQPGGDPFEGPRSNPYPLPALHDTYNNTL 179 T+ E+EP YDF +KV +SG GNL+GQI PGG+P EG RS+ +P P L Y+ +L Sbjct: 142 HGVTYKELEPFYDFSEKVMAVSGKAGNLKGQIVPGGNPLEGERSDEFPTPPLQYQYSASL 201 Query: 180 FADVARKLGYHPFPNPSANVSQAWTNPYGAQIAPCNYCGFCSKYPCLNYSKASPQTTILD 239 R +GYHP+P P+AN SQ +TNPYG +I PCNYCGFC Y C YSKASPQTTIL Sbjct: 202 VEKAMRDVGYHPYPAPAANASQPFTNPYGVRIGPCNYCGFCENYGCYMYSKASPQTTILP 261 Query: 240 VVKRLPNFDYKVNANVIRVDLHADKKTARGVTYIDENMKEVFQPAKIVILSSFQFANVRL 299 V+ + NF+ + A VI+V+L A K A GVTYID +EV QPA +V+L++FQ NVRL Sbjct: 262 VLLKRKNFEVRTKAQVIKVNLDASGKRATGVTYIDAQGREVEQPADLVLLTAFQTHNVRL 321 Query: 300 MLLSGIGKPYDPITETGVIGRNYAFLSNGGATLFF-KDKHFNSFATAGATGEMFNDISPG 358 +LLSGIGKPYDP+T GV+G+N+A+ NGG + K FN F GA G +D++ Sbjct: 322 LLLSGIGKPYDPVTGEGVVGKNFAYQYNGGINVIMPKGTQFNPFIGTGAGGVGMDDLNAD 381 Query: 359 NFDDGIKLGFIGGAKIHSSQASGAPI---GTALPPGTPSWGRGWKEGMIDWYDHSMKISI 415 FD G LGFIGGA I + G PI GT PSWG WK + D Y ++ I + Sbjct: 382 QFDHG-PLGFIGGASIRHVRYGGRPIKQAGTMPGEKVPSWGSEWKASVQDAYQRTLTIGM 440 Query: 416 TTTCMSYRGHFLDLDPNYKDPWGQPLLRMTFDWRQNELKLQRYLRDIVLKISKELNPDHM 475 + + M+YR +L LDP Y+D GQPLLR+T +W++NE K+ Y+ + K+ + +NP+ + Sbjct: 441 SGSVMAYRDCYLSLDPTYRDANGQPLLRLTLNWKENEGKMLTYIASQMEKVGQAMNPEKV 500 Query: 476 SESFLALDSHWDITKYVSTHNVGGAIMGDSPRDSALNKYLQSWDVHNVFVPGGNAFPQNF 535 ++ S WD Y STH GGAIMG +P++S +NKYLQSWDV NVFV G AFPQN Sbjct: 501 VKAVRKTGSSWDTRVYQSTHLTGGAIMGTTPKNSVVNKYLQSWDVPNVFVYGACAFPQNM 560 Query: 536 QANPTATIGAITLMAAHAIKTQYLKNPGPLVQA 568 NPT + A+ +A AI+ QYLKNPGPLVQA Sbjct: 561 GYNPTGLVTALAYHSAKAIREQYLKNPGPLVQA 593 >gi|300313761|ref|YP_003777853.1| gluconate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 593 Score = 487 bits (1253), Expect = e-138, Method: Compositional matrix adjust. Identities = 245/572 (42%), Positives = 346/572 (60%), Gaps = 5/572 (0%) Query: 1 MAIELAKAGLKVRALERGPDRPP-EDFAYPKPADQYGYATRNKVFATPRDAALTVRYNTA 59 MA E+ +AG +V ALERG R D AYPK ++ Y R K+F ++ T R T Sbjct: 23 MAKEMTEAGQRVVALERGVYRDTYPDGAYPKTINELEYQQRFKLFQNLNKSSFTFRRKTG 82 Query: 60 QQALPTRKWGAFAPGTGVGGSGLHWTAVLIRATPTDLKLKTYADQAYKHSSLDPEMRIKD 119 A+P R+ F PG GVGG+GLHW+ R P +L+++++ ++ Y + + +M ++D Sbjct: 83 DSAIPYRQIAMFKPGEGVGGAGLHWSGCHWRILPEELRMRSHYEERYGKNFIPKDMTLQD 142 Query: 120 FPFTWNEIEPHYDFFDKVCGLSGNTGNLRGQI-QPGGDPFEGPRSNPYPLPALHDTYNNT 178 + ++ E+EP++DF +K+ G SG + G++ G+PFE RS+ +PLPA + Y Sbjct: 143 WGVSYEELEPYFDFAEKMMGTSGTAYRVGGKVVDESGNPFEADRSDNFPLPAQKEQYQAA 202 Query: 179 LFADVARKLGYHPFPNPSANVSQAWTNPYGAQIAPCNYCGFCSKYPCLNYSKASPQTTIL 238 LF A++ G HPF PSAN + + N YG Q+ PC +CGFCS Y C NYSKASP I+ Sbjct: 203 LFRKAAQQAGLHPFTLPSANAAAPYVNQYGCQMGPCTFCGFCSGYACYNYSKASPNVNIM 262 Query: 239 DVVKRLPNFDYKVNANVIRVDLHADKKTARGVTYIDENMKEVFQPAKIVILSSFQFANVR 298 +++ F+ + + NV+R++L + +K A GVTY+D N VFQPA IVI S+F + N R Sbjct: 263 PALRQSNLFELRSSCNVLRIELDSSRKKATGVTYVDINGDTVFQPASIVIASTFAYNNAR 322 Query: 299 LMLLSGIGKPYDPITETGVIGRNYAFLSNGGATLFFK-DKHFNSFATAGATGEMFNDISP 357 L LLSGIGKPYDP++ TG +GRN AF FF+ K+ N F AG G +D + Sbjct: 323 LFLLSGIGKPYDPVSNTGAVGRNIAFQMMSTINAFFEPGKNINGFIGAGGNGVAVDDFNG 382 Query: 358 GNFDDGIKLGFIGGAKIHSSQASGAPI-GTALPPGTPSWGRGWKEGMIDWYDHSMKISIT 416 + D G LGF+GG+ I + + PI G A+P GTP WGR WK+ + D Y ++M + Sbjct: 383 DHMDHG-PLGFVGGSPIWCNPSGSKPISGIAVPSGTPRWGRAWKQAVKDSYLNTMSFDVH 441 Query: 417 TTCMSYRGHFLDLDPNYKDPWGQPLLRMTFDWRQNELKLQRYLRDIVLKISKELNPDHMS 476 M YR ++DLDPNYKD +GQPLLR TFDW+ N++++ RY+ D +KI+ EL + Sbjct: 442 GANMVYRDVYVDLDPNYKDAFGQPLLRFTFDWKDNDIRMSRYVTDQAVKIAHELKAREIK 501 Query: 477 ESFLALDSHWDITKYVSTHNVGGAIMGDSPRDSALNKYLQSWDVHNVFVPGGNAFPQNFQ 536 + + D+ Y +TH GG MG P S +N+YLQSWDVHNVF G F Q Sbjct: 502 VTVKDFGAAPDLRSYQTTHWAGGVAMGTDPSTSVVNRYLQSWDVHNVFAVGSGVFAQGIG 561 Query: 537 ANPTATIGAITLMAAHAIKTQYLKNPGPLVQA 568 NPT A+T +A AI+ QYL +P PLVQA Sbjct: 562 YNPTGAAVALTYWSARAIREQYLNDPRPLVQA 593 >gi|300313052|ref|YP_003777144.1| choline dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 543 Score = 83.6 bits (205), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 118/500 (23%), Positives = 191/500 (38%), Gaps = 77/500 (15%) Query: 78 GGSGLHWTAVLIRATPTDLKLKTYADQAYKHSSLDPEMRIKDFPFTWNEIEPHYDFFDKV 137 GGS HW R TP D++L + +D+ F ++ +EP+Y + Sbjct: 103 GGSTWHWAGTCWRLTPEDMRLHSLYGVG------------RDWAFGYDVLEPYYTRVEHQ 150 Query: 138 CGLSGNTGNLRGQIQPGGDPFEGP--RSNPYPLPALHDTYNNTLFADVARKLGYHPFPNP 195 G+ G P + P RS PYP+PAL + F +V + LGY P Sbjct: 151 LGICG----------PSDPALQWPPQRSAPYPMPALPFSPGEQRFTEVVQALGYRNIPTA 200 Query: 196 SANVSQAWTNPYGAQIAPCNYCGFCSKYPCLNYSKASPQTTILDVVKRLPNFDYK----- 250 A S PY + A C+ C+ P D L + K Sbjct: 201 QARNSGM---PYDDRPA------CCANNNCV---PVCPVGAKYDAATALARLEAKGATIL 248 Query: 251 VNANVIRVDLHADKKTARGVTYIDENMKEVFQPAKIVILSSFQFANVRLMLLSGIGK-PY 309 +A V RVD A+ + V Y D N KI +L+ +L+L+S + P+ Sbjct: 249 TDAVVYRVDTDANDRV-EAVNYFDANKLSHRITGKIFVLACNGIETPKLLLMSANSRNPH 307 Query: 310 DPITETGVIGRNYAFLSNGGATLFFKDKHFNSFATAGATGEMFNDISPGNFDDGIKLGFI 369 + +GRN TL + +++ +G M + S G F + Sbjct: 308 GLANRSDQVGRNMMDHPQLTMTLTLSEPYWSGVGPVVNSGIM--ETSQGAF----RSEHA 361 Query: 370 GGAKIHSSQASGAPIGTALPPGTPSWGRGWKEGMI-DWYDHSMKISITTTCMSYRGHFLD 428 G +++ A + A K+G++ D ++ T H + Sbjct: 362 GAYFRYNNFARNRFVTFA----------ALKKGLVGQALDEEIRRMTACTADIVLAH--E 409 Query: 429 LDPNYKDPWGQPLLRMTFDWRQNELKLQR----YLRDIVLKISKELNP----DHMSESFL 480 + P+ ++ R+T +++ L L R Y + S EL ++E+ Sbjct: 410 VLPDAEN-------RLTLSSKKDWLGLPRPAIHYDVGDYTRRSAELYSLPIGRKIAEAMG 462 Query: 481 ALDSHWDITKYVSTHNVGGAIMGDSPRDSALNKYLQSWDVHNVFVPGGNAFPQNFQANPT 540 A D S H +GG IMG P +S ++ ++ D N+++PGG A P N T Sbjct: 463 ATDIKVSPKFAQSKHIMGGTIMGLDPANSVVDPDCRAHDHDNLYLPGGGAMPSTACGNST 522 Query: 541 ATIGAITLMAAHAIKTQYLK 560 ++ A+ L AA AI Q K Sbjct: 523 ISMAALGLKAADAILRQLQK 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 0.432 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: 2,018,697 Number of extensions: 91927 Number of successful extensions: 205 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 195 Number of HSP's successfully gapped: 4 Length of query: 568 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 478 Effective length of database: 1,193,720 Effective search space: 570598160 Effective search space used: 570598160 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)