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= 0003.0003.p (543 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313052|ref|YP_003777144.1| choline dehydrogenase [Herbaspi... 1053 0.0 gi|300311000|ref|YP_003775092.1| glucose dehydrogenase [Herbaspi... 430 e-121 gi|300313846|ref|YP_003777938.1| choline dehydrogenase-like prot... 100 2e-22 gi|300313761|ref|YP_003777853.1| gluconate dehydrogenase [Herbas... 87 2e-18 gi|300312639|ref|YP_003776731.1| choline dehydrogenase [Herbaspi... 87 2e-18 >gi|300313052|ref|YP_003777144.1| choline dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 543 Score = 1053 bits (2724), Expect = 0.0, Method: Compositional matrix adjust. Identities = 512/543 (94%), Positives = 533/543 (98%) Query: 1 MNSNNKAEVVIVGTGVVGVLIAEQLLDAGIPVLMLEAGPRVARAEVVENFRNLPLALKGD 60 MNSNNKAEVVIVGTGVVGVLIAEQLL+AGIPV MLEAGPRVARAEVVENFRNLPLALKGD Sbjct: 1 MNSNNKAEVVIVGTGVVGVLIAEQLLNAGIPVRMLEAGPRVARAEVVENFRNLPLALKGD 60 Query: 61 PSSCYPPRPWAPHPMPSSENPDDHYLELSGPDKYAQTFIRYAGGSTWHWAGTCWRLTPED 120 PSSCYPPRPWAPHPMPSSENPDDHYLELSGPDKYAQTFIRYAGGSTWHWAGTCWRLTPED Sbjct: 61 PSSCYPPRPWAPHPMPSSENPDDHYLELSGPDKYAQTFIRYAGGSTWHWAGTCWRLTPED 120 Query: 121 MQLHTLYGVGRDWAFGYDVLEPYYTRVEHKLGICGPSDPALQWPPQRSAPYPMPALPFSP 180 M+LH+LYGVGRDWAFGYDVLEPYYTRVEH+LGICGPSDPALQWPPQRSAPYPMPALPFSP Sbjct: 121 MRLHSLYGVGRDWAFGYDVLEPYYTRVEHQLGICGPSDPALQWPPQRSAPYPMPALPFSP 180 Query: 181 GEQRFTDVVRELGYHNIPTAQARNSGMPYDERPACCANNNCVPVCPVGAKYDAATALARL 240 GEQRFT+VV+ LGY NIPTAQARNSGMPYD+RPACCANNNCVPVCPVGAKYDAATALARL Sbjct: 181 GEQRFTEVVQALGYRNIPTAQARNSGMPYDDRPACCANNNCVPVCPVGAKYDAATALARL 240 Query: 241 ESKGATILTDAVVYRVETDDANRVNAVNYFDANKVSHRVTGKIFVLACNGIETPKLLLMS 300 E+KGATILTDAVVYRV+TD +RV AVNYFDANK+SHR+TGKIFVLACNGIETPKLLLMS Sbjct: 241 EAKGATILTDAVVYRVDTDANDRVEAVNYFDANKLSHRITGKIFVLACNGIETPKLLLMS 300 Query: 301 ANSRNPHGLANSSDQVGRNMMDHPQLTMTLTLSEPYWSGVGPVVNSGIMETSQGSFRSEH 360 ANSRNPHGLAN SDQVGRNMMDHPQLTMTLTLSEPYWSGVGPVVNSGIMETSQG+FRSEH Sbjct: 301 ANSRNPHGLANRSDQVGRNMMDHPQLTMTLTLSEPYWSGVGPVVNSGIMETSQGAFRSEH 360 Query: 361 AGAYFRYNNFARNRFVTFAALKKGLVGQALDEEIRRMTACTADVVLAHEVLPDADNRLTL 420 AGAYFRYNNFARNRFVTFAALKKGLVGQALDEEIRRMTACTAD+VLAHEVLPDA+NRLTL Sbjct: 361 AGAYFRYNNFARNRFVTFAALKKGLVGQALDEEIRRMTACTADIVLAHEVLPDAENRLTL 420 Query: 421 SAKKDWLGLPRPSIHYDVGDYTRKSAEQYSLPIGRKIAEAMGATDIKVSPAFAQSKHIMG 480 S+KKDWLGLPRP+IHYDVGDYTR+SAE YSLPIGRKIAEAMGATDIKVSP FAQSKHIMG Sbjct: 421 SSKKDWLGLPRPAIHYDVGDYTRRSAELYSLPIGRKIAEAMGATDIKVSPKFAQSKHIMG 480 Query: 481 GTIMGLDAANSVVDPDCRAHDHDNLFLPGGGAMPSTACGNSTLSMAALGLKAADAIVRQL 540 GTIMGLD ANSVVDPDCRAHDHDNL+LPGGGAMPSTACGNST+SMAALGLKAADAI+RQL Sbjct: 481 GTIMGLDPANSVVDPDCRAHDHDNLYLPGGGAMPSTACGNSTISMAALGLKAADAILRQL 540 Query: 541 QKA 543 QKA Sbjct: 541 QKA 543 >gi|300311000|ref|YP_003775092.1| glucose dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 534 Score = 430 bits (1105), Expect = e-121, Method: Compositional matrix adjust. Identities = 235/545 (43%), Positives = 323/545 (59%), Gaps = 13/545 (2%) Query: 1 MNSNNKAEVVIVGTGVVGVLIAEQLLDAGIPVLMLEAGPRVARAEVVENFRNLPLALKGD 60 M++ N A+VV++G GV G L+A +L G VL+LE+GPR+ R ++VE FR+ A K D Sbjct: 1 MSNLNSADVVVIGAGVTGALLATRLAKTGKSVLLLESGPRMGRDQLVERFRSS--AFKSD 58 Query: 61 PSSCYPPRPWAPHPMPSSENPDDHYLELSGPDKYAQTFIRYAGGSTWHWAGTCWRLTPED 120 + YP P APHP + E + YL+ GP + +IR GG++WHWA WR P D Sbjct: 59 FMAPYPYSPLAPHPRYTPE--PNGYLQQKGPHAFNAQYIRMFGGTSWHWAAQLWRYVPND 116 Query: 121 MQLHTLYGVGRDWAFGYDVLEPYYTRVEHKLGICGPSDPALQWPPQRSAPYPMPALPFSP 180 + H+LYGVG+DW YD LE YY + E G+ G + R P+PM +P S Sbjct: 117 FRQHSLYGVGKDWPISYDDLEDYYYQAEVIAGVGGSPESG----SPRKHPFPMERVPASW 172 Query: 181 GEQRFTDVVRELGYHNIPTAQARNSGMPYDERPACCANNNCVPVCPVGAKYDAATALARL 240 +QR T + + + + RNS YD RPACC NNNC+P+CP+ A+Y A + Sbjct: 173 LQQRVTARLAP-EFTVLDDSTGRNS-RNYDGRPACCGNNNCMPLCPIDAQYHGGLAAQQA 230 Query: 241 ESKGATILTDAVVYRVETDDANRVNAVNYFDANKVSHRVTGKIFVLACNGIETPKLLLMS 300 E G ++T+AVVYR+E D+ R+ A +Y+D NKVSHR+T + FVLA N IETPKLLLMS Sbjct: 231 EDSGVKVITEAVVYRLEHDEKGRIAAAHYYDWNKVSHRITAQTFVLAANAIETPKLLLMS 290 Query: 301 ANSRNPHGLANSSDQVGRNMMDHPQLTMTLTLSEPYWSGVGPVVNSGIMETSQGSFRSEH 360 + R P G+AN+ D VGRN+ DHP + ++ + E W G GPV I + G FR+EH Sbjct: 291 ISDRFPQGIANARDNVGRNLCDHPAIGVSFDVDEEIWPGRGPVSPCSIGQFRDGDFRAEH 350 Query: 361 AGAYFRYNNFARNRFVTFAALKKGLVGQALDEEIRRMTACTADVVLAHEVLPDADNRLTL 420 A +N ++ VT + +G G+ L+E+I A + A E LPD +NR+TL Sbjct: 351 APFRIDISNASQVAAVTKEVVAEGYFGKRLEEQILFRAARRLSIKNALEQLPDRNNRVTL 410 Query: 421 SAKKDWLGLPRPSIHYDVGDYTRKSAEQYSLPIGRKIAEAMGATDIKVSP--AFAQSKHI 478 KKD LGLP P+++++V DY K EQ + IA +GAT+IK S AF+ +HI Sbjct: 411 GDKKDELGLPVPALYWNVDDYVIKGTEQ-TRACYDAIAAKLGATNIKHSKSGAFSNRQHI 469 Query: 479 MGGTIMGLDAANSVVDPDCRAHDHDNLFLPGGGAMPSTACGNSTLSMAALGLKAADAIVR 538 G MGLD A SV D RAHDH+NLF+ G G MP+ N TL+ AL L+ AD I+ Sbjct: 470 TGTLSMGLDPATSVTDAWGRAHDHENLFMVGTGVMPTVGTCNVTLTAMALALRTADKIIE 529 Query: 539 QLQKA 543 + + A Sbjct: 530 ESRHA 534 >gi|300313846|ref|YP_003777938.1| choline dehydrogenase-like protein [Herbaspirillum seropedicae SmR1] Length = 590 Score = 100 bits (250), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 143/616 (23%), Positives = 227/616 (36%), Gaps = 114/616 (18%) Query: 3 SNNKAEVVIVGTGVVGVLIAEQLLDAGIPVLMLEAGP-----------------RVARAE 45 +N+ +VVIVG G G L+A +L AG+ V LE GP R + Sbjct: 5 TNDDVDVVIVGLGWAGSLMAIELAQAGLKVRALERGPDRPPEDFAYPKPADQYGYATRNK 64 Query: 46 VVENFRNLPLALKGDPSS-CYPPRPWAPHPMPSSENPDDHYLELSGPDKYAQTFIRYAGG 104 V R+ L ++ + + P R W + GG Sbjct: 65 VFATPRDAALTVRYNTAQQALPTRKWGAFAPGTG-----------------------VGG 101 Query: 105 STWHWAGTCWRLTPEDMQLHTLYGVG------------RDWAFGYDVLEPYYTRVEHKLG 152 S HW R TP D++L T +D+ F ++ +EP+Y + G Sbjct: 102 SGLHWTAVLIRATPTDLKLKTYADQAYKHSNLDPEMRIKDFPFTWNEIEPHYDFFDKVCG 161 Query: 153 ICG----------PSDPALQWPPQRSAPYPMPALPFSPGEQRFTDVVRELGYHNIPTAQA 202 + G P + P RS PYP+PAL + F DV R+LGYH P A Sbjct: 162 LSGTTGNLRGQIQPGGDPFEGP--RSNPYPLPALHDTYNNTLFADVARKLGYHPFPNPSA 219 Query: 203 RNSGM---PYDERPA------CCANNNCVPVCPVGAKYDAATALARLESKGATILTDAVV 253 S PY + A C+ C+ + + RL + + +A V Sbjct: 220 NVSQAWTNPYGAQIAPCNYCGFCSKYPCLNYSKASPQTTILDVVKRLPNFDYKV--NANV 277 Query: 254 YRVETD-DANRVNAVNYFDANKVSHRVTGKIFVLACNGIETPKLLLMSANSRNPHGLANS 312 RV+ D V Y D N KI +L+ +L+L+S + P+ Sbjct: 278 IRVDLHADKKTARGVTYVDENMKEVFQPAKIVILSSFQFANVRLMLLSGIGK-PYDPITE 336 Query: 313 SDQVGRNMMDHPQLTMTLTLSEPYWSGVGPVVNSGIM--ETSQGSF----RSEHAGAYFR 366 + +GRN TL + +++ +G M + S G+F + G Sbjct: 337 TGVIGRNYAFLSNGGATLFFKDKHFNSFATAGATGEMFNDISPGNFDDGVKLGFIGGAKI 396 Query: 367 YNNFARNRFVTFA----------ALKKGLVGQALDEEIRRMTACTADVVLAHEVLPDADN 416 +++ A + A K+G++ D ++ T H + D + Sbjct: 397 HSSQASGAPIGTALPPGTPSWGRGWKEGMI-DWYDHSMKISITTTCMSYRGHFLDLDPNY 455 Query: 417 ---------RLTLSAKKDWLGLPRPSIHYDVGDYTRKSAEQYSLPIG-RKIAEAMGATDI 466 R+T +++ L L R Y R + S + ++E+ A D Sbjct: 456 KDPWGQPLLRMTFDWRQNELKLQR---------YLRDIVLKISKELNPDHMSESFLALDS 506 Query: 467 KVSPAFAQSKHIMGGTIMGLDAANSVVDPDCRAHDHDNLFLPGGGAMPSTACGNSTLSMA 526 S H +GG IMG +S ++ ++ D N+F+PGG A P N T ++ Sbjct: 507 HWDITKYVSTHNVGGAIMGDSPRDSALNKYLQSWDVHNVFVPGGNAFPQNFQANPTATIG 566 Query: 527 ALGLKAADAIVRQLQK 542 A+ L AA AI Q K Sbjct: 567 AITLMAAHAIKTQYLK 582 >gi|300313761|ref|YP_003777853.1| gluconate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 593 Score = 87.4 bits (215), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 138/605 (22%), Positives = 235/605 (38%), Gaps = 92/605 (15%) Query: 2 NSNNK-AEVVIVGTGVVGVLIAEQLLDAGIPVLMLEAG------PRVARAEVV---ENFR 51 N N K +VVIVG G G ++A+++ +AG V+ LE G P A + + E + Sbjct: 3 NKNMKPVDVVIVGFGWTGAIMAKEMTEAGQRVVALERGVYRDTYPDGAYPKTINELEYQQ 62 Query: 52 NLPLALKGDPSSCYPPRPWAPHPMPSSENPDDHYLELSGPDKYAQTFIRYAGGSTWHWAG 111 L + SS R +P + + + P + GG+ HW+G Sbjct: 63 RFKLFQNLNKSSFTFRRKTGDSAIPYRQ------IAMFKPGEGV-------GGAGLHWSG 109 Query: 112 TCWRLTPEDMQLHTLYG------------VGRDWAFGYDVLEPYYTRVEHKLGICGPS-- 157 WR+ PE++++ + Y +DW Y+ LEPY+ E +G G + Sbjct: 110 CHWRILPEELRMRSHYEERYGKNFIPKDMTLQDWGVSYEELEPYFDFAEKMMGTSGTAYR 169 Query: 158 -------DPALQWPPQRSAPYPMPALPFSPGEQRFTDVVRELGYH--NIPTAQARNSGMP 208 + + RS +P+PA F ++ G H +P+A N+ P Sbjct: 170 VGGKVVDESGNPFEADRSDNFPLPAQKEQYQAALFRKAAQQAGLHPFTLPSA---NAAAP 226 Query: 209 YDERPAC----------CANNNCVPVCPVGAKYDAATALARLESKGATILTDAVVYRVET 258 Y + C C+ C + AL +S + + V R+E Sbjct: 227 YVNQYGCQMGPCTFCGFCSGYACYNYSKASPNVNIMPALR--QSNLFELRSSCNVLRIEL 284 Query: 259 DDA-NRVNAVNYFDANKVSHRVTGKIFVLACNGIETPKLLLMSANSRNPHGLANSSDQVG 317 D + + V Y D N + I + + +L L+S + P+ +++ VG Sbjct: 285 DSSRKKATGVTYVDINGDTVFQPASIVIASTFAYNNARLFLLSGIGK-PYDPVSNTGAVG 343 Query: 318 RNMMDHPQLTMTLTLSEPYWSG--VGPVVNSGIMETSQGSFRSEH--------AGAYFRY 367 RN+ M T++ + G + + +G + F +H G + Sbjct: 344 RNIA----FQMMSTINAFFEPGKNINGFIGAGGNGVAVDDFNGDHMDHGPLGFVGGSPIW 399 Query: 368 NNFARNRFVTFAALKKGL--VGQALDEEIR--RMTACTADVVLAHEVLPDADNRLTLSAK 423 N + ++ ++ A+ G G+A + ++ + + DV A+ V D L + Sbjct: 400 CNPSGSKPISGIAVPSGTPRWGRAWKQAVKDSYLNTMSFDVHGANMVYRDVYVDLDPN-Y 458 Query: 424 KDWLGLPRPSIHYDVGDYTRKSAEQYSLPIGRKIAEAMGATDIKVS-PAFA--------Q 474 KD G P +D D + + +Y KIA + A +IKV+ F Q Sbjct: 459 KDAFGQPLLRFTFDWKDNDIRMS-RYVTDQAVKIAHELKAREIKVTVKDFGAAPDLRSYQ 517 Query: 475 SKHIMGGTIMGLDAANSVVDPDCRAHDHDNLFLPGGGAMPSTACGNSTLSMAALGLKAAD 534 + H GG MG D + SVV+ ++ D N+F G G N T + AL +A Sbjct: 518 TTHWAGGVAMGTDPSTSVVNRYLQSWDVHNVFAVGSGVFAQGIGYNPTGAAVALTYWSAR 577 Query: 535 AIVRQ 539 AI Q Sbjct: 578 AIREQ 582 >gi|300312639|ref|YP_003776731.1| choline dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 593 Score = 87.4 bits (215), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 138/594 (23%), Positives = 224/594 (37%), Gaps = 66/594 (11%) Query: 3 SNNKAEVVIVGTGVVGVLIAEQLLDAGIPVLMLEAGPRVARAEVVENFRNLPLALKGDPS 62 +K +VV+VG G G ++ +L +AG+ VL LE R ++ + + P D Sbjct: 4 KKDKVDVVMVGLGWTGSIMGMELTEAGLSVLALE------RGDMRDTNTDTPYPKAVDEL 57 Query: 63 SCYPPRPWAPHPMPSSENPDDHYL-ELSGPDKYAQTFI--RYAGGSTWHWAGTCWRLTPE 119 Y R + H L +++ P + +F+ GG+ +HW G +R PE Sbjct: 58 K-YSVRGALFQDLSRETVTIRHTLSDVAVPYRQHGSFLLGDGVGGAGFHWNGMMYRNLPE 116 Query: 120 DMQLHT----LYGVG--------RDWAFGYDVLEPYYTRVEHKLGICGPS-DPALQWPP- 165 ++++ T YG +D Y LEP+Y E + + G + + Q P Sbjct: 117 ELEMRTHHEQKYGKKFIPEDMTIQDHGVTYKELEPFYDFSEKVMAVSGKAGNLKGQIVPG 176 Query: 166 ------QRSAPYPMPALPFSPGEQRFTDVVRELGYHNIPTAQARNS---GMPYDERPACC 216 +RS +P P L + +R++GYH P A S PY R C Sbjct: 177 GNPLEGERSDEFPTPPLQYQYSASLVEKAMRDVGYHPYPAPAANASQPFTNPYGVRIGPC 236 Query: 217 ANNNCVPV----CPVGAKYDAATAL--ARLESKGATILTDAVVYRVETD-DANRVNAVNY 269 N C C + +K T + L+ K + T A V +V D R V Y Sbjct: 237 --NYCGFCENYGCYMYSKASPQTTILPVLLKRKNFEVRTKAQVIKVNLDASGKRATGVTY 294 Query: 270 FDANKVSHRVTGKIFVLACNGIETPKLLLMSANSRNPHGLANSSDQVGRNMMDHPQLTMT 329 DA + +L +LLL+S + P+ VG+N Q Sbjct: 295 IDAQGREVEQPADLVLLTAFQTHNVRLLLLSGIGK-PYDPVTGEGVVGKNFAY--QYNGG 351 Query: 330 LTLSEPYWSGVGPVVNSGIMETSQGSFRSEH---------AGA---YFRYNNFARNRFVT 377 + + P + P + +G ++ GA + RY + T Sbjct: 352 INVIMPKGTQFNPFIGTGAGGVGMDDLNADQFDHGPLGFIGGASIRHVRYGGRPIKQAGT 411 Query: 378 FAALKKGLVGQALDEEIRRMTACTADVVLAHEVLPDADNRLTLS-AKKDWLGLP--RPSI 434 K G ++ T + ++ V+ D L+L +D G P R ++ Sbjct: 412 MPGEKVPSWGSEWKASVQDAYQRTLTIGMSGSVMAYRDCYLSLDPTYRDANGQPLLRLTL 471 Query: 435 HYDVGD-----YTRKSAEQYSLPIG-RKIAEAMGATDIKVSPAFAQSKHIMGGTIMGLDA 488 ++ + Y E+ + K+ +A+ T QS H+ GG IMG Sbjct: 472 NWKENEGKMLTYIASQMEKVGQAMNPEKVVKAVRKTGSSWDTRVYQSTHLTGGAIMGTTP 531 Query: 489 ANSVVDPDCRAHDHDNLFLPGGGAMPSTACGNSTLSMAALGLKAADAIVRQLQK 542 NSVV+ ++ D N+F+ G A P N T + AL +A AI Q K Sbjct: 532 KNSVVNKYLQSWDVPNVFVYGACAFPQNMGYNPTGLVTALAYHSAKAIREQYLK 585 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 0.134 0.415 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: 1,747,938 Number of extensions: 77131 Number of successful extensions: 232 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 224 Number of HSP's successfully gapped: 5 Length of query: 543 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 453 Effective length of database: 1,193,720 Effective search space: 540755160 Effective search space used: 540755160 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)