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= 0005.0247.p (562 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312208|ref|YP_003776300.1| assimilatory nitrate reductase ... 878 0.0 gi|300310808|ref|YP_003774900.1| NAD-dependent formate dehydroge... 211 2e-55 gi|300310774|ref|YP_003774866.1| anaerobic formate dehydrogenase... 101 1e-22 gi|300313158|ref|YP_003777250.1| anaerobic dehydrogenase family ... 97 3e-21 gi|300311015|ref|YP_003775107.1| anaerobic (selenocysteine-conta... 90 5e-19 >gi|300312208|ref|YP_003776300.1| assimilatory nitrate reductase large subunit [Herbaspirillum seropedicae SmR1] Length = 922 Score = 878 bits (2269), Expect = 0.0, Method: Compositional matrix adjust. Identities = 424/554 (76%), Positives = 466/554 (84%), Gaps = 1/554 (0%) Query: 2 IAITGDELHPANKGRLCVKGSALGETVDLSGRLLHPKVRDADGTLQRVSWDAALDKVAGG 61 I I GD HPAN GRLCVKGSALGETVDL GRLLHP++RDA G LQ+++WD ALD VA Sbjct: 38 IGIQGDAQHPANFGRLCVKGSALGETVDLDGRLLHPQLRDAQGQLQQLAWDQALDHVASK 97 Query: 62 LRGIIDRHGADAVALYVSGQLLTEDYYIANKLMKGYIGSANIDTNSRLCMSSAVAGHKRA 121 II HG DAVALYVSGQLLTEDYYIANKLMKGYIGSANIDTNSRLCMSSAVAGHKRA Sbjct: 98 FSAIIAEHGPDAVALYVSGQLLTEDYYIANKLMKGYIGSANIDTNSRLCMSSAVAGHKRA 157 Query: 122 FGEDLVPICYEDLELADMVVLVGSNTAWCHPILFQRIAKAKENRPEMKLIVIDPRRTATC 181 FGEDLVP+CYEDLELAD+VVLVGSN AWCHPILFQRIA+ KE RP ++L+VIDPRRTATC Sbjct: 158 FGEDLVPVCYEDLELADLVVLVGSNAAWCHPILFQRIARLKETRPALRLVVIDPRRTATC 217 Query: 182 ELADMHLPVKAGTDVWLFNGLMSFLAHRGARDNAFVDAHTSGLGEALAIADADCADPNEI 241 ELAD+HLP+K GTDVWLFNGLMS+LAHRG RDNAF++AHT G EALA+ADADCADP + Sbjct: 218 ELADLHLPIKPGTDVWLFNGLMSYLAHRGLRDNAFIEAHTKGFDEALAVADADCADPATV 277 Query: 242 ARICKVDVNDLLAFYQMFADTEKVITAFSMGVNQSSAGTDKVNSIINVHLISGRIGKPGM 301 AR+CK+D+ DLLAFY+ FA+TEKV+T FSMGVNQSSAGTDKVNSIIN HL +GRIGKPGM Sbjct: 278 ARLCKIDLKDLLAFYEAFANTEKVVTGFSMGVNQSSAGTDKVNSIINCHLATGRIGKPGM 337 Query: 302 GPFSITGQPNAMGGREVGGLANMLAAHMDLDNALHRDTVQTFWGSPHMADKPGLKAVDLF 361 GPFSITGQPNAMGGREVGGLANMLAAHMDLD LHR VQ FW SP +ADKPGLKAVD+F Sbjct: 338 GPFSITGQPNAMGGREVGGLANMLAAHMDLDQPLHRQIVQDFWQSPRIADKPGLKAVDMF 397 Query: 362 NAIEAGRIKAVWIMATNPMVSMPDANVVQRALSKCELVVASDIIEGTDTNAFAHVLLPAL 421 AIE GRIKAVWIMATNPMVS+PDA++VQRAL KCELVV+SD+I TDTNA AHVLLPAL Sbjct: 398 RAIEEGRIKAVWIMATNPMVSLPDADLVQRALQKCELVVSSDVITQTDTNALAHVLLPAL 457 Query: 422 GWGEKDGTVTNSERRISRQRAFLTAPGEARPDWKIICDVAIRMGYRGFDFAGVHAIFDEH 481 WGEKDGTVTNSERRISRQRAFL+APGEAR DW+IICDVA RMG+ GFDFAG H IFDEH Sbjct: 458 AWGEKDGTVTNSERRISRQRAFLSAPGEARGDWRIICDVARRMGFDGFDFAGPHEIFDEH 517 Query: 482 ARLSSYRNGPPQIAGNSMRVFNLDGLIGMNKQQFDQLQPIQWPVTRDKHNGDAVGAXVTR 541 ARLS++RNG A RVFNL GL GM++ +D L PIQWPV R + A V Sbjct: 518 ARLSAHRNGEAD-ASRVRRVFNLAGLTGMDRAAYDALAPIQWPVQRLSDGSVSGTARVLE 576 Query: 542 DKHNGDAVGAVRRI 555 D A G R + Sbjct: 577 DHRFSHADGRARFV 590 >gi|300310808|ref|YP_003774900.1| NAD-dependent formate dehydrogenase subunit alpha [Herbaspirillum seropedicae SmR1] Length = 957 Score = 211 bits (536), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 144/533 (27%), Positives = 248/533 (46%), Gaps = 36/533 (6%) Query: 12 ANKGRLCVKGSALGETVDLSGRLLHPKVRDA-DGTLQRVSWDAALDKVAGGLRGIIDRHG 70 AN+G CVKG R+L+P +R + + + VSW+ AL A R I +HG Sbjct: 277 ANQGHSCVKGRFAWGYATHKDRILNPMIRKSINDPWREVSWEEALSYAASEFRRIQAKHG 336 Query: 71 ADAVALYVSGQLLTEDYYIANKLMKGYIGSANIDTNSRLCMSSAVAGHKRAFGEDLVPIC 130 D++ S + E+ Y+ KL++ G+ N+DT +R+C S G K+ GE Sbjct: 337 KDSIGGITSSRCTNEETYLVQKLVRAAFGNNNVDTCARVCHSPTGYGLKQTLGESAGTQT 396 Query: 131 YEDLELADMVVLVGSNTAWCHPILFQRIAKAKENRPEMKLIVIDPRRTATCE----LADM 186 +E + +D+++++G+N A HP+ +I + R KLIVIDPR T + AD Sbjct: 397 FESVMKSDVILIMGANPAAGHPVFASQI--KRRVRQGAKLIVIDPRTTEMVKSPHIQADY 454 Query: 187 HLPVKAGTDVWLFNGLMSFLAHRGARDNAFV----DAHTSGLGEALAIADADCADPNEIA 242 HL ++ GT+ + L + G +D A++ D + + + + + P +A Sbjct: 455 HLKLRPGTNTAIITALAHVILSEGLQDEAYIQERCDLQSYQDWKEFVLREDN--SPEAMA 512 Query: 243 RICKVDVNDLLAFYQMFADTEKVITAFSMGVNQSSAGTDKVNSIINVHLISGRIGKPGMG 302 I V + +++A + +GV + + G+ V I N+ + +G +G+ G+G Sbjct: 513 AITGVPAEIIRGAARLYATGGNAAIYYGLGVTEHAQGSTTVMGIANLAMCTGNVGREGVG 572 Query: 303 PFSITGQPNAMGGREVGGLANMLAAHMDLDNALHRDTVQTFWGSPHMADKPGLKAVDLFN 362 + GQ N G ++G + L + + ++ R+ + WG + +PGL+ ++F+ Sbjct: 573 VNPLRGQNNVQGSCDMGSFPHELPGYRHISDSTVRNQFEQAWGVT-LNPEPGLRIPNMFD 631 Query: 363 AIEAGRIKAVWIMATNPMVSMPDANVVQRALSKCELVVASDIIEGTDTNAFAHVLLPALG 422 A G K ++ + + S P+ V AL E +V D+ +T +AHV LP Sbjct: 632 AALDGSFKGLYCEGEDIVQSDPNTQHVAAALQAMECIVVQDLFL-NETAKYAHVFLPGSS 690 Query: 423 WGEKDGTVTNSERRISRQRAFLTAPGEARPDWKIICDVAIRMGYRGFDFAGVHAIFDEHA 482 + EKDGT TN+ERRISR R + P + DW++ +A +GY + I DE A Sbjct: 691 FLEKDGTFTNAERRISRVRKVM-PPKAGKSDWEVTVALAEALGY-PMPYNHPSEIMDEIA 748 Query: 483 RLSSYRNGPPQIAGNSMRVFNLDGLIGMNKQQFDQLQPIQWPVTRDKHNGDAV 535 L+ G++ + ++L IQWP G + Sbjct: 749 ALTP-------------------SFHGVSYDKLEKLGSIQWPCNESAPEGTPI 782 >gi|300310774|ref|YP_003774866.1| anaerobic formate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 790 Score = 101 bits (252), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 109/435 (25%), Positives = 176/435 (40%), Gaps = 57/435 (13%) Query: 28 VDLSGRLLHPKVRDA--DGTLQRVSWDAALDKVAGGLRGIIDRHGADAVALYVSGQLLTE 85 ++ SGR+ P DA D L VSW A D +A LR + + V Y SG+ E Sbjct: 127 LESSGRVTEPMKYDAASDRYLP-VSWSEAFDDIAAQLRAMDPKK----VVFYASGRASLE 181 Query: 86 DYYIANKLMKGYIGSANIDTNSRLCMSSAVAGHKRAFGEDLVPICYEDLELADMVVLVGS 145 Y+ +LM G+ N+ +S +C S + G + + +D D ++ G Sbjct: 182 TSYLY-QLMARMYGTNNLPDSSNMCHESTSVALPQTIGVPVGTVTLDDFGQTDCILFFGH 240 Query: 146 NTAWCHPILFQRIAKAKENRPEMKLIVIDPRRT------------------ATCELADMH 187 NT P + + + ++ + +I +P R A +++ + Sbjct: 241 NTGTNAPRMLHPLEEVRKR--GVPVITFNPLRERGLERFVNPQSPKEMVTPAHTDISTQY 298 Query: 188 LPVKAGTDVWLFNGLMSFLAHRGAR----------DNAFVDAHTSGLGEALAIADADCAD 237 L +K G D G+ + R + D AF++ HTSG + ADA A Sbjct: 299 LQIKIGGDSAAAIGMAKRILERDDKARQEGLPRLLDLAFIEEHTSGFEQ---FADAVRAA 355 Query: 238 P-NEIARICKVDVNDLLAFYQMFADTEKVITAFSMGVNQSSAGTDKVNSIINVHLISGRI 296 P +E+ R V +L +A + + + MGV Q ++ + N+ L+ G I Sbjct: 356 PWDELERHAGVSRAELELAADTYAGAGRAMLMYGMGVTQHREAVRTIHMLTNLLLMRGNI 415 Query: 297 GKPGMGPFSITGQPNAMGGREVGGLANMLAAHMDLDNALHRDTVQTFWGSPHMADKPGLK 356 GKPG G I G N G R VG D AL+ P M + GL Sbjct: 416 GKPGAGICPIRGHSNVQGQRTVGITEKPELVPNDKLRALYH-------FEPPM--EKGLN 466 Query: 357 AVDLFNAIEAGRIKAVWIMATNPMVSMPDANVVQRALSKCELVVASDIIEGTDTNAFAH- 415 V+ I G + A +++ N + ++PD V++ A K L V ++ + + H Sbjct: 467 TVEACEKIRDGELSAFFMLGGNFVRAIPDHGVMEAAWRKLPLTV--QVVTHFNRSCVIHG 524 Query: 416 ---VLLPALGWGEKD 427 +LP LG E D Sbjct: 525 QTSYVLPCLGRIEID 539 >gi|300313158|ref|YP_003777250.1| anaerobic dehydrogenase family protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 97.1 bits (240), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 116/478 (24%), Positives = 198/478 (41%), Gaps = 43/478 (8%) Query: 4 ITGDELHPANKGRLCVKGSALGETVDLSGRLLHPKVR---DADGTLQRVSWDAALDKVAG 60 + GD HP G LC K S E RLLHP R +G +R+SWD A+ +A Sbjct: 32 VRGDPAHPPTAGVLCTKVSRYAERTYHPDRLLHPMRRVGKKGEGKFERISWDEAIATIAQ 91 Query: 61 GLRGIIDRHGADAVALY----VSGQLLTEDYYIANKLMKGYIGSANIDTNSRLCMSSAVA 116 L G I A+ Y GQ+ E +A + +G++ ++ +C S+ A Sbjct: 92 RL-GQIALRDPQAILPYSYAGTMGQVQGES--MAGRFFH-RLGASQLERT--ICASAGGA 145 Query: 117 GHKRAFGEDLVPICYEDLELADMVVLVGSNTAWCHPILFQRIAKAKENRPEMKLIVIDPR 176 G++ G V E ++ A ++++ G N + + R+ AK N +LI IDP Sbjct: 146 GYRYTIGAR-VGADLEQVDHAKLILIWGGNPIASNLHFWTRVQTAKRN--GARLIAIDPY 202 Query: 177 RTATCELADMHLPVKAGTDVWLFNGLMSFLAHRGARDNAFVDAHTSGLGEALAIADADCA 236 R+ T E H+ + GTD L G+M L D+ ++ HT G E L A+ Sbjct: 203 RSLTAEKCHQHIALLPGTDAALALGMMHVLISEDLLDHDYIARHTLGF-EQLRERVAEWT 261 Query: 237 DPNEIARICKVDVNDLLAFYQMFADT----EKVITAFSMGVNQSSAGTDKVNSIINVHLI 292 P A +C + ++L + + E V + G+ + G ++ + + Sbjct: 262 -PARTAEVCGISAEEVLNLAREYGRVALAGEGVFIRANYGLQRVRGGGMAARNVACLPAL 320 Query: 293 SGRIGKPGMGPFSITGQPNAMGGREVGGLA--NMLAAHMDLDNALHRDTVQTFWGSPHMA 350 G P G + + ++ L+ ++ A H ++ T+ P A Sbjct: 321 VGAWRHPAGG---VQMSVSDSFPKDAAALSRPDLAAGHGKPARVINMSTIGDALLHPASA 377 Query: 351 D-KPGLKAVDLFNAIEAGRIKAVWIMATNPMVSMPDANVVQRALSKCELVVASDIIEGTD 409 D P ++A+ ++N +NP+ P++ V + ++ +L TD Sbjct: 378 DFGPKVEALIVYN--------------SNPVAVAPESAKVAQGFAREDLFTVVLEHFQTD 423 Query: 410 TNAFAHVLLPALGWGEK-DGTVTNSERRISRQRAFLTAPGEARPDWKIICDVAIRMGY 466 T +A +LLPA E D + I A + GEA+P+ +I +A MG+ Sbjct: 424 TADYADILLPATTQLEHIDVHASYGHVYIMANNAAIAPMGEAKPNTEIFRRLAAAMGF 481 >gi|300311015|ref|YP_003775107.1| anaerobic (selenocysteine-containing) formate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 775 Score = 89.7 bits (221), Expect = 5e-19, Method: Compositional matrix adjust. Identities = 105/432 (24%), Positives = 165/432 (38%), Gaps = 58/432 (13%) Query: 32 GRLLHPKVRDA-DGTLQRVSWDAALDKVAGGLRGIIDRHGADAVALYVSGQLLTEDYYIA 90 GRL HP V DA +++ W A +A L + D AD YVSG+ E ++ Sbjct: 110 GRLTHPMVYDAATDKYKKIEWADAFALMAKHLNALPDPDMAD---FYVSGRASNEAAFLF 166 Query: 91 NKLMKGYIGSANIDTNSRLCMSSAVAGHKRAFGEDLVPICYEDLELADMVVLVGSNTAWC 150 ++ Y G+ N S +C G G + ED + D ++L G N A Sbjct: 167 QLFVRQY-GTNNFPDCSNMCHEPTSVGLPGTVGIGKGTVLLEDFDHCDTLLLFGQNPATN 225 Query: 151 HPILFQRIAKAKENRPEMKLIVIDPRRTATCE------------------LADMHLPVKA 192 HP + + A ++ ++ I+P + E ++ M + Sbjct: 226 HPRMMGELRHA--SKRGATIVAINPLKERGLERFADPQSKVEMLTMGSTRISSMFIHPTL 283 Query: 193 GTDVWLFNGLMSFL-----AHRGAR-----DNAFVDAHTSGLGEALAIADADCADPNEIA 242 G D+ L G++ A R A D F++ HT+G E A A A+ D +I Sbjct: 284 GGDLALIKGVIKRTIELDDAARAAGAERVIDVKFIEEHTAGFEEFAAQARAESWD--DIV 341 Query: 243 RICKVDVNDLLAFYQMFADTEKVITAFSMGVNQSSAGTDKVNSIINVHLISGRIGKPGMG 302 V D+ Q++ + VI + MG+ Q + + N+ ++ G IG+ G G Sbjct: 342 AESGVSREDIEKLAQVYVKGKAVIATWGMGLTQHKHAVATIQLLSNMMMLRGNIGRQGAG 401 Query: 303 PFSITGQPNAMGGREVGGLANMLAAHMDLDNALHRDTVQTFWGSPHMADKPGLKAVDLFN 362 + G N G R VG A +D + V F H G V Sbjct: 402 LCPVRGHSNVQGDRTVGIDEKPTPAFLD-----RLEQVFGFKAPRHH----GNDTVGSVM 452 Query: 363 AIEAGRIKAVWIMATNPMVSMPDANVVQRALSKCELVV-------ASDIIEGTDTNAFAH 415 A+ GR K + N ++ PD A+ C L V S ++ G D Sbjct: 453 AMLEGRTKVFIGLGGNFAMATPDTPRTFEAMRSCNLTVHITTKLNRSHLVHGKDA----- 507 Query: 416 VLLPALGWGEKD 427 ++LP +G E D Sbjct: 508 LILPTMGRTEID 519 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 0.321 0.136 0.413 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: 1,856,358 Number of extensions: 82186 Number of successful extensions: 241 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 228 Number of HSP's successfully gapped: 6 Length of query: 562 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 472 Effective length of database: 1,193,720 Effective search space: 563435840 Effective search space used: 563435840 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 (21.9 bits) S2: 133 (55.8 bits)