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= 0001.3768.p (700 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 ... 1340 0.0 gi|300312208|ref|YP_003776300.1| assimilatory nitrate reductase ... 128 1e-30 gi|300310808|ref|YP_003774900.1| NAD-dependent formate dehydroge... 124 3e-29 gi|300311015|ref|YP_003775107.1| anaerobic (selenocysteine-conta... 62 1e-10 >gi|300313158|ref|YP_003777250.1| anaerobic dehydrogenase family protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 1340 bits (3468), Expect = 0.0, Method: Compositional matrix adjust. Identities = 644/698 (92%), Positives = 670/698 (95%) Query: 1 MTTTIVRAACPHDCPDTCALLVTVKDGVATEVRGDPDHPPTSGVLCTKVSRYAERTYHQD 60 MTTTIVRAACPHDCPDTCALLVTVKDGVATEVRGDP HPPT+GVLCTKVSRYAERTYH D Sbjct: 1 MTTTIVRAACPHDCPDTCALLVTVKDGVATEVRGDPAHPPTAGVLCTKVSRYAERTYHPD 60 Query: 61 RLLHPMRRVGKKGEGKFERISWEQAISTIAQRLGEIARRDPQAILPYSYAGTMGQVQGES 120 RLLHPMRRVGKKGEGKFERISW++AI+TIAQRLG+IA RDPQAILPYSYAGTMGQVQGES Sbjct: 61 RLLHPMRRVGKKGEGKFERISWDEAIATIAQRLGQIALRDPQAILPYSYAGTMGQVQGES 120 Query: 121 MAGRFFNRLGASQLERTICSSAGGAGYRYTIGTRVGSDLEQVDHAKLILIWGGNPIASNL 180 MAGRFF+RLGASQLERTIC+SAGGAGYRYTIG RVG+DLEQVDHAKLILIWGGNPIASNL Sbjct: 121 MAGRFFHRLGASQLERTICASAGGAGYRYTIGARVGADLEQVDHAKLILIWGGNPIASNL 180 Query: 181 HFWTRVQAAKRNGARLIAIDPYRSLTAEKCHQHIALLPGTDAALALGLMHVLIAEDLLDH 240 HFWTRVQ AKRNGARLIAIDPYRSLTAEKCHQHIALLPGTDAALALG+MHVLI+EDLLDH Sbjct: 181 HFWTRVQTAKRNGARLIAIDPYRSLTAEKCHQHIALLPGTDAALALGMMHVLISEDLLDH 240 Query: 241 DYIDRYTLGFDQLQQRVAQWTPARTAEVCGISAEQVQELAREYGRVALAGEGVFIRANYG 300 DYI R+TLGF+QL++RVA+WTPARTAEVCGISAE+V LAREYGRVALAGEGVFIRANYG Sbjct: 241 DYIARHTLGFEQLRERVAEWTPARTAEVCGISAEEVLNLAREYGRVALAGEGVFIRANYG 300 Query: 301 LQRVRGGGMAARNVACLPALVGAWRHAAGGVQLSVSDSFPKDMAALSRPDLAARHGQPSR 360 LQRVRGGGMAARNVACLPALVGAWRH AGGVQ+SVSDSFPKD AALSRPDLAA HG+P+R Sbjct: 301 LQRVRGGGMAARNVACLPALVGAWRHPAGGVQMSVSDSFPKDAAALSRPDLAAGHGKPAR 360 Query: 361 VINMSTIGDDLLRPASPAFGPKVEALIVYNSNPVAVAPESGKVAQGFAREDLFTVVLEHF 420 VINMSTIGD LL PAS FGPKVEALIVYNSNPVAVAPES KVAQGFAREDLFTVVLEHF Sbjct: 361 VINMSTIGDALLHPASADFGPKVEALIVYNSNPVAVAPESAKVAQGFAREDLFTVVLEHF 420 Query: 421 QTDTADYADILLPATTQLEHIDVHASYGHVYIIANNAAIAPMGEAKPNTEIFRLLAAAMG 480 QTDTADYADILLPATTQLEHIDVHASYGHVYI+ANNAAIAPMGEAKPNTEIFR LAAAMG Sbjct: 421 QTDTADYADILLPATTQLEHIDVHASYGHVYIMANNAAIAPMGEAKPNTEIFRRLAAAMG 480 Query: 481 FTEDCFKDSDDQLAAVAFRRDDPRSGDYDWEQLKQKGWQRLAVPVAPFAEGGFATPSGKC 540 FTEDCF+DSDDQLAAVAF+RDDPRS YDWEQLKQKGWQRLAVPVAPFAEGGFATPSGKC Sbjct: 481 FTEDCFQDSDDQLAAVAFKRDDPRSAGYDWEQLKQKGWQRLAVPVAPFAEGGFATPSGKC 540 Query: 541 EFYSEQMKAAGLDPLPTYIPPYESVASNPQLGAKYPLAMISPPARNFLNSSFVNVQSLRD 600 EFYSEQMKAAGLDPLP YIPPYESVASNPQL A+YPLAMISPPARNFLNSSFVNVQSLRD Sbjct: 541 EFYSEQMKAAGLDPLPAYIPPYESVASNPQLAARYPLAMISPPARNFLNSSFVNVQSLRD 600 Query: 601 TEGEPHLDMHPQDAAARGIVNGDTVRIFNDRGAMQARVRVTDKARPGLVVGLSIWWKKFA 660 TEGEPHLDMHPQDAAARGI GD VRIFNDRG++QARVRVTDKAR GLVVGLSIWWKKFA Sbjct: 601 TEGEPHLDMHPQDAAARGISQGDMVRIFNDRGSLQARVRVTDKARVGLVVGLSIWWKKFA 660 Query: 661 ADGKNANEVTSQRLTDMGNAPTFYDVLVQVEKLPQPAL 698 ADGKNANEVTSQRLTDMG+APTFYDVLVQVEKLP L Sbjct: 661 ADGKNANEVTSQRLTDMGHAPTFYDVLVQVEKLPAQGL 698 >gi|300312208|ref|YP_003776300.1| assimilatory nitrate reductase large subunit [Herbaspirillum seropedicae SmR1] Length = 922 Score = 128 bits (322), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 177/729 (24%), Positives = 293/729 (40%), Gaps = 68/729 (9%) Query: 10 CPHDCPDTCALLVTVKDGVATEVRGDPDHPPTSGVLCTKVSRYAERTYHQDRLLHPMRRV 69 CP+ C C + ++KD ++GD HP G LC K S E RLLHP R Sbjct: 19 CPY-CGVGCGVSASMKDDGRIGIQGDAQHPANFGRLCVKGSALGETVDLDGRLLHPQLR- 76 Query: 70 GKKGEGKFERISWEQAISTIAQRLGEI-ARRDPQAILPYSYAGTMGQVQGES--MAGRFF 126 +G+ ++++W+QA+ +A + I A P A+ Y GQ+ E +A + Sbjct: 77 --DAQGQLQQLAWDQALDHVASKFSAIIAEHGPDAVALY----VSGQLLTEDYYIANKLM 130 Query: 127 N-RLGASQLERT--ICSSAGGAGYRYTIGTR-VGSDLEQVDHAKLILIWGGNPIASNLHF 182 +G++ ++ +C S+ AG++ G V E ++ A L+++ G N + Sbjct: 131 KGYIGSANIDTNSRLCMSSAVAGHKRAFGEDLVPVCYEDLELADLVVLVGSNAAWCHPIL 190 Query: 183 WTRVQAAK--RNGARLIAIDPYRSLTAEKCHQHIALLPGTDAALALGLMHVLIAEDLLDH 240 + R+ K R RL+ IDP R+ T E H+ + PGTD L GLM L L D+ Sbjct: 191 FQRIARLKETRPALRLVVIDPRRTATCELADLHLPIKPGTDVWLFNGLMSYLAHRGLRDN 250 Query: 241 DYIDRYTLGFDQ-LQQRVAQWT-PARTAEVCGISAEQVQELAREYGRVALAGEGV----- 293 +I+ +T GFD+ L A PA A +C I + + + G Sbjct: 251 AFIEAHTKGFDEALAVADADCADPATVARLCKIDLKDLLAFYEAFANTEKVVTGFSMGVN 310 Query: 294 -----------FIRANYGLQRVRGGGMAARNVACLPALVGAWRHAAGGVQLSVSDSFPKD 342 I + R+ GM ++ P +G GG+ ++ D Sbjct: 311 QSSAGTDKVNSIINCHLATGRIGKPGMGPFSITGQPNAMGG--REVGGLANMLAAHMDLD 368 Query: 343 MAALSRPDLAARHGQPSRVINMSTI-GDDLLRPASPAFGPKVEALIVYNSNPVAVAPESG 401 L R + Q R+ + + D+ R +++A+ + +NP+ P++ Sbjct: 369 Q-PLHR-QIVQDFWQSPRIADKPGLKAVDMFRAIEEG---RIKAVWIMATNPMVSLPDAD 423 Query: 402 KVAQGFAREDLFTVVLEHFQTDTADYADILLPATTQLEHIDVHASYGHVYIIANNAAIAP 461 V + + +L QTDT A +LLPA E D + I A ++ Sbjct: 424 LVQRALQKCELVVSSDVITQTDTNALAHVLLPALAWGEK-DGTVTNSERRISRQRAFLSA 482 Query: 462 MGEAKPNTEIFRLLAAAMGFTEDCFKDSDDQLAAVAFRRDDPRSGDYDWEQLKQ------ 515 GEA+ + I +A MGF F + A R R+G+ D ++++ Sbjct: 483 PGEARGDWRIICDVARRMGFDGFDFAGPHEIFDEHA-RLSAHRNGEADASRVRRVFNLAG 541 Query: 516 -KGWQRLAV--------PVAPFAEGGFATPSGKCEFYSEQMKAAGLDPLPTYIPPYESVA 566 G R A PV ++G + SG E + + D ++P A Sbjct: 542 LTGMDRAAYDALAPIQWPVQRLSDG---SVSGTARVL-EDHRFSHADGRARFVPTAPRSA 597 Query: 567 SNPQLGAKYPLAMISPPARNFLNSSFVNVQS--LRDTEGEPHLDMHPQDAAARGIVNGDT 624 ++ YPL + + R+ ++ +S L E +D+HPQDA G+ G Sbjct: 598 AHAAC-EDYPLILNTGRVRDHWHTMTRTGRSATLASHIPESFIDIHPQDALLYGVREGGL 656 Query: 625 VRIFNDRGAMQARVRVTDKARPGLVVGLSIWWKKFAADGKNANEVTSQRLTDMGNAPTFY 684 RI + GAM ARV+ G V + I W +A V + + + P F Sbjct: 657 ARISSRWGAMVARVQHGGGIARGSVF-VPIHWNGQSASDARVGAVVNPVVDPVSGEPEFK 715 Query: 685 DVLVQVEKL 693 V +E+ Sbjct: 716 HTPVAIEEF 724 >gi|300310808|ref|YP_003774900.1| NAD-dependent formate dehydrogenase subunit alpha [Herbaspirillum seropedicae SmR1] Length = 957 Score = 124 bits (311), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 170/681 (24%), Positives = 267/681 (39%), Gaps = 88/681 (12%) Query: 58 HQDRLLHPMRRVGKKGEGKFERISWEQAISTIAQRLGEIARR---DPQAILPYSYAGTMG 114 H+DR+L+PM R K + +SWE+A+S A I + D + S Sbjct: 295 HKDRILNPMIR--KSINDPWREVSWEEALSYAASEFRRIQAKHGKDSIGGITSSRCTNEE 352 Query: 115 QVQGESMAGRFFNRLGASQLERTICSSAGGAGYRYTIGTRVGSD-LEQVDHAKLILIWGG 173 + + F R +C S G G + T+G G+ E V + +ILI G Sbjct: 353 TYLVQKLVRAAFGNNNVDTCAR-VCHSPTGYGLKQTLGESAGTQTFESVMKSDVILIMGA 411 Query: 174 NPIASNLHFWTRVQAAKRNGARLIAIDPYRSLTAEKCH----QHIALLPGTDAALALGLM 229 NP A + F ++++ R GA+LI IDP + + H H+ L PGT+ A+ L Sbjct: 412 NPAAGHPVFASQIKRRVRQGAKLIVIDPRTTEMVKSPHIQADYHLKLRPGTNTAIITALA 471 Query: 230 HVLIAEDLLDHDYI-DRYTL-GFDQLQQRVAQW--TPARTAEVCGISAEQVQELAREYGR 285 HV+++E L D YI +R L + ++ V + +P A + G+ AE ++ AR Y Sbjct: 472 HVILSEGLQDEAYIQERCDLQSYQDWKEFVLREDNSPEAMAAITGVPAEIIRGAARLYA- 530 Query: 286 VALAGEGVFIRANYGLQRVRGGGMAARNVACLPALVGAWRHAAGGV-----QLSVSDSFP 340 G I G+ G +A L G GV Q +V S Sbjct: 531 ---TGGNAAIYYGLGVTEHAQGSTTVMGIANLAMCTGNVGREGVGVNPLRGQNNVQGSC- 586 Query: 341 KDMAALSRPDLAARHGQPSRVINMSTIGDDLLRPASP----------AFGPKVEALIVYN 390 DM + RH S V N + P A + L Sbjct: 587 -DMGSFPHELPGYRHISDSTVRNQFEQAWGVTLNPEPGLRIPNMFDAALDGSFKGLYCEG 645 Query: 391 SNPVAVAPESGKVAQGFAREDLFTVVLEHFQTDTADYADILLPATTQLEHIDVHASYGHV 450 + V P + VA + VV + F +TA YA + LP ++ LE + Sbjct: 646 EDIVQSDPNTQHVAAALQAMECI-VVQDLFLNETAKYAHVFLPGSSFLEKDGTFTNAERR 704 Query: 451 YIIANNAAIAPMGEAKPNTEIFRLLAAAMGFTEDCFKDSD--DQLAAVAFRRDDPRSGDY 508 I+ + P K + E+ LA A+G+ S+ D++AA+ P Sbjct: 705 --ISRVRKVMPPKAGKSDWEVTVALAEALGYPMPYNHPSEIMDEIAALT-----PSFHGV 757 Query: 509 DWEQLKQKGWQRLAVPVAPFAEGGFATP--------SGKCEFYSEQMKAAGLDPLPTYIP 560 +++L++ G + P A G TP GK +F + Q Sbjct: 758 SYDKLEKLG--SIQWPCNESAPEG--TPIMHVGSFIRGKGKFINTQY------------- 800 Query: 561 PYESVASNPQLGAKYPLAMISPPARNFLNSSFVNVQSLRDTEGEPH----LDMHPQDAAA 616 A++ ++ +YPL + + L+ V Q+ R + H L++HP DA Sbjct: 801 ----FATDEKVTQRYPLILTTG---RILSQYNVGAQTRRTENSQWHSEDRLEIHPHDAED 853 Query: 617 RGIVNGDTVRIFNDRGAMQARVRVTDKARPGLVVGLSIWWKKFAADGKNANEVTSQRLTD 676 RGI GD V + + G R VT+K +PG+V + F AN +T+ Sbjct: 854 RGIREGDWVGVESRAGQTVLRATVTEKVQPGVV------YTTFHFPESGANVITTDNSDW 907 Query: 677 MGNAPTFYDVLVQVEKLPQPA 697 N P + VQV + QP+ Sbjct: 908 ATNCPEYKVTAVQVMPVTQPS 928 >gi|300311015|ref|YP_003775107.1| anaerobic (selenocysteine-containing) formate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 775 Score = 62.4 bits (150), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 64/268 (23%), Positives = 111/268 (41%), Gaps = 43/268 (16%) Query: 61 RLLHPMRRVGKKGEGKFERISWEQAISTIAQRLGEIARRDPQAILPYSYAGTMGQVQGES 120 RL HPM V K+++I W A + +A+ L + P + Y + Sbjct: 111 RLTHPM--VYDAATDKYKKIEWADAFALMAKHLNAL----PDPDMADFYVSGRASNEAAF 164 Query: 121 MAGRFFNRLGASQLE--RTICSSAGGAGYRYTIGTRVGSDL-EQVDHAKLILIWGGNPIA 177 + F + G + +C G T+G G+ L E DH +L++G NP Sbjct: 165 LFQLFVRQYGTNNFPDCSNMCHEPTSVGLPGTVGIGKGTVLLEDFDHCDTLLLFGQNPAT 224 Query: 178 SNLHFWTRVQAAKRNGARLIAIDPYRSLTAEKC---HQHIALLP---------------G 219 ++ ++ A + GA ++AI+P + E+ + +L G Sbjct: 225 NHPRMMGELRHASKRGATIVAINPLKERGLERFADPQSKVEMLTMGSTRISSMFIHPTLG 284 Query: 220 TDAALALGLMHVLI----------AEDLLDHDYIDRYTLGFDQL--QQRVAQWTPARTAE 267 D AL G++ I AE ++D +I+ +T GF++ Q R W AE Sbjct: 285 GDLALIKGVIKRTIELDDAARAAGAERVIDVKFIEEHTAGFEEFAAQARAESWDDI-VAE 343 Query: 268 VCGISAEQVQELAREY--GRVALAGEGV 293 G+S E +++LA+ Y G+ +A G+ Sbjct: 344 -SGVSREDIEKLAQVYVKGKAVIATWGM 370 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 0.135 0.407 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: 2,410,621 Number of extensions: 109665 Number of successful extensions: 330 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 326 Number of HSP's successfully gapped: 4 Length of query: 700 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 608 Effective length of database: 1,184,250 Effective search space: 720024000 Effective search space used: 720024000 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)