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= 0006.0044.p (550 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... 526 e-150 gi|300311000|ref|YP_003775092.1| glucose dehydrogenase [Herbaspi... 425 e-120 gi|300313846|ref|YP_003777938.1| choline dehydrogenase-like prot... 95 1e-20 gi|300313761|ref|YP_003777853.1| gluconate dehydrogenase [Herbas... 75 1e-14 gi|300312639|ref|YP_003776731.1| choline dehydrogenase [Herbaspi... 62 8e-11 >gi|300313052|ref|YP_003777144.1| choline dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 543 Score = 526 bits (1354), Expect = e-150, Method: Compositional matrix adjust. Identities = 266/529 (50%), Positives = 348/529 (65%), Gaps = 10/529 (1%) Query: 27 MIADQLVTQGYSVLMLEAGLRIERAQAVENWRNMPFENRVGSDYQGLYPQAPNAPAPL-- 84 +IA+QL+ G V MLEAG R+ RA+ VEN+RN+P + D YP P AP P+ Sbjct: 20 LIAEQLLNAGIPVRMLEAGPRVARAEVVENFRNLPLA--LKGDPSSCYPPRPWAPHPMPS 77 Query: 85 -YFPKNDYIALSGPDGNGFQQGYLRTVGGTTWHWAASCWRHLPVDLKMKSTYGVGRDWPI 143 P + Y+ LSGPD + Q ++R GG+TWHWA +CWR P D+++ S YGVGRDW Sbjct: 78 SENPDDHYLELSGPDK--YAQTFIRYAGGSTWHWAGTCWRLTPEDMRLHSLYGVGRDWAF 135 Query: 144 SYEELEPYYCRAEEEMGVAGPNDPARQSPSERSKPYPMDMVPWGYGDTRFAEVVNPHGYN 203 Y+ LEPYY R E ++G+ GP+DPA Q P +RS PYPM +P+ G+ RF EVV GY Sbjct: 136 GYDVLEPYYTRVEHQLGICGPSDPALQWPPQRSAPYPMPALPFSPGEQRFTEVVQALGYR 195 Query: 204 SVPIPQGR-STRPWQGRPTCCGNNNCQPICPIGAMYNGIHHVQRAEMKGAKVLSEAVVFK 262 ++P Q R S P+ RP CC NNNC P+CP+GA Y+ + R E KGA +L++AVV++ Sbjct: 196 NIPTAQARNSGMPYDDRPACCANNNCVPVCPVGAKYDAATALARLEAKGATILTDAVVYR 255 Query: 263 VDTDQNNRVTAAYWYDAGKKPHKATAKAFVFACNGIETPRLLLLAANAANPNGLANSSDQ 322 VDTD N+RV A ++DA K H+ T K FV ACNGIETP+LLL++AN+ NP+GLAN SDQ Sbjct: 256 VDTDANDRVEAVNYFDANKLSHRITGKIFVLACNGIETPKLLLMSANSRNPHGLANRSDQ 315 Query: 323 VGRNMMDHSGFHCTFLANEPIWTGRGPAQSSCLVGPRDGASRAEYSSNKMILNNITRVGP 382 VGRNMMDH T +EP W+G GP +S ++ GA R+E++ NN R Sbjct: 316 VGRNMMDHPQLTMTLTLSEPYWSGVGPVVNSGIMETSQGAFRSEHAGAYFRYNNFARNRF 375 Query: 383 ATQQALKLGLVGPELDDEIRRRAAFGVDLSISLEPLPEAHNRLTLSKTRKDPLGLACPDI 442 T ALK GLVG LD+EIRR A D+ ++ E LP+A NRLTLS ++KD LGL P I Sbjct: 376 VTFAALKKGLVGQALDEEIRRMTACTADIVLAHEVLPDAENRLTLS-SKKDWLGLPRPAI 434 Query: 443 YYDVGDYVRKGAEAAHKQL-KHIGQLFGAVEFNITTNLNANNHVMGGVIMGSNPKDSVVD 501 +YDVGDY R+ AE + + I + GA + ++ + H+MGG IMG +P +SVVD Sbjct: 435 HYDVGDYTRRSAELYSLPIGRKIAEAMGATDIKVSPKFAQSKHIMGGTIMGLDPANSVVD 494 Query: 502 GNCRAHDHANLWLPGGGAMPSASVVNSTLSMAALGLRAADDIGKMLAKG 550 +CRAHDH NL+LPGGGAMPS + NST+SMAALGL+AAD I + L K Sbjct: 495 PDCRAHDHDNLYLPGGGAMPSTACGNSTISMAALGLKAADAILRQLQKA 543 >gi|300311000|ref|YP_003775092.1| glucose dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 534 Score = 425 bits (1093), Expect = e-120, Method: Compositional matrix adjust. Identities = 227/535 (42%), Positives = 326/535 (60%), Gaps = 17/535 (3%) Query: 13 TADVVIVGSGVVGAMIADQLVTQGYSVLMLEAGLRIERAQAVENWRNMPFENRVGSDYQG 72 +ADVV++G+GV GA++A +L G SVL+LE+G R+ R Q VE +R+ F+ SD+ Sbjct: 6 SADVVVIGAGVTGALLATRLAKTGKSVLLLESGPRMGRDQLVERFRSSAFK----SDFMA 61 Query: 73 LYPQAPNAPAPLYFPK-NDYIALSGPDGNGFQQGYLRTVGGTTWHWAASCWRHLPVDLKM 131 YP +P AP P Y P+ N Y+ GP + F Y+R GGT+WHWAA WR++P D + Sbjct: 62 PYPYSPLAPHPRYTPEPNGYLQQKGP--HAFNAQYIRMFGGTSWHWAAQLWRYVPNDFRQ 119 Query: 132 KSTYGVGRDWPISYEELEPYYCRAEEEMGVAGPNDPARQSPSERSKPYPMDMVPWGYGDT 191 S YGVG+DWPISY++LE YY +AE GV G + +S S R P+PM+ VP + Sbjct: 120 HSLYGVGKDWPISYDDLEDYYYQAEVIAGVGG----SPESGSPRKHPFPMERVPASWLQQ 175 Query: 192 RFAEVVNPHGYNSVPIPQGRSTRPWQGRPTCCGNNNCQPICPIGAMYNGIHHVQRAEMKG 251 R + P + + GR++R + GRP CCGNNNC P+CPI A Y+G Q+AE G Sbjct: 176 RVTARLAPE-FTVLDDSTGRNSRNYDGRPACCGNNNCMPLCPIDAQYHGGLAAQQAEDSG 234 Query: 252 AKVLSEAVVFKVDTDQNNRVTAAYWYDAGKKPHKATAKAFVFACNGIETPRLLLLAANAA 311 KV++EAVV++++ D+ R+ AA++YD K H+ TA+ FV A N IETP+LLL++ + Sbjct: 235 VKVITEAVVYRLEHDEKGRIAAAHYYDWNKVSHRITAQTFVLAANAIETPKLLLMSISDR 294 Query: 312 NPNGLANSSDQVGRNMMDHSGFHCTFLANEPIWTGRGPAQSSCLVGP-RDGASRAEYSSN 370 P G+AN+ D VGRN+ DH +F +E IW GRGP S C +G RDG RAE++ Sbjct: 295 FPQGIANARDNVGRNLCDHPAIGVSFDVDEEIWPGRGPV-SPCSIGQFRDGDFRAEHAPF 353 Query: 371 KMILNNITRVGPATQQALKLGLVGPELDDEIRRRAAFGVDLSISLEPLPEAHNRLTLSKT 430 ++ ++N ++V T++ + G G L+++I RAA + + +LE LP+ +NR+TL Sbjct: 354 RIDISNASQVAAVTKEVVAEGYFGKRLEEQILFRAARRLSIKNALEQLPDRNNRVTLGD- 412 Query: 431 RKDPLGLACPDIYYDVGDYVRKGAEAAHKQLKHIGQLFGA--VEFNITTNLNANNHVMGG 488 +KD LGL P +Y++V DYV KG E I GA ++ + + + H+ G Sbjct: 413 KKDELGLPVPALYWNVDDYVIKGTEQTRACYDAIAAKLGATNIKHSKSGAFSNRQHITGT 472 Query: 489 VIMGSNPKDSVVDGNCRAHDHANLWLPGGGAMPSASVVNSTLSMAALGLRAADDI 543 + MG +P SV D RAHDH NL++ G G MP+ N TL+ AL LR AD I Sbjct: 473 LSMGLDPATSVTDAWGRAHDHENLFMVGTGVMPTVGTCNVTLTAMALALRTADKI 527 >gi|300313846|ref|YP_003777938.1| choline dehydrogenase-like protein [Herbaspirillum seropedicae SmR1] Length = 590 Score = 95.1 bits (235), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 142/606 (23%), Positives = 221/606 (36%), Gaps = 102/606 (16%) Query: 14 ADVVIVGSGVVGAMIADQLVTQGYSVLMLEAGLRIERAQAVENWRNMPFENRVGSDYQGL 73 DVVIVG G G+++A +L G V LE G + E++ ++ G + Sbjct: 9 VDVVIVGLGWAGSLMAIELAQAGLKVRALERG----PDRPPEDFAYPKPADQYGYATRNK 64 Query: 74 YPQAPNAPAPLYFPKNDYIALSGPDGNGFQQGYLRTVGGTTWHWAASCWRHLPVDLKMKS 133 P A AL F G VGG+ HW A R P DLK+K+ Sbjct: 65 VFATPRDAALTVRYNTAQQALPTRKWGAFAPG--TGVGGSGLHWTAVLIRATPTDLKLKT 122 Query: 134 TYGVG------------RDWPISYEELEPYYCRAEEEMGVAGPNDPARQS------PSE- 174 +D+P ++ E+EP+Y ++ G++G R P E Sbjct: 123 YADQAYKHSNLDPEMRIKDFPFTWNEIEPHYDFFDKVCGLSGTTGNLRGQIQPGGDPFEG 182 Query: 175 -RSKPYPMDMVPWGYGDTRFAEVVNPHGYNSVPIPQGRSTRPW------QGRPT----CC 223 RS PYP+ + Y +T FA+V GY+ P P ++ W Q P C Sbjct: 183 PRSNPYPLPALHDTYNNTLFADVARKLGYHPFPNPSANVSQAWTNPYGAQIAPCNYCGFC 242 Query: 224 GNNNCQPICPIGAMYNGIHHVQRAEMKGAKVLSEAVVFKVDTDQNNRVTAAYWY-DAGKK 282 C + V+R KV A V +VD + + Y D K Sbjct: 243 SKYPCLNYSKASPQTTILDVVKRLPNFDYKV--NANVIRVDLHADKKTARGVTYVDENMK 300 Query: 283 PHKATAKAFVFACNGIETPRLLLLAANAANPNGLANSSDQVGRNMMDHSGFHCTFLANEP 342 AK + + RL+LL+ P + +GRN FL+N Sbjct: 301 EVFQPAKIVILSSFQFANVRLMLLSG-IGKPYDPITETGVIGRNY--------AFLSN-- 349 Query: 343 IWTGRGPAQSSCLVGPRDGASRAEYSSNKMILNNITRVGPAT-QQALKLGLVGPELDDEI 401 ++ + S A + + N+I+ P +KLG +G +I Sbjct: 350 -------GGATLFFKDKHFNSFATAGATGEMFNDIS---PGNFDDGVKLGFIGGA---KI 396 Query: 402 RRRAAFGVDLSISLEPLPEAHNR-----------------------------LTLSKTRK 432 A G + +L P + R L L K Sbjct: 397 HSSQASGAPIGTALPPGTPSWGRGWKEGMIDWYDHSMKISITTTCMSYRGHFLDLDPNYK 456 Query: 433 DPLGLACPDIYYD-------VGDYVRKGAEAAHKQLK--HIGQLFGAVEFNITTNLNANN 483 DP G + +D + Y+R K+L H+ + F A++ + + Sbjct: 457 DPWGQPLLRMTFDWRQNELKLQRYLRDIVLKISKELNPDHMSESFLALDSHWDITKYVST 516 Query: 484 HVMGGVIMGSNPKDSVVDGNCRAHDHANLWLPGGGAMPSASVVNSTLSMAALGLRAADDI 543 H +GG IMG +P+DS ++ ++ D N+++PGG A P N T ++ A+ L AA I Sbjct: 517 HNVGGAIMGDSPRDSALNKYLQSWDVHNVFVPGGNAFPQNFQANPTATIGAITLMAAHAI 576 Query: 544 GKMLAK 549 K Sbjct: 577 KTQYLK 582 >gi|300313761|ref|YP_003777853.1| gluconate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 593 Score = 75.5 bits (184), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 128/609 (21%), Positives = 217/609 (35%), Gaps = 119/609 (19%) Query: 15 DVVIVGSGVVGAMIADQLVTQGYSVLMLEAGLRIERAQAVENWRNMPFENRVGS-DYQGL 73 DVVIVG G GA++A ++ G V+ LE G+ + + + + + +YQ Sbjct: 10 DVVIVGFGWTGAIMAKEMTEAGQRVVALERGVY------RDTYPDGAYPKTINELEYQQR 63 Query: 74 YP--QAPNAPAPLYFPKNDYIALSGPDGNGFQQGYLRTVGGTTWHWAASCWRHLPVDLKM 131 + Q N + + K A+ F+ G VGG HW+ WR LP +L+M Sbjct: 64 FKLFQNLNKSSFTFRRKTGDSAIPYRQIAMFKPG--EGVGGAGLHWSGCHWRILPEELRM 121 Query: 132 KSTYG------------VGRDWPISYEELEPYYCRAEEEMGVAGP---------NDPARQ 170 +S Y +DW +SYEELEPY+ AE+ MG +G ++ Sbjct: 122 RSHYEERYGKNFIPKDMTLQDWGVSYEELEPYFDFAEKMMGTSGTAYRVGGKVVDESGNP 181 Query: 171 SPSERSKPYPMDMVPWGYGDTRFAEVVNPHGYNSVPIPQGRSTRPWQGRPTC-------- 222 ++RS +P+ Y F + G + +P + P+ + C Sbjct: 182 FEADRSDNFPLPAQKEQYQAALFRKAAQQAGLHPFTLPSANAAAPYVNQYGCQMGPCTFC 241 Query: 223 --CGNNNCQPICPIGAMYNGIHHVQRAEMKGAKVLSEAVVFKVDTDQN-NRVTAAYWYDA 279 C C N + ++++ + ++ S V +++ D + + T + D Sbjct: 242 GFCSGYACYNYSKASPNVNIMPALRQSNL--FELRSSCNVLRIELDSSRKKATGVTYVDI 299 Query: 280 GKKPHKATAKAFVFACNGIETPRLLLLAANAANPNGLANSSDQVGRNMM----------- 328 A + + RL LL+ P +++ VGRN+ Sbjct: 300 NGDTVFQPASIVIASTFAYNNARLFLLSG-IGKPYDPVSNTGAVGRNIAFQMMSTINAFF 358 Query: 329 --------------------DHSGFHCT-----FLANEPIWTGRGPAQSSCLVGPRDGAS 363 D +G H F+ PIW P+ S + G Sbjct: 359 EPGKNINGFIGAGGNGVAVDDFNGDHMDHGPLGFVGGSPIWC--NPSGSKPISG------ 410 Query: 364 RAEYSSNKMILNNITRVGPATQQALKLGLVGPELDDEIRRRAAFGVDLSISLEPLPEAHN 423 + + R G A +QA+K + + ++ D+ + L+P Sbjct: 411 -------IAVPSGTPRWGRAWKQAVKDSYLN-TMSFDVHGANMVYRDVYVDLDP------ 456 Query: 424 RLTLSKTRKDPLGLACPDIYYDVGDYVRKGAEAAHKQLKHIGQLFGAVEFNITT------ 477 KD G +D D + + Q I A E +T Sbjct: 457 ------NYKDAFGQPLLRFTFDWKDNDIRMSRYVTDQAVKIAHELKAREIKVTVKDFGAA 510 Query: 478 -NLNA--NNHVMGGVIMGSNPKDSVVDGNCRAHDHANLWLPGGGAMPSASVVNSTLSMAA 534 +L + H GGV MG++P SVV+ ++ D N++ G G N T + A Sbjct: 511 PDLRSYQTTHWAGGVAMGTDPSTSVVNRYLQSWDVHNVFAVGSGVFAQGIGYNPTGAAVA 570 Query: 535 LGLRAADDI 543 L +A I Sbjct: 571 LTYWSARAI 579 >gi|300312639|ref|YP_003776731.1| choline dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 593 Score = 62.4 bits (150), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 85/350 (24%), Positives = 139/350 (39%), Gaps = 49/350 (14%) Query: 14 ADVVIVGSGVVGAMIADQLVTQGYSVLMLEAGLRIERAQAVENWRNMPFENRVG----SD 69 DVV+VG G G+++ +L G SVL LE R + + P+ V S Sbjct: 8 VDVVMVGLGWTGSIMGMELTEAGLSVLALE------RGDMRDTNTDTPYPKAVDELKYSV 61 Query: 70 YQGLYPQAPNAPAPLYFPKNDYIALSGPDGNGFQQGYLRTVGGTTWHWAASCWRHLPVDL 129 L+ + +D +A+ F G VGG +HW +R+LP +L Sbjct: 62 RGALFQDLSRETVTIRHTLSD-VAVPYRQHGSFLLG--DGVGGAGFHWNGMMYRNLPEEL 118 Query: 130 KMKS----TYG--------VGRDWPISYEELEPYYCRAEEEMGVAGP--NDPARQSP--- 172 +M++ YG +D ++Y+ELEP+Y +E+ M V+G N + P Sbjct: 119 EMRTHHEQKYGKKFIPEDMTIQDHGVTYKELEPFYDFSEKVMAVSGKAGNLKGQIVPGGN 178 Query: 173 ---SERSKPYPMDMVPWGYGDTRFAEVVNPHGYNSVPIPQGRSTRPWQGRPTCCGNNNCQ 229 ERS +P + + Y + + + GY+ P P +++P+ P C Sbjct: 179 PLEGERSDEFPTPPLQYQYSASLVEKAMRDVGYHPYPAPAANASQPFT-NPYGVRIGPCN 237 Query: 230 PICPIGAMYNGIHHVQRA-----------EMKGAKVLSEAVVFKVDTDQN-NRVTAAYWY 277 C Y G + +A + K +V ++A V KV+ D + R T + Sbjct: 238 -YCGFCENY-GCYMYSKASPQTTILPVLLKRKNFEVRTKAQVIKVNLDASGKRATGVTYI 295 Query: 278 DAGKKPHKATAKAFVFACNGIETPRLLLLAANAANPNGLANSSDQVGRNM 327 DA + + A + RLLLL+ P VG+N Sbjct: 296 DAQGREVEQPADLVLLTAFQTHNVRLLLLSG-IGKPYDPVTGEGVVGKNF 344 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 0.135 0.421 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: 1,828,696 Number of extensions: 81222 Number of successful extensions: 242 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 227 Number of HSP's successfully gapped: 5 Length of query: 550 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 460 Effective length of database: 1,193,720 Effective search space: 549111200 Effective search space used: 549111200 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)