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= 0009.0185.p (808 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311015|ref|YP_003775107.1| anaerobic (selenocysteine-conta... 1441 0.0 gi|300310774|ref|YP_003774866.1| anaerobic formate dehydrogenase... 709 0.0 gi|300310808|ref|YP_003774900.1| NAD-dependent formate dehydroge... 127 4e-30 gi|300312208|ref|YP_003776300.1| assimilatory nitrate reductase ... 99 2e-21 >gi|300311015|ref|YP_003775107.1| anaerobic (selenocysteine-containing) formate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 775 Score = 1441 bits (3729), Expect = 0.0, Method: Compositional matrix adjust. Identities = 680/768 (88%), Positives = 723/768 (94%) Query: 6 KAKIETYNNPAGGWGALKYVALNLVKEHVADGKGLRTLLSQNQPDGFDCPGCAWPDREHT 65 K +IE YN PAGGWGALKYVALNLVKEHVADG+GLRTLLSQNQPDGFDCPGCAWPDREHT Sbjct: 4 KPRIEQYNQPAGGWGALKYVALNLVKEHVADGRGLRTLLSQNQPDGFDCPGCAWPDREHT 63 Query: 66 STFEFCENGVKAVAAEATKKRVTNEFFARHTVAELMQQSDYQLEDHGRLTAPMVYDAVSD 125 STFEFCENGVKAVAAEATKKRVT EFFA+HTV ELMQQSD++LE+HGRLT PMVYDA +D Sbjct: 64 STFEFCENGVKAVAAEATKKRVTPEFFAQHTVTELMQQSDFELEEHGRLTHPMVYDAATD 123 Query: 126 KYVPIAWPQAYELIARHLNALPAPDMADFYVSGRASNEAAFLFQLFVRQYGTNNFPDCSN 185 KY I W A+ L+A+HLNALP PDMADFYVSGRASNEAAFLFQLFVRQYGTNNFPDCSN Sbjct: 124 KYKKIEWADAFALMAKHLNALPDPDMADFYVSGRASNEAAFLFQLFVRQYGTNNFPDCSN 183 Query: 186 MCHEPTSVGLPGTVGVGKGTVLLDDFDLCDTLFLFGQNPATNHPRMMGELRHASKRGATI 245 MCHEPTSVGLPGTVG+GKGTVLL+DFD CDTL LFGQNPATNHPRMMGELRHASKRGATI Sbjct: 184 MCHEPTSVGLPGTVGIGKGTVLLEDFDHCDTLLLFGQNPATNHPRMMGELRHASKRGATI 243 Query: 246 VAINPLKERGLERFADPQSKMEMLTMGSTQISSMFIHPTLGGDLALIKGVIKRTIELDDE 305 VAINPLKERGLERFADPQSK+EMLTMGST+ISSMFIHPTLGGDLALIKGVIKRTIELDD Sbjct: 244 VAINPLKERGLERFADPQSKVEMLTMGSTRISSMFIHPTLGGDLALIKGVIKRTIELDDA 303 Query: 306 ALAAGAERVLDVQFIAEHTSGFEEFAADARAQNWEDIIGESGVSREDIEKLTQIYVRGKA 365 A AAGAERV+DV+FI EHT+GFEEFAA ARA++W+DI+ ESGVSREDIEKL Q+YV+GKA Sbjct: 304 ARAAGAERVIDVKFIEEHTAGFEEFAAQARAESWDDIVAESGVSREDIEKLAQVYVKGKA 363 Query: 366 VIATWGMGLTQHKHAVGTIQLLSNMMMLRGNIGRPGAGLCPVRGHSNVQGDRTVGIDEKP 425 VIATWGMGLTQHKHAV TIQLLSNMMMLRGNIGR GAGLCPVRGHSNVQGDRTVGIDEKP Sbjct: 364 VIATWGMGLTQHKHAVATIQLLSNMMMLRGNIGRQGAGLCPVRGHSNVQGDRTVGIDEKP 423 Query: 426 TDAFLDRLEQVFEFKAPRHHGNDTVGSVMAMLEGRTKVFIGLGGNFAMATPDTPRTFDAM 485 T AFLDRLEQVF FKAPRHHGNDTVGSVMAMLEGRTKVFIGLGGNFAMATPDTPRTF+AM Sbjct: 424 TPAFLDRLEQVFGFKAPRHHGNDTVGSVMAMLEGRTKVFIGLGGNFAMATPDTPRTFEAM 483 Query: 486 RSCNLTVHITTKLNRSHLVHGKDALILPTLGRTEIDKQAGGAQGVTVEDSMSMVHVSYGI 545 RSCNLTVHITTKLNRSHLVHGKDALILPT+GRTEID Q G QGVTVEDSMSMVHVSYGI Sbjct: 484 RSCNLTVHITTKLNRSHLVHGKDALILPTMGRTEIDMQKSGPQGVTVEDSMSMVHVSYGI 543 Query: 546 NKPASELCMSETAIVANIAEATMKHRNNGKKIDWLWYAEDYSRIRDAIEKVYDSFKDYNQ 605 NKPASE MSETAIVA++AEATMK RNNG KIDWLWYAEDYSRIRDAIE+VYD+FK YN+ Sbjct: 544 NKPASEHLMSETAIVAHLAEATMKSRNNGPKIDWLWYAEDYSRIRDAIEQVYDAFKGYNE 603 Query: 606 RITNPGGFHLGVASRERVWKTDTGKANFVVHAIPLDTPIHRARKIHGDKLMTLMTTRSHD 665 RI NPGGFHLGVASR+RVWKT +GKANF+VH IP DTPIHRAR IHG+KL+TLMTTRSHD Sbjct: 604 RIANPGGFHLGVASRDRVWKTASGKANFIVHDIPKDTPIHRARAIHGEKLLTLMTTRSHD 663 Query: 666 QYNTTIYGMDDRYRGVFGQRRVIFINKQDLDVLGLKDGEWVDVVSVWDDGIERRADGFLL 725 QYNTTIYGMDDRYRGVFGQRRV+FIN DL +LGLKDGEWVD+ SVWDDG+ERRA+GFLL Sbjct: 664 QYNTTIYGMDDRYRGVFGQRRVVFINPADLQMLGLKDGEWVDITSVWDDGVERRAEGFLL 723 Query: 726 VEYDIPRGCLGSYYPETNPLVPLESFADKARTPTSKSIPVLLHRAAVQ 773 VEY+IPRGC+GSYYPETNPLVPLESFADKARTPTSKSIPVLL R+AVQ Sbjct: 724 VEYEIPRGCIGSYYPETNPLVPLESFADKARTPTSKSIPVLLSRSAVQ 771 >gi|300310774|ref|YP_003774866.1| anaerobic formate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 790 Score = 709 bits (1829), Expect = 0.0, Method: Compositional matrix adjust. Identities = 360/769 (46%), Positives = 482/769 (62%), Gaps = 23/769 (2%) Query: 7 AKIETYNNPAGGWGALKYVALNLVKEHVADGKGLRTLLSQNQPDGFDCPGCAWPDREHTS 66 A + YNN AGGWG++K + L +EHV G R L+ QN+P+GF C C+W Sbjct: 27 ATFDEYNNAAGGWGSVKALGSILQQEHVI-ASGTRILMHQNKPEGFACVSCSWAKPADPH 85 Query: 67 TFEFCENGVKAVAAEATKKRVTNEFFARHTVAELMQQSDYQLEDHGRLTAPMVYDAVSDK 126 FEFCENG KA A E T+KR T FFA+HTV E+ +D +LE GR+T PM YDA SD+ Sbjct: 86 LFEFCENGAKATAWEITRKRATAAFFAQHTVTEMEAWNDLELESSGRVTEPMKYDAASDR 145 Query: 127 YVPIAWPQAYELIARHLNALPAPDMADFYVSGRASNEAAFLFQLFVRQYGTNNFPDCSNM 186 Y+P++W +A++ IA L A+ P FY SGRAS E ++L+QL R YGTNN PD SNM Sbjct: 146 YLPVSWSEAFDDIAAQLRAM-DPKKVVFYASGRASLETSYLYQLMARMYGTNNLPDSSNM 204 Query: 187 CHEPTSVGLPGTVGVGKGTVLLDDFDLCDTLFLFGQNPATNHPRMMGELRHASKRGATIV 246 CHE TSV LP T+GV GTV LDDF D + FG N TN PRM+ L KRG ++ Sbjct: 205 CHESTSVALPQTIGVPVGTVTLDDFGQTDCILFFGHNTGTNAPRMLHPLEEVRKRGVPVI 264 Query: 247 AINPLKERGLERFADPQSKMEMLTMGSTQISSMFIHPTLGGDLALIKGVIKRTIELDDEA 306 NPL+ERGLERF +PQS EM+T T IS+ ++ +GGD A G+ KR +E DD+A Sbjct: 265 TFNPLRERGLERFVNPQSPKEMVTPAHTDISTQYLQIKIGGDSAAAIGMAKRILERDDKA 324 Query: 307 LAAGAERVLDVQFIAEHTSGFEEFAADARAQNWEDIIGESGVSREDIEKLTQIYVRGKAV 366 G R+LD+ FI EHTSGFE+FA RA W+++ +GVSR ++E Y Sbjct: 325 RQEGLPRLLDLAFIEEHTSGFEQFADAVRAAPWDELERHAGVSRAELELAADTYAGAGRA 384 Query: 367 IATWGMGLTQHKHAVGTIQLLSNMMMLRGNIGRPGAGLCPVRGHSNVQGDRTVGIDEKPT 426 + +GMG+TQH+ AV TI +L+N++++RGNIG+PGAG+CP+RGHSNVQG RTVGI EKP Sbjct: 385 MLMYGMGVTQHREAVRTIHMLTNLLLMRGNIGKPGAGICPIRGHSNVQGQRTVGITEKPE 444 Query: 427 DAFLDRLEQVFEFKAPRHHGNDTVGSVMAMLEGRTKVFIGLGGNFAMATPDTPRTFDAMR 486 D+L ++ F+ P G +TV + + +G F LGGNF A PD A R Sbjct: 445 LVPNDKLRALYHFEPPMEKGLNTVEACEKIRDGELSAFFMLGGNFVRAIPDHGVMEAAWR 504 Query: 487 SCNLTVHITTKLNRSHLVHGKDALILPTLGRTEIDKQAGGAQGVTVEDSMSMVHVSYGIN 546 LTV + T NRS ++HG+ + +LP LGR EID+Q GG Q V+VEDS +H S G Sbjct: 505 KLPLTVQVVTHFNRSCVIHGQTSYVLPCLGRIEIDRQRGGEQAVSVEDSTGCMHGSRGRA 564 Query: 547 KPASELCMSETAIVANIAEATMKHRNNGKKIDWLWYAEDYSRIRDAIEKVY-DSFKDYNQ 605 +PAS +SE AIVA +A+ + ++DW + DY+RIRDAIE Y D F+D+N Sbjct: 565 EPASPHLLSEPAIVAELAKRLLPF---NPQVDWDGWVGDYARIRDAIEATYPDIFRDFNA 621 Query: 606 RITNPGGFHLGVASRERVWKTDTGKANFVV-------HAIPLDTPIHRARKIHGDKLMTL 658 R+ NPGGF +A+RER WKT G+ANF+ +P D P +++ L Sbjct: 622 RMWNPGGFARPLAARERQWKTPNGRANFMTPDGFDPDPDMPGDAP----------EVLRL 671 Query: 659 MTTRSHDQYNTTIYGMDDRYRGVFGQRRVIFINKQDLDVLGLKDGEWVDVVSVWDDGIER 718 MTTR Q+NTT+Y +DDR+RGV+G RRV+ +N +DL GL G++V +V DG+ER Sbjct: 672 MTTRGDSQFNTTVYSLDDRFRGVWGTRRVLLMNLRDLQQHGLAAGDFVCAETVSADGVER 731 Query: 719 RADGFLLVEYDIPRGCLGSYYPETNPLVPLESFADKARTPTSKSIPVLL 767 R + +DIP GC+ Y+PE N L+PL A ++ P +KS+P+ L Sbjct: 732 RVPHLRVEPFDIPVGCVMGYFPELNRLIPLFHHARGSKVPAAKSVPIRL 780 >gi|300310808|ref|YP_003774900.1| NAD-dependent formate dehydrogenase subunit alpha [Herbaspirillum seropedicae SmR1] Length = 957 Score = 127 bits (319), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 88/315 (27%), Positives = 145/315 (46%), Gaps = 30/315 (9%) Query: 113 RLTAPMVYDAVSDKYVPIAWPQAYELIA---RHLNALPAPDMADFYVSGRASNEAAFLFQ 169 R+ PM+ +++D + ++W +A A R + A D S R +NE +L Q Sbjct: 298 RILNPMIRKSINDPWREVSWEEALSYAASEFRRIQAKHGKDSIGGITSSRCTNEETYLVQ 357 Query: 170 LFVRQ-YGTNNFPDCSNMCHEPTSVGLPGTVGVGKGTVLLDDFDLCDTLFLFGQNPATNH 228 VR +G NN C+ +CH PT GL T+G GT + D + + G NPA H Sbjct: 358 KLVRAAFGNNNVDTCARVCHSPTGYGLKQTLGESAGTQTFESVMKSDVILIMGANPAAGH 417 Query: 229 PRMMGELRHASKRGATIVAINPLKERGLERFADPQSKMEMLTMGSTQISSMFIHPTLGGD 288 P +++ ++GA ++ I+P R E P + + + + P G + Sbjct: 418 PVFASQIKRRVRQGAKLIVIDP---RTTEMVKSPHIQADY---------HLKLRP--GTN 463 Query: 289 LALIKGVIKRTIE--LDDEALAAGAERVLDVQFIAEHTSGFEEFAADARAQNW-EDIIGE 345 A+I + + L DEA + D+Q + ++EF R N E + Sbjct: 464 TAIITALAHVILSEGLQDEAY---IQERCDLQSYQD----WKEFV--LREDNSPEAMAAI 514 Query: 346 SGVSREDIEKLTQIYVRGKAVIATWGMGLTQHKHAVGTIQLLSNMMMLRGNIGRPGAGLC 405 +GV E I ++Y G +G+G+T+H T+ ++N+ M GN+GR G G+ Sbjct: 515 TGVPAEIIRGAARLYATGGNAAIYYGLGVTEHAQGSTTVMGIANLAMCTGNVGREGVGVN 574 Query: 406 PVRGHSNVQGDRTVG 420 P+RG +NVQG +G Sbjct: 575 PLRGQNNVQGSCDMG 589 >gi|300312208|ref|YP_003776300.1| assimilatory nitrate reductase large subunit [Herbaspirillum seropedicae SmR1] Length = 922 Score = 98.6 bits (244), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 107/431 (24%), Positives = 172/431 (39%), Gaps = 56/431 (12%) Query: 112 GRLTAPMVYDAVSDKYVPIAWPQAYELIARHLNALPA---PDMADFYVSGRASNEAAFLF 168 GRL P + DA + +AW QA + +A +A+ A PD YVSG+ E ++ Sbjct: 68 GRLLHPQLRDA-QGQLQQLAWDQALDHVASKFSAIIAEHGPDAVALYVSGQLLTEDYYIA 126 Query: 169 QLFVRQY-GTNNFPDCSNMCHEPTSVGLPGTVGVGKGTVLLDDFDLCDTLFLFGQNPATN 227 ++ Y G+ N S +C G G V +D +L D + L G N A Sbjct: 127 NKLMKGYIGSANIDTNSRLCMSSAVAGHKRAFGEDLVPVCYEDLELADLVVLVGSNAAWC 186 Query: 228 HPRMMGEL-RHASKRGAT-IVAINPLKERGLERFADPQSKMEMLTMGSTQISSMFIHPTL 285 HP + + R R A +V I+P + + +++ + + Sbjct: 187 HPILFQRIARLKETRPALRLVVIDPRR------------------TATCELADLHLPIKP 228 Query: 286 GGDLALIKGVIKRTIELDDEALAAGAERVL-DVQFIAEHTSGFEEF--AADARAQNWEDI 342 G D+ L G++ A R L D FI HT GF+E ADA + + Sbjct: 229 GTDVWLFNGLMSYL-----------AHRGLRDNAFIEAHTKGFDEALAVADADCADPATV 277 Query: 343 IGESGVSREDIEKLTQIYVRGKAVIATWGMGLTQHKHAVGTIQLLSNMMMLRGNIGRPGA 402 + +D+ + + + V+ + MG+ Q + + N + G IG+PG Sbjct: 278 ARLCKIDLKDLLAFYEAFANTEKVVTGFSMGVNQSSAGTDKVNSIINCHLATGRIGKPGM 337 Query: 403 GLCPVRGHSNVQGDRTVGIDEKPTDAFLDRLEQVFE-------FKAPR---HHGNDTVGS 452 G + G N G R VG A +D L+Q +++PR G V Sbjct: 338 GPFSITGQPNAMGGREVGGLANMLAAHMD-LDQPLHRQIVQDFWQSPRIADKPGLKAVDM 396 Query: 453 VMAMLEGRTKVFIGLGGNFAMATPDTPRTFDAMRSCNLTVH--ITTKLNRSHLVHGKDAL 510 A+ EGR K + N ++ PD A++ C L V + T+ + + L H + Sbjct: 397 FRAIEEGRIKAVWIMATNPMVSLPDADLVQRALQKCELVVSSDVITQTDTNALAH----V 452 Query: 511 ILPTLGRTEID 521 +LP L E D Sbjct: 453 LLPALAWGEKD 463 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 0.320 0.136 0.416 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: 2,504,201 Number of extensions: 104329 Number of successful extensions: 240 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 232 Number of HSP's successfully gapped: 5 Length of query: 808 Length of database: 1,619,870 Length adjustment: 93 Effective length of query: 715 Effective length of database: 1,179,515 Effective search space: 843353225 Effective search space used: 843353225 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: 135 (56.6 bits)