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= 0003.0144.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 ... 1355 0.0 gi|300310808|ref|YP_003774900.1| NAD-dependent formate dehydroge... 124 3e-29 gi|300312208|ref|YP_003776300.1| assimilatory nitrate reductase ... 122 7e-29 gi|300311015|ref|YP_003775107.1| anaerobic (selenocysteine-conta... 61 4e-10 >gi|300313158|ref|YP_003777250.1| anaerobic dehydrogenase family protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 1355 bits (3506), Expect = 0.0, Method: Compositional matrix adjust. Identities = 646/693 (93%), Positives = 672/693 (96%) Query: 1 MTTTIVRAACPHDCPDTCALLVTVKDGVATEVRGDPEHPPTAGVLCTKVSRYAERTYHQD 60 MTTTIVRAACPHDCPDTCALLVTVKDGVATEVRGDP HPPTAGVLCTKVSRYAERTYH D Sbjct: 1 MTTTIVRAACPHDCPDTCALLVTVKDGVATEVRGDPAHPPTAGVLCTKVSRYAERTYHPD 60 Query: 61 RLLHPMRRVGKKGEGKFERISWDEAIATIAQRLGQIALRDPQAILPYSYAGTMGQVQGES 120 RLLHPMRRVGKKGEGKFERISWDEAIATIAQRLGQIALRDPQAILPYSYAGTMGQVQGES Sbjct: 61 RLLHPMRRVGKKGEGKFERISWDEAIATIAQRLGQIALRDPQAILPYSYAGTMGQVQGES 120 Query: 121 MAGRFFNRLGASQLDRTICASAGGAGYRYTIGARIGTDLEQVDHAKLIIIWGGNPIASNL 180 MAGRFF+RLGASQL+RTICASAGGAGYRYTIGAR+G DLEQVDHAKLI+IWGGNPIASNL Sbjct: 121 MAGRFFHRLGASQLERTICASAGGAGYRYTIGARVGADLEQVDHAKLILIWGGNPIASNL 180 Query: 181 HFWTRVQAAKRNGARLIAIDPYRSLTAEKCHQHIALLPGTDAAFALGLMHVLITEDLLDH 240 HFWTRVQ AKRNGARLIAIDPYRSLTAEKCHQHIALLPGTDAA ALG+MHVLI+EDLLDH Sbjct: 181 HFWTRVQTAKRNGARLIAIDPYRSLTAEKCHQHIALLPGTDAALALGMMHVLISEDLLDH 240 Query: 241 DYIARYTLGFEQLKERVAEWTPARTAEVCGISAEEVQNLAREYARVALAGEGAFIRANYG 300 DYIAR+TLGFEQL+ERVAEWTPARTAEVCGISAEEV NLAREY RVALAGEG FIRANYG Sbjct: 241 DYIARHTLGFEQLRERVAEWTPARTAEVCGISAEEVLNLAREYGRVALAGEGVFIRANYG 300 Query: 301 LQRVRGGGMAARNVACLPALVGAWRHASGGIQLSVSDSFPKDTAALSRPDLAARHGKPSR 360 LQRVRGGGMAARNVACLPALVGAWRH +GG+Q+SVSDSFPKD AALSRPDLAA HGKP+R Sbjct: 301 LQRVRGGGMAARNVACLPALVGAWRHPAGGVQMSVSDSFPKDAAALSRPDLAAGHGKPAR 360 Query: 361 IINMSTIGDDLLKPASPDFGPQVEAVIVYNSNPVAVAPESGKVAQGFAREDLFTVVLEHF 420 +INMSTIGD LL PAS DFGP+VEA+IVYNSNPVAVAPES KVAQGFAREDLFTVVLEHF Sbjct: 361 VINMSTIGDALLHPASADFGPKVEALIVYNSNPVAVAPESAKVAQGFAREDLFTVVLEHF 420 Query: 421 QTDTADYADILLPATTQLEHIDVHASYGHVYMMANNAAIAPLGEAKPNTEIFRLLAAAMG 480 QTDTADYADILLPATTQLEHIDVHASYGHVY+MANNAAIAP+GEAKPNTEIFR LAAAMG Sbjct: 421 QTDTADYADILLPATTQLEHIDVHASYGHVYIMANNAAIAPMGEAKPNTEIFRRLAAAMG 480 Query: 481 FEEDCFKDSDDQLAAVAFKRDDPRSAGYDWQQLKEKGWQRLSVPVAPFAEGGFATPSGKC 540 F EDCF+DSDDQLAAVAFKRDDPRSAGYDW+QLK+KGWQRL+VPVAPFAEGGFATPSGKC Sbjct: 481 FTEDCFQDSDDQLAAVAFKRDDPRSAGYDWEQLKQKGWQRLAVPVAPFAEGGFATPSGKC 540 Query: 541 EFYSEQMKSAGLDPLPTYIAPYESVASNPQLGAKYPLAMISPPARNFLNSSFVNVQSLRD 600 EFYSEQMK+AGLDPLP YI PYESVASNPQL A+YPLAMISPPARNFLNSSFVNVQSLRD Sbjct: 541 EFYSEQMKAAGLDPLPAYIPPYESVASNPQLAARYPLAMISPPARNFLNSSFVNVQSLRD 600 Query: 601 TEGEPHLDMHPQDAAARGIAQGDTVRIFNDRGSMQARVRVTDKARVGLVVGLSIWWKKFA 660 TEGEPHLDMHPQDAAARGI+QGD VRIFNDRGS+QARVRVTDKARVGLVVGLSIWWKKFA Sbjct: 601 TEGEPHLDMHPQDAAARGISQGDMVRIFNDRGSLQARVRVTDKARVGLVVGLSIWWKKFA 660 Query: 661 ADGKNANEVTSQRLTDMGNAPTFYDVLVQVEKL 693 ADGKNANEVTSQRLTDMG+APTFYDVLVQVEKL Sbjct: 661 ADGKNANEVTSQRLTDMGHAPTFYDVLVQVEKL 693 >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 = 170/682 (24%), Positives = 271/682 (39%), Gaps = 92/682 (13%) Query: 58 HQDRLLHPMRRVGKKGEGKFERISWDEAIATIAQRLGQIALRDPQAILPYSYAGTMGQVQ 117 H+DR+L+PM R K + +SW+EA++ A +I + + + + + Sbjct: 295 HKDRILNPMIR--KSINDPWREVSWEEALSYAASEFRRIQAKHGKDSIGGITSSRCTNEE 352 Query: 118 GESMAGRFFNRLGASQLDRT--ICASAGGAGYRYTIGARIGTD-LEQVDHAKLIIIWGGN 174 + G + +D +C S G G + T+G GT E V + +I+I G N Sbjct: 353 TYLVQKLVRAAFGNNNVDTCARVCHSPTGYGLKQTLGESAGTQTFESVMKSDVILIMGAN 412 Query: 175 PIASNLHFWTRVQAAKRNGARLIAIDPYRSLTAEKCH----QHIALLPGTDAAFALGLMH 230 P A + F ++++ R GA+LI IDP + + H H+ L PGT+ A L H Sbjct: 413 PAAGHPVFASQIKRRVRQGAKLIVIDPRTTEMVKSPHIQADYHLKLRPGTNTAIITALAH 472 Query: 231 VLITEDLLDHDYI-ARYTL-GFEQLKERV--AEWTPARTAEVCGISAEEVQNLAREYARV 286 V+++E L D YI R L ++ KE V + +P A + G+ AE ++ AR YA Sbjct: 473 VILSEGLQDEAYIQERCDLQSYQDWKEFVLREDNSPEAMAAITGVPAEIIRGAARLYA-- 530 Query: 287 ALAGEGAFIRANYGLQRVRGGGMAARNVACLPALVG-AWRHASGGIQLSVSDSFPKDTAA 345 G A I G+ G +A L G R G L ++ Sbjct: 531 --TGGNAAIYYGLGVTEHAQGSTTVMGIANLAMCTGNVGREGVGVNPLRGQNNVQGSCDM 588 Query: 346 LSRPDLAARHGKPS-RIINMSTIGDDLLKPASPDFGPQ----------------VEAVIV 388 S P H P R I+ ST+ + + P+ + + Sbjct: 589 GSFP-----HELPGYRHISDSTVRNQFEQAWGVTLNPEPGLRIPNMFDAALDGSFKGLYC 643 Query: 389 YNSNPVAVAPESGKVAQGFAREDLFTVVLEHFQTDTADYADILLPATTQLEHIDVHASYG 448 + V P + VA + VV + F +TA YA + LP ++ LE + Sbjct: 644 EGEDIVQSDPNTQHVAAALQAMECI-VVQDLFLNETAKYAHVFLPGSSFLEKDGTFTNAE 702 Query: 449 HVYMMANNAAIAPLGEAKPNTEIFRLLAAAMGFEEDCFKDSD--DQLAAVAFKRDDPRSA 506 ++ + P K + E+ LA A+G+ S+ D++AA+ P Sbjct: 703 R--RISRVRKVMPPKAGKSDWEVTVALAEALGYPMPYNHPSEIMDEIAALT-----PSFH 755 Query: 507 GYDWQQLKEKGWQRLSVPVAPFAEGGFATP--------SGKCEFYSEQMKSAGLDPLPTY 558 G + +L++ G + P A G TP GK +F + Q Y Sbjct: 756 GVSYDKLEKLG--SIQWPCNESAPEG--TPIMHVGSFIRGKGKFINTQ-----------Y 800 Query: 559 IAPYESVASNPQLGAKYPLAMISPPARNFLNSSFVNVQSLRDTEGEPH----LDMHPQDA 614 A E V +YPL + + L+ V Q+ R + H L++HP DA Sbjct: 801 FATDEKVTQ------RYPLILTTG---RILSQYNVGAQTRRTENSQWHSEDRLEIHPHDA 851 Query: 615 AARGIAQGDTVRIFNDRGSMQARVRVTDKARVGLVVGLSIWWKKFAADGKNANEVTSQRL 674 RGI +GD V + + G R VT+K + G+V + F AN +T+ Sbjct: 852 EDRGIREGDWVGVESRAGQTVLRATVTEKVQPGVV------YTTFHFPESGANVITTDNS 905 Query: 675 TDMGNAPTFYDVLVQVEKLQQP 696 N P + VQV + QP Sbjct: 906 DWATNCPEYKVTAVQVMPVTQP 927 >gi|300312208|ref|YP_003776300.1| assimilatory nitrate reductase large subunit [Herbaspirillum seropedicae SmR1] Length = 922 Score = 122 bits (307), Expect = 7e-29, Method: Compositional matrix adjust. Identities = 171/728 (23%), Positives = 288/728 (39%), Gaps = 64/728 (8%) Query: 10 CPHDCPDTCALLVTVKDGVATEVRGDPEHPPTAGVLCTKVSRYAERTYHQDRLLHPMRRV 69 CP+ C C + ++KD ++GD +HP G LC K S E RLLHP R Sbjct: 19 CPY-CGVGCGVSASMKDDGRIGIQGDAQHPANFGRLCVKGSALGETVDLDGRLLHPQLR- 76 Query: 70 GKKGEGKFERISWDEAIATIAQRLGQI-ALRDPQAILPYSYAGTMGQVQGES--MAGRFF 126 +G+ ++++WD+A+ +A + I A P A+ Y GQ+ E +A + Sbjct: 77 --DAQGQLQQLAWDQALDHVASKFSAIIAEHGPDAVALY----VSGQLLTEDYYIANKLM 130 Query: 127 N-RLGASQLDRT--ICASAGGAGYRYTIGAR-IGTDLEQVDHAKLIIIWGGNPIASNLHF 182 +G++ +D +C S+ AG++ G + E ++ A L+++ G N + Sbjct: 131 KGYIGSANIDTNSRLCMSSAVAGHKRAFGEDLVPVCYEDLELADLVVLVGSNAAWCHPIL 190 Query: 183 WTRVQAAK--RNGARLIAIDPYRSLTAEKCHQHIALLPGTDAAFALGLMHVLITEDLLDH 240 + R+ K R RL+ IDP R+ T E H+ + PGTD GLM L L D+ Sbjct: 191 FQRIARLKETRPALRLVVIDPRRTATCELADLHLPIKPGTDVWLFNGLMSYLAHRGLRDN 250 Query: 241 DYIARYTLGF-EQLKERVAEWT-PARTAEVCGISAEEVQNLAREYARVALAGEG------ 292 +I +T GF E L A+ PA A +C I +++ +A G Sbjct: 251 AFIEAHTKGFDEALAVADADCADPATVARLCKIDLKDLLAFYEAFANTEKVVTGFSMGVN 310 Query: 293 ----------AFIRANYGLQRVRGGGMAARNVACLPALVGAWRHASGGIQLSVSDSFPKD 342 + I + R+ GM ++ P +G GG+ ++ D Sbjct: 311 QSSAGTDKVNSIINCHLATGRIGKPGMGPFSITGQPNAMGG--REVGGLANMLAAHMDLD 368 Query: 343 TAALSRPDLAARHGKPSRIINMSTIGDDLLKPASPDFGPQVEAVIVYNSNPVAVAPESGK 402 L R + P D+ + +++AV + +NP+ P++ Sbjct: 369 Q-PLHRQIVQDFWQSPRIADKPGLKAVDMFRAIEEG---RIKAVWIMATNPMVSLPDADL 424 Query: 403 VAQGFAREDLFTVVLEHFQTDTADYADILLPATTQLEHIDVHASYGHVYMMANNAAIAPL 462 V + + +L QTDT A +LLPA E D + + A ++ Sbjct: 425 VQRALQKCELVVSSDVITQTDTNALAHVLLPALAWGEK-DGTVTNSERRISRQRAFLSAP 483 Query: 463 GEAKPNTEIFRLLAAAMGFEEDCFK------DSDDQLAAVAFKRDDPRSAGYDWQQLKEK 516 GEA+ + I +A MGF+ F D +L+A D + Sbjct: 484 GEARGDWRIICDVARRMGFDGFDFAGPHEIFDEHARLSAHRNGEADASRVRRVFNLAGLT 543 Query: 517 GWQR--------LSVPVAPFAEGGFATPSGKCEFYSEQMKSAGLDPLPTYIAPYESVASN 568 G R + PV ++G + + E + +PT AP + + Sbjct: 544 GMDRAAYDALAPIQWPVQRLSDGSVSGTARVLEDHRFSHADGRARFVPT--APRSAAHAA 601 Query: 569 PQLGAKYPLAMISPPARNFLNSSFVNVQS--LRDTEGEPHLDMHPQDAAARGIAQGDTVR 626 + YPL + + R+ ++ +S L E +D+HPQDA G+ +G R Sbjct: 602 CE---DYPLILNTGRVRDHWHTMTRTGRSATLASHIPESFIDIHPQDALLYGVREGGLAR 658 Query: 627 IFNDRGSMQARVRVTDKARVGLVVGLSIWWKKFAADGKNANEVTSQRLTDMGNAPTFYDV 686 I + G+M ARV+ G V + I W +A V + + + P F Sbjct: 659 ISSRWGAMVARVQHGGGIARGSVF-VPIHWNGQSASDARVGAVVNPVVDPVSGEPEFKHT 717 Query: 687 LVQVEKLQ 694 V +E+ + Sbjct: 718 PVAIEEFR 725 >gi|300311015|ref|YP_003775107.1| anaerobic (selenocysteine-containing) formate dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 775 Score = 60.8 bits (146), Expect = 4e-10, Method: Compositional matrix adjust. Identities = 63/258 (24%), Positives = 106/258 (41%), Gaps = 41/258 (15%) Query: 61 RLLHPMRRVGKKGEGKFERISWDEAIATIAQRLGQIALRDPQAILPYSYAGTMGQVQGES 120 RL HPM V K+++I W +A A +A+ L AL DP + Y + Sbjct: 111 RLTHPM--VYDAATDKYKKIEWADAFALMAKHLN--ALPDPD--MADFYVSGRASNEAAF 164 Query: 121 MAGRFFNRLGASQLD--RTICASAGGAGYRYTIGARIGTDL-EQVDHAKLIIIWGGNPIA 177 + F + G + +C G T+G GT L E DH ++++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 TDAAFALGLMHVLI----------TEDLLDHDYIARYTLGFEQL--KERVAEWTPARTAE 267 D A G++ I E ++D +I +T GFE+ + R W AE Sbjct: 285 GDLALIKGVIKRTIELDDAARAAGAERVIDVKFIEEHTAGFEEFAAQARAESWDDI-VAE 343 Query: 268 VCGISAEEVQNLAREYAR 285 G+S E+++ LA+ Y + Sbjct: 344 -SGVSREDIEKLAQVYVK 360 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 0.403 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: 2,369,126 Number of extensions: 106984 Number of successful extensions: 307 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 302 Number of HSP's successfully gapped: 5 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)