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= 0001.3309.p (593 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312639|ref|YP_003776731.1| choline dehydrogenase [Herbaspi... 1208 0.0 gi|300313761|ref|YP_003777853.1| gluconate dehydrogenase [Herbas... 645 0.0 gi|300313846|ref|YP_003777938.1| choline dehydrogenase-like prot... 567 e-163 >gi|300312639|ref|YP_003776731.1| choline dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 593 Score = 1208 bits (3126), Expect = 0.0, Method: Compositional matrix adjust. Identities = 578/593 (97%), Positives = 589/593 (99%) Query: 1 MAIKKDKVDVVMVGLGWTGSIMGMELTEAGLNVLALERGDMRDTNTDTPYPKAVDELKYS 60 MAIKKDKVDVVMVGLGWTGSIMGMELTEAGL+VLALERGDMRDTNTDTPYPKAVDELKYS Sbjct: 1 MAIKKDKVDVVMVGLGWTGSIMGMELTEAGLSVLALERGDMRDTNTDTPYPKAVDELKYS 60 Query: 61 VRGALFQDLSRETVTIRHTLSDVAVPYRQHGSFLLGDGVGGAGFHWNGMMYRNLPEELEM 120 VRGALFQDLSRETVTIRHTLSDVAVPYRQHGSFLLGDGVGGAGFHWNGMMYRNLPEELEM Sbjct: 61 VRGALFQDLSRETVTIRHTLSDVAVPYRQHGSFLLGDGVGGAGFHWNGMMYRNLPEELEM 120 Query: 121 RSHYEQKYGKKFIPEDMTIQDHGVTYKELEPFYDFSEKVMAVSGKAGNLKGKIVAGGNPL 180 R+H+EQKYGKKFIPEDMTIQDHGVTYKELEPFYDFSEKVMAVSGKAGNLKG+IV GGNPL Sbjct: 121 RTHHEQKYGKKFIPEDMTIQDHGVTYKELEPFYDFSEKVMAVSGKAGNLKGQIVPGGNPL 180 Query: 181 EGERSDEFPNPPLQYQYSASLVEKAMREVGYHPYPAPAANASQPFTNPYGVRIGPCNYCG 240 EGERSDEFP PPLQYQYSASLVEKAMR+VGYHPYPAPAANASQPFTNPYGVRIGPCNYCG Sbjct: 181 EGERSDEFPTPPLQYQYSASLVEKAMRDVGYHPYPAPAANASQPFTNPYGVRIGPCNYCG 240 Query: 241 FCENYGCYMYSKASPQTTILPVLLKRKNFEVRTKAQVIKVNLDAAGKRATGVTYIDAQGR 300 FCENYGCYMYSKASPQTTILPVLLKRKNFEVRTKAQVIKVNLDA+GKRATGVTYIDAQGR Sbjct: 241 FCENYGCYMYSKASPQTTILPVLLKRKNFEVRTKAQVIKVNLDASGKRATGVTYIDAQGR 300 Query: 301 EVEQPADLVLLTAFQTHNVRLLLLSGIGKPYDPVTGEGVVGKNFAYQYNGGINVIMPKGT 360 EVEQPADLVLLTAFQTHNVRLLLLSGIGKPYDPVTGEGVVGKNFAYQYNGGINVIMPKGT Sbjct: 301 EVEQPADLVLLTAFQTHNVRLLLLSGIGKPYDPVTGEGVVGKNFAYQYNGGINVIMPKGT 360 Query: 361 QFNPFIGTGAGGVGMDDLNGDQFDHGPLGFIGGASIRHVRYGGRPIKQAGTMPGEKVPNW 420 QFNPFIGTGAGGVGMDDLN DQFDHGPLGFIGGASIRHVRYGGRPIKQAGTMPGEKVP+W Sbjct: 361 QFNPFIGTGAGGVGMDDLNADQFDHGPLGFIGGASIRHVRYGGRPIKQAGTMPGEKVPSW 420 Query: 421 GSEWKASVQDAYQRTLTIGMSGSVMAYRDCYLSLDPTYKDANGQPLLRMTLNWKENEGKM 480 GSEWKASVQDAYQRTLTIGMSGSVMAYRDCYLSLDPTY+DANGQPLLR+TLNWKENEGKM Sbjct: 421 GSEWKASVQDAYQRTLTIGMSGSVMAYRDCYLSLDPTYRDANGQPLLRLTLNWKENEGKM 480 Query: 481 LTHIAGEMEKVGQAMNPEKVVKAVRKTGSSWDTRVYQSTHLTGGAIMGTTPKNSVVNKYL 540 LT+IA +MEKVGQAMNPEKVVKAVRKTGSSWDTRVYQSTHLTGGAIMGTTPKNSVVNKYL Sbjct: 481 LTYIASQMEKVGQAMNPEKVVKAVRKTGSSWDTRVYQSTHLTGGAIMGTTPKNSVVNKYL 540 Query: 541 QSWDVPNVFVYGACAFPQNMGYNPTGLVTALAYHSAKAIREQYLKNPGPLVQA 593 QSWDVPNVFVYGACAFPQNMGYNPTGLVTALAYHSAKAIREQYLKNPGPLVQA Sbjct: 541 QSWDVPNVFVYGACAFPQNMGYNPTGLVTALAYHSAKAIREQYLKNPGPLVQA 593 >gi|300313761|ref|YP_003777853.1| gluconate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 593 Score = 645 bits (1665), Expect = 0.0, Method: Compositional matrix adjust. Identities = 308/595 (51%), Positives = 397/595 (66%), Gaps = 4/595 (0%) Query: 1 MAIKKDK-VDVVMVGLGWTGSIMGMELTEAGLNVLALERGDMRDTNTDTPYPKAVDELKY 59 MA K K VDVV+VG GWTG+IM E+TEAG V+ALERG RDT D YPK ++EL+Y Sbjct: 1 MANKNMKPVDVVIVGFGWTGAIMAKEMTEAGQRVVALERGVYRDTYPDGAYPKTINELEY 60 Query: 60 SVRGALFQDLSRETVTIRHTLSDVAVPYRQHGSFLLGDGVGGAGFHWNGMMYRNLPEELE 119 R LFQ+L++ + T R D A+PYRQ F G+GVGGAG HW+G +R LPEEL Sbjct: 61 QQRFKLFQNLNKSSFTFRRKTGDSAIPYRQIAMFKPGEGVGGAGLHWSGCHWRILPEELR 120 Query: 120 MRSHYEQKYGKKFIPEDMTIQDHGVTYKELEPFYDFSEKVMAVSGKAGNLKGKIV-AGGN 178 MRSHYE++YGK FIP+DMT+QD GV+Y+ELEP++DF+EK+M SG A + GK+V GN Sbjct: 121 MRSHYEERYGKNFIPKDMTLQDWGVSYEELEPYFDFAEKMMGTSGTAYRVGGKVVDESGN 180 Query: 179 PLEGERSDEFPNPPLQYQYSASLVEKAMREVGYHPYPAPAANASQPFTNPYGVRIGPCNY 238 P E +RSD FP P + QY A+L KA ++ G HP+ P+ANA+ P+ N YG ++GPC + Sbjct: 181 PFEADRSDNFPLPAQKEQYQAALFRKAAQQAGLHPFTLPSANAAAPYVNQYGCQMGPCTF 240 Query: 239 CGFCENYGCYMYSKASPQTTILPVLLKRKNFEVRTKAQVIKVNLDAAGKRATGVTYIDAQ 298 CGFC Y CY YSKASP I+P L + FE+R+ V+++ LD++ K+ATGVTY+D Sbjct: 241 CGFCSGYACYNYSKASPNVNIMPALRQSNLFELRSSCNVLRIELDSSRKKATGVTYVDIN 300 Query: 299 GREVEQPADLVLLTAFQTHNVRLLLLSGIGKPYDPVTGEGVVGKNFAYQYNGGINVIMPK 358 G V QPA +V+ + F +N RL LLSGIGKPYDPV+ G VG+N A+Q IN Sbjct: 301 GDTVFQPASIVIASTFAYNNARLFLLSGIGKPYDPVSNTGAVGRNIAFQMMSTINAFFEP 360 Query: 359 GTQFNPFIGTGAGGVGMDDLNGDQFDHGPLGFIGGASIRHVRYGGRPIKQAGTMPGEKVP 418 G N FIG G GV +DD NGD DHGPLGF+GG+ I G +PI G P Sbjct: 361 GKNINGFIGAGGNGVAVDDFNGDHMDHGPLGFVGGSPIWCNPSGSKPISGIAVPSG--TP 418 Query: 419 NWGSEWKASVQDAYQRTLTIGMSGSVMAYRDCYLSLDPTYKDANGQPLLRMTLNWKENEG 478 WG WK +V+D+Y T++ + G+ M YRD Y+ LDP YKDA GQPLLR T +WK+N+ Sbjct: 419 RWGRAWKQAVKDSYLNTMSFDVHGANMVYRDVYVDLDPNYKDAFGQPLLRFTFDWKDNDI 478 Query: 479 KMLTHIAGEMEKVGQAMNPEKVVKAVRKTGSSWDTRVYQSTHLTGGAIMGTTPKNSVVNK 538 +M ++ + K+ + ++ V+ G++ D R YQ+TH GG MGT P SVVN+ Sbjct: 479 RMSRYVTDQAVKIAHELKAREIKVTVKDFGAAPDLRSYQTTHWAGGVAMGTDPSTSVVNR 538 Query: 539 YLQSWDVPNVFVYGACAFPQNMGYNPTGLVTALAYHSAKAIREQYLKNPGPLVQA 593 YLQSWDV NVF G+ F Q +GYNPTG AL Y SA+AIREQYL +P PLVQA Sbjct: 539 YLQSWDVHNVFAVGSGVFAQGIGYNPTGAAVALTYWSARAIREQYLNDPRPLVQA 593 >gi|300313846|ref|YP_003777938.1| choline dehydrogenase-like protein [Herbaspirillum seropedicae SmR1] Length = 590 Score = 567 bits (1462), Expect = e-163, Method: Compositional matrix adjust. Identities = 282/592 (47%), Positives = 380/592 (64%), Gaps = 6/592 (1%) Query: 3 IKKDKVDVVMVGLGWTGSIMGMELTEAGLNVLALERGDMRDTNTDTPYPKAVDELKYSVR 62 I D VDVV+VGLGW GS+M +EL +AGL V ALERG R D YPK D+ Y+ R Sbjct: 4 ITNDDVDVVIVGLGWAGSLMAIELAQAGLKVRALERGPDRPPE-DFAYPKPADQYGYATR 62 Query: 63 GALFQDLSRETVTIRHTLSDVAVPYRQHGSFLLGDGVGGAGFHWNGMMYRNLPEELEMRS 122 +F +T+R+ + A+P R+ G+F G GVGG+G HW ++ R P +L++++ Sbjct: 63 NKVFATPRDAALTVRYNTAQQALPTRKWGAFAPGTGVGGSGLHWTAVLIRATPTDLKLKT 122 Query: 123 HYEQKYGKKFIPEDMTIQDHGVTYKELEPFYDFSEKVMAVSGKAGNLKGKIVAGGNPLEG 182 + +Q Y + +M I+D T+ E+EP YDF +KV +SG GNL+G+I GG+P EG Sbjct: 123 YADQAYKHSNLDPEMRIKDFPFTWNEIEPHYDFFDKVCGLSGTTGNLRGQIQPGGDPFEG 182 Query: 183 ERSDEFPNPPLQYQYSASLVEKAMREVGYHPYPAPAANASQPFTNPYGVRIGPCNYCGFC 242 RS+ +P P L Y+ +L R++GYHP+P P+AN SQ +TNPYG +I PCNYCGFC Sbjct: 183 PRSNPYPLPALHDTYNNTLFADVARKLGYHPFPNPSANVSQAWTNPYGAQIAPCNYCGFC 242 Query: 243 ENYGCYMYSKASPQTTILPVLLKRKNFEVRTKAQVIKVNLDAAGKRATGVTYIDAQGREV 302 Y C YSKASPQTTIL V+ + NF+ + A VI+V+L A K A GVTY+D +EV Sbjct: 243 SKYPCLNYSKASPQTTILDVVKRLPNFDYKVNANVIRVDLHADKKTARGVTYVDENMKEV 302 Query: 303 EQPADLVLLTAFQTHNVRLLLLSGIGKPYDPVTGEGVVGKNFAYQYNGGINVIMPKGTQF 362 QPA +V+L++FQ NVRL+LLSGIGKPYDP+T GV+G+N+A+ NGG + K F Sbjct: 303 FQPAKIVILSSFQFANVRLMLLSGIGKPYDPITETGVIGRNYAFLSNGGATLFF-KDKHF 361 Query: 363 NPFIGTGAGGVGMDDLNGDQFDHG-PLGFIGGASIRHVRYGGRPIKQAGTMPGEKVPNWG 421 N F GA G +D++ FD G LGFIGGA I + G PI GT P+WG Sbjct: 362 NSFATAGATGEMFNDISPGNFDDGVKLGFIGGAKIHSSQASGAPI---GTALPPGTPSWG 418 Query: 422 SEWKASVQDAYQRTLTIGMSGSVMAYRDCYLSLDPTYKDANGQPLLRMTLNWKENEGKML 481 WK + D Y ++ I ++ + M+YR +L LDP YKD GQPLLRMT +W++NE K+ Sbjct: 419 RGWKEGMIDWYDHSMKISITTTCMSYRGHFLDLDPNYKDPWGQPLLRMTFDWRQNELKLQ 478 Query: 482 THIAGEMEKVGQAMNPEKVVKAVRKTGSSWDTRVYQSTHLTGGAIMGTTPKNSVVNKYLQ 541 ++ + K+ + +NP+ + ++ S WD Y STH GGAIMG +P++S +NKYLQ Sbjct: 479 RYLRDIVLKISKELNPDHMSESFLALDSHWDITKYVSTHNVGGAIMGDSPRDSALNKYLQ 538 Query: 542 SWDVPNVFVYGACAFPQNMGYNPTGLVTALAYHSAKAIREQYLKNPGPLVQA 593 SWDV NVFV G AFPQN NPT + A+ +A AI+ QYLKNPGPLVQA Sbjct: 539 SWDVHNVFVPGGNAFPQNFQANPTATIGAITLMAAHAIKTQYLKNPGPLVQA 590 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 0.317 0.136 0.412 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: 2,064,934 Number of extensions: 96185 Number of successful extensions: 220 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 214 Number of HSP's successfully gapped: 3 Length of query: 593 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 502 Effective length of database: 1,188,985 Effective search space: 596870470 Effective search space used: 596870470 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 (21.6 bits) S2: 133 (55.8 bits)