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= 0031.0117.p (641 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313158|ref|YP_003777250.1| anaerobic dehydrogenase family ... 1030 0.0 gi|300312208|ref|YP_003776300.1| assimilatory nitrate reductase ... 113 4e-26 gi|300310808|ref|YP_003774900.1| NAD-dependent formate dehydroge... 99 1e-21 >gi|300313158|ref|YP_003777250.1| anaerobic dehydrogenase family protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 1030 bits (2662), Expect = 0.0, Method: Compositional matrix adjust. Identities = 505/693 (72%), Positives = 556/693 (80%), Gaps = 67/693 (9%) Query: 12 IVRAACPHDCPDTCALLVTVKDGIATEVKGDPDHPTTAGVLCTKVSRYTERTYHKDRLLH 71 IVRAACPHDCPDTCALLVTVKDG+ATEV+GDP HP TAGVLCTKVSRY ERTYH DRLLH Sbjct: 5 IVRAACPHDCPDTCALLVTVKDGVATEVRGDPAHPPTAGVLCTKVSRYAERTYHPDRLLH 64 Query: 72 PMKRVGKKGEGKFERISWDEALDTISARLKEVAARNPQAILPYSYAGTMGLVQGESMAMR 131 PM+RVGKKGEGKFERISWDEA+ TI+ RL ++A R+PQAILPYSYAGTMG VQGESMA R Sbjct: 65 PMRRVGKKGEGKFERISWDEAIATIAQRLGQIALRDPQAILPYSYAGTMGQVQGESMAGR 124 Query: 132 FFNRIGASQLDRTICASAGAAGYKYTVGTRLGADTEHVQDARLIIIWGGNPIASNLHFWM 191 FF+R+GASQL+RTICASAG AGY+YT+G R+GAD E V A+LI+IWGGNPIASNLHFW Sbjct: 125 FFHRLGASQLERTICASAGGAGYRYTIGARVGADLEQVDHAKLILIWGGNPIASNLHFWT 184 Query: 192 RVQEAKRRGAKLIAIDPYRSLSADKCHQHIALLPGTDAALALGMMHVLINENLLDADYIA 251 RVQ AKR GA+LIAIDPYRSL+A+KCHQHIALLPGTDAALALGMMHVLI+E+LLD DYIA Sbjct: 185 RVQTAKRNGARLIAIDPYRSLTAEKCHQHIALLPGTDAALALGMMHVLISEDLLDHDYIA 244 Query: 252 QHTLGFAQLKQRVQEWSPQHTAEVCGISADEVVQLAREYG-------------------- 291 +HTLGF QL++RV EW+P TAEVCGISA+EV+ LAREYG Sbjct: 245 RHTLGFEQLRERVAEWTPARTAEVCGISAEEVLNLAREYGRVALAGEGVFIRANYGLQRV 304 Query: 292 ----------AAAHXLVGAWRHAGGGLQLSTSDSFPKNGAFLQRPDLLLQHNNGVPTRTI 341 A LVGAWRH GG+Q+S SDSFPK+ A L RPDL H G P R I Sbjct: 305 RGGGMAARNVACLPALVGAWRHPAGGVQMSVSDSFPKDAAALSRPDLAAGH--GKPARVI 362 Query: 342 NMSTIGDDLLREASADFGPRVEAMIVYNSNPVAVAPESGKVMQGFAREDLFTVVLEHFQT 401 NMSTIGD LL ASADFGP+VEA+IVYNSNPVAVAPES KV QGFAREDLFTVVLEHFQT Sbjct: 363 NMSTIGDALLHPASADFGPKVEALIVYNSNPVAVAPESAKVAQGFAREDLFTVVLEHFQT 422 Query: 402 DTADYADILLPATTQLEHIDVHATYGHVYMMANNAAIAPLGEAKANSEIFRLLAARMGFT 461 DTADYADILLPATTQLEHIDVHA+YGHVY+MANNAAIAP+GEAK N+EIFR LAA MGFT Sbjct: 423 DTADYADILLPATTQLEHIDVHASYGHVYIMANNAAIAPMGEAKPNTEIFRRLAAAMGFT 482 Query: 462 EDCFKDSDDAIAAQAFDRRNPRAADYDWERLKETGWQRLNMPVAPFAEGGFGTPSGKCEF 521 EDCF+DSDD +AA AF R +PR+A YDWE+LK+ GWQRL +PVAPFAEGGF TPSGKCEF Sbjct: 483 EDCFQDSDDQLAAVAFKRDDPRSAGYDWEQLKQKGWQRLAVPVAPFAEGGFATPSGKCEF 542 Query: 522 YSARMLADGLDPLPTYIAPYESVASNVELAQKYPLAMISPPARNFLNSSFVNVQSLRDTE 581 YS +M A GLDPLP YI PYESVASN +LA +YPLAMISPPARNFLNSSFVNVQSLRDTE Sbjct: 543 YSEQMKAAGLDPLPAYIPPYESVASNPQLAARYPLAMISPPARNFLNSSFVNVQSLRDTE 602 Query: 582 GEPHLDIHPDDAAARGMRX-----------------------------------KKFSGD 606 GEPHLD+HP DAAARG+ KKF+ D Sbjct: 603 GEPHLDMHPQDAAARGISQGDMVRIFNDRGSLQARVRVTDKARVGLVVGLSIWWKKFAAD 662 Query: 607 GKNANEVTSQRLTDMGNAPTFYDVLVQVEACPS 639 GKNANEVTSQRLTDMG+APTFYDVLVQVE P+ Sbjct: 663 GKNANEVTSQRLTDMGHAPTFYDVLVQVEKLPA 695 >gi|300312208|ref|YP_003776300.1| assimilatory nitrate reductase large subunit [Herbaspirillum seropedicae SmR1] Length = 922 Score = 113 bits (283), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 163/673 (24%), Positives = 269/673 (39%), Gaps = 98/673 (14%) Query: 4 MNSVSEPIIVRAA-----CPHDCPDTCALLVTVKDGIATEVKGDPDHPTTAGVLCTKVSR 58 MN P+ + A CP+ C C + ++KD ++GD HP G LC K S Sbjct: 1 MNLSQTPLALAVATTSTTCPY-CGVGCGVSASMKDDGRIGIQGDAQHPANFGRLCVKGSA 59 Query: 59 YTERTYHKDRLLHPMKRVGKKGEGKFERISWDEALDTISARLKEVAARN-PQAILPYSYA 117 E RLLHP R +G+ ++++WD+ALD ++++ + A + P A+ Y + Sbjct: 60 LGETVDLDGRLLHPQLR---DAQGQLQQLAWDQALDHVASKFSAIIAEHGPDAVALY-VS 115 Query: 118 GTMGLVQGESMAMRFFN-RIGASQLDRT--ICASAGAAGYKYTVGTRL-GADTEHVQDAR 173 G + L + +A + IG++ +D +C S+ AG+K G L E ++ A Sbjct: 116 GQL-LTEDYYIANKLMKGYIGSANIDTNSRLCMSSAVAGHKRAFGEDLVPVCYEDLELAD 174 Query: 174 LIIIWGGNPIASNLHFWMRVQEAK--RRGAKLIAIDPYRSLSADKCHQHIALLPGTDAAL 231 L+++ G N + + R+ K R +L+ IDP R+ + + H+ + PGTD L Sbjct: 175 LVVLVGSNAAWCHPILFQRIARLKETRPALRLVVIDPRRTATCELADLHLPIKPGTDVWL 234 Query: 232 ALGMMHVLINENLLDADYIAQHTLGF--AQLKQRVQEWSPQHTAEVCGISADEVVQLARE 289 G+M L + L D +I HT GF A P A +C I +++ Sbjct: 235 FNGLMSYLAHRGLRDNAFIEAHTKGFDEALAVADADCADPATVARLCKIDLKDLLAFYEA 294 Query: 290 YGAAAHXLVGAWRHAGGGLQLSTSDSFPKNGAF--------LQRPDL----LLQHNNGVP 337 + + G G+ S++ + N + +P + + N + Sbjct: 295 FANTEKVVTG----FSMGVNQSSAGTDKVNSIINCHLATGRIGKPGMGPFSITGQPNAMG 350 Query: 338 TRTI----NMSTIGDD----LLREASADF--GPRV--------------------EAMIV 367 R + NM D L R+ DF PR+ +A+ + Sbjct: 351 GREVGGLANMLAAHMDLDQPLHRQIVQDFWQSPRIADKPGLKAVDMFRAIEEGRIKAVWI 410 Query: 368 YNSNPVAVAPESGKVMQGFAREDLFTVVLEHFQTDTADYADILLPATTQLEHIDVHATYG 427 +NP+ P++ V + + +L QTDT A +LLPA E D T Sbjct: 411 MATNPMVSLPDADLVQRALQKCELVVSSDVITQTDTNALAHVLLPALAWGEK-DGTVTNS 469 Query: 428 HVYMMANNAAIAPLGEAKANSEIFRLLAARMGFTEDCFKDSDDAIAAQAFDRRNP----R 483 + A ++ GEA+ + I +A RMGF D F D A + FD R Sbjct: 470 ERRISRQRAFLSAPGEARGDWRIICDVARRMGF--DGF---DFAGPHEIFDEHARLSAHR 524 Query: 484 AADYDWERLKE-------TGWQR--------LNMPVAPFAEGGFGTPSGKCEFYSARMLA 528 + D R++ TG R + PV ++G + E + Sbjct: 525 NGEADASRVRRVFNLAGLTGMDRAAYDALAPIQWPVQRLSDGSVSGTARVLEDHRFSHAD 584 Query: 529 DGLDPLPTYIAPYESVASNVELAQKYPLAMISPPARNFLNSSFVNVQS--LRDTEGEPHL 586 +PT AP + + E YPL + + R+ ++ +S L E + Sbjct: 585 GRARFVPT--APRSAAHAACE---DYPLILNTGRVRDHWHTMTRTGRSATLASHIPESFI 639 Query: 587 DIHPDDAAARGMR 599 DIHP DA G+R Sbjct: 640 DIHPQDALLYGVR 652 >gi|300310808|ref|YP_003774900.1| NAD-dependent formate dehydrogenase subunit alpha [Herbaspirillum seropedicae SmR1] Length = 957 Score = 98.6 bits (244), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 157/669 (23%), Positives = 262/669 (39%), Gaps = 113/669 (16%) Query: 11 IIVRAACPHDCPDTCALLVTVKDGIATEVKGD--------PDHPTTAGVLCTKVSRYTER 62 +I+ H TCA V E+KG+ D G C K Sbjct: 234 VIMLGQAEHSKVTTCAY-CGVGCSFKAEMKGNEVVRMVPYKDGKANQGHSCVKGRFAWGY 292 Query: 63 TYHKDRLLHPMKRVGKKGEGKFERISWDEALDTISARLKEVAARNPQAILPYSYAGTMG- 121 HKDR+L+PM R K + +SW+EAL ++ + + A++ + S G Sbjct: 293 ATHKDRILNPMIR--KSINDPWREVSWEEALSYAASEFRRIQAKHGKD----SIGGITSS 346 Query: 122 -LVQGESMAMRFFNR--IGASQLDRT--ICASAGAAGYKYTVGTRLGADT-EHVQDARLI 175 E+ ++ R G + +D +C S G K T+G G T E V + +I Sbjct: 347 RCTNEETYLVQKLVRAAFGNNNVDTCARVCHSPTGYGLKQTLGESAGTQTFESVMKSDVI 406 Query: 176 IIWGGNPIASNLHFWMRVQEAKRRGAKLIAIDPYRSLSADKCH----QHIALLPGTDAAL 231 +I G NP A + F +++ R+GAKLI IDP + H H+ L PGT+ A+ Sbjct: 407 LIMGANPAAGHPVFASQIKRRVRQGAKLIVIDPRTTEMVKSPHIQADYHLKLRPGTNTAI 466 Query: 232 ALGMMHVLINENLLDADYIAQHT--LGFAQLKQRV--QEWSPQHTAEVCGISADEVVQLA 287 + HV+++E L D YI + + K+ V ++ SP+ A + G+ A+ + A Sbjct: 467 ITALAHVILSEGLQDEAYIQERCDLQSYQDWKEFVLREDNSPEAMAAITGVPAEIIRGAA 526 Query: 288 REYG----AAAHXLVGAWRHAGGGLQLSTSDSFPKNGAFLQRPDL---LLQHNNGVP--- 337 R Y AA + +G HA G + + + R + L+ N V Sbjct: 527 RLYATGGNAAIYYGLGVTEHAQGSTTVMGIANLAMCTGNVGREGVGVNPLRGQNNVQGSC 586 Query: 338 -----------TRTINMSTIGDDLLREASADFGP----RVEAMI----------VYNSNP 372 R I+ ST+ + + P R+ M +Y Sbjct: 587 DMGSFPHELPGYRHISDSTVRNQFEQAWGVTLNPEPGLRIPNMFDAALDGSFKGLYCEGE 646 Query: 373 VAVAPESGKVMQGFAREDLFTVVLEH-FQTDTADYADILLPATTQLEHIDVHATYGHV-Y 430 V + A + + +V++ F +TA YA + LP ++ LE T+ + Sbjct: 647 DIVQSDPNTQHVAAALQAMECIVVQDLFLNETAKYAHVFLPGSSFLEK---DGTFTNAER 703 Query: 431 MMANNAAIAPLGEAKANSEIFRLLAARMGFTEDCFKDSD--DAIAAQAFDRRNPRAADYD 488 ++ + P K++ E+ LA +G+ S+ D IAA P Sbjct: 704 RISRVRKVMPPKAGKSDWEVTVALAEALGYPMPYNHPSEIMDEIAA-----LTPSFHGVS 758 Query: 489 WERLKETGWQRLNMPVAPFAEGGFGTP--------SGKCEFYSARMLADGLDPLPTYIAP 540 +++L++ G + P A GTP GK +F + + Sbjct: 759 YDKLEKLG--SIQWPCNESAPE--GTPIMHVGSFIRGKGKFINTQYF------------- 801 Query: 541 YESVASNVELAQKYPLAMISPPARNFLNSSFVNVQSLRDTEGEPH----LDIHPDDAAAR 596 A++ ++ Q+YPL + + L+ V Q+ R + H L+IHP DA R Sbjct: 802 ----ATDEKVTQRYPLILTT---GRILSQYNVGAQTRRTENSQWHSEDRLEIHPHDAEDR 854 Query: 597 GMRXKKFSG 605 G+R + G Sbjct: 855 GIREGDWVG 863 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 0.134 0.402 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: 2,064,953 Number of extensions: 89388 Number of successful extensions: 251 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 245 Number of HSP's successfully gapped: 4 Length of query: 641 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 550 Effective length of database: 1,188,985 Effective search space: 653941750 Effective search space used: 653941750 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 (21.8 bits) S2: 134 (56.2 bits)