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= 0001.3860.p (893 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313265|ref|YP_003777357.1| pyruvate dehydrogenase E1 compo... 1737 0.0 gi|300310785|ref|YP_003774877.1| pyruvate dehydrogenase E1 compo... 952 0.0 >gi|300313265|ref|YP_003777357.1| pyruvate dehydrogenase E1 component protein [Herbaspirillum seropedicae SmR1] Length = 893 Score = 1737 bits (4499), Expect = 0.0, Method: Compositional matrix adjust. Identities = 849/893 (95%), Positives = 866/893 (96%) Query: 1 MSRPSQSDIPRDIDIDAQETQEWLQALQSVLAEAGPERARFLLSRLSAAAQQWGVNWRDA 60 MSRPS SDI RDIDID+QETQEWLQALQSVLAEAGPERARFLLSRLSAAAQQWGVNWRDA Sbjct: 1 MSRPSDSDIARDIDIDSQETQEWLQALQSVLAEAGPERARFLLSRLSAAAQQWGVNWRDA 60 Query: 61 RNTPYLNTIRPAQEPPFPGGSDAQAIEERIASIMRWNALAMVVRANRAYGELGGHIASYA 120 RNTPY+NTIRP QEPPFPGGSDAQAIEERIASIMRWNALAMVVRANRAYGELGGHIAS+A Sbjct: 61 RNTPYVNTIRPEQEPPFPGGSDAQAIEERIASIMRWNALAMVVRANRAYGELGGHIASFA 120 Query: 121 SAADLFEVGFNHFFRARDDKFAGDVVYFQPHSAPGIYARAFLEGALSEDDLAYYRREIEA 180 SAADLFEVGFNHFFRARD++FAGDVVYFQPHSAPGIYARAFLEGALSEDDLAYYRREIEA Sbjct: 121 SAADLFEVGFNHFFRARDEQFAGDVVYFQPHSAPGIYARAFLEGALSEDDLAYYRREIEA 180 Query: 181 KRVGRQGLSSYPHPWLMPHFWQFPTGSMGIGPINAIYQARFLRYMEHRGLLQDQGRKVWG 240 KRVGRQGLSSYPHPWLMP FWQFPTGSMGIGPINAIYQARFLRYMEHRGLLQDQGRKVWG Sbjct: 181 KRVGRQGLSSYPHPWLMPQFWQFPTGSMGIGPINAIYQARFLRYMEHRGLLQDQGRKVWG 240 Query: 241 VFGDGEMDEPESLAALSLASREKLDNLIFVVNCNLQRLDGPVRGNGHIVDELETLFAGAG 300 VFGDGEMDEPESLAALSLASREKLDNLIFVVNCNLQRLDGPVRGNGHIVDELETLFAGAG Sbjct: 241 VFGDGEMDEPESLAALSLASREKLDNLIFVVNCNLQRLDGPVRGNGHIVDELETLFAGAG 300 Query: 301 WNVIKLLWGSDWDGLFARDQDGELVDALNRTVDGQLQTFAANDGAFNRQHFFGQTPGTRA 360 WNVIKLLWGSDWDGLFARD+DGELVDALNRTVDGQLQTFAANDGAFNRQHFFGQTPGTRA Sbjct: 301 WNVIKLLWGSDWDGLFARDKDGELVDALNRTVDGQLQTFAANDGAFNRQHFFGQTPGTRA 360 Query: 361 IGATLTDEEINRLRRGGHDMKKIFSAYQAAAQHRGQPTVILAQTKKGYGMGAAGEGKMTT 420 IGATLTDEEINRLRRGGHDMKKI+SAYQAAA+HRGQPTVILAQTKKGYGMGAAGEGKMTT Sbjct: 361 IGATLTDEEINRLRRGGHDMKKIYSAYQAAARHRGQPTVILAQTKKGYGMGAAGEGKMTT 420 Query: 421 HQQKKLDEESLLQFRDRFKLPLSDEQCRALAFYKPAADSAEMKHLHARRAALGGYMPRRQ 480 HQQKKLDEESLLQFRDRFKLPLSDEQCRALAFYKPA DS EMKHLHARRAAL GY+PRRQ Sbjct: 421 HQQKKLDEESLLQFRDRFKLPLSDEQCRALAFYKPADDSPEMKHLHARRAALSGYLPRRQ 480 Query: 481 GGDARRAVPPLEAHSQFALQADGKEMSSTMALVRQLGNLLKDPEFGRYVVPIVADEARTF 540 G ARRAVPPL AHS+FAL+ADGKEMSSTMALVRQLGNLLKD +FG+YVVPIVADEARTF Sbjct: 481 AGQARRAVPPLAAHSKFALEADGKEMSSTMALVRQLGNLLKDKDFGQYVVPIVADEARTF 540 Query: 541 GMANLFRQVGIYSSQGQLYEPEDIGSILYYREAKDGQILEEGITEAGAISSWTAAATAYS 600 GMANLFRQVGIYSSQGQLYEPEDIGSILYYREAKDGQILEEGITEAGAISSWTAAATAYS Sbjct: 541 GMANLFRQVGIYSSQGQLYEPEDIGSILYYREAKDGQILEEGITEAGAISSWTAAATAYS 600 Query: 601 VHGTPMLPFYIYYSMFGFQRIGDLIWAAADQRARGFLIGATSGRTTLGGEGLQHQDGNSL 660 VHGTPMLPFYIYYSMFGFQRIGDLIWAAADQRARGFLIGATSGRTTLGGEGLQHQDGNSL Sbjct: 601 VHGTPMLPFYIYYSMFGFQRIGDLIWAAADQRARGFLIGATSGRTTLGGEGLQHQDGNSL 660 Query: 661 VTAASIPNCVSYDPAYAYELAVILDEGMRRMMERGDDVFYYITVTNENEAQPSLPPGVQQ 720 VTAASIPNCVSYDPAYAYELAVILDEGMRRMMERGDDVFYYITVTNENEAQPSLP GVQ Sbjct: 661 VTAASIPNCVSYDPAYAYELAVILDEGMRRMMERGDDVFYYITVTNENEAQPSLPEGVQD 720 Query: 721 GILRGLYCLDSKPGAAVRLLGSGPILKEAAAAAALLQQHWQIPAEVWSVTSYTELARDGV 780 GILRGLYCL KP A RLLGSGPILKEA AAAALLQQHWQI AEVWSVTSYTELARDGV Sbjct: 721 GILRGLYCLARKPQAQARLLGSGPILKEAVAAAALLQQHWQIEAEVWSVTSYTELARDGV 780 Query: 781 AAQRAQRLTGSATLPYVTQQLQGSAAPVIAVSDYIRSLPESIRAFVPADYVTLGTDGFGR 840 AAQRAQRL GSA LPYVTQQLQGSA PVIAVSDYIR+LPESIRAFVPA YVTLGTDGFGR Sbjct: 781 AAQRAQRLAGSAALPYVTQQLQGSAVPVIAVSDYIRTLPESIRAFVPAPYVTLGTDGFGR 840 Query: 841 SDTRVNLRDFFEIDARWIAYTALCQVWGNDRARLEEAARVLDIDTGKPLSSTV 893 SDTRVNLRDFFEIDARWIAYTALC+VWG+DRARL+EAAR L IDT KPLSSTV Sbjct: 841 SDTRVNLRDFFEIDARWIAYTALCEVWGDDRARLQEAARTLGIDTAKPLSSTV 893 >gi|300310785|ref|YP_003774877.1| pyruvate dehydrogenase E1 component protein [Herbaspirillum seropedicae SmR1] Length = 898 Score = 952 bits (2461), Expect = 0.0, Method: Compositional matrix adjust. Identities = 471/892 (52%), Positives = 622/892 (69%), Gaps = 20/892 (2%) Query: 14 DIDAQETQEWLQALQSVLAEAGPERARFLLSRLSAAAQQWGVNWRDARNTPYLNTIRPAQ 73 D D ETQEWL AL++V+ + GP+RA +L+ R+ A++ G + + NT Y+NTI Q Sbjct: 15 DPDVMETQEWLDALEAVIEKEGPDRAHYLMERMVDLARRRGAHIPFSSNTAYVNTIPADQ 74 Query: 74 EPPFPGGSDAQAIEERIASIMRWNALAMVVRANRAYGELGGHIASYASAADLFEVGFNHF 133 PG + EER+ S MRWNA+AMVV+ANR G+LGGH++S+AS A++ +GFNHF Sbjct: 75 GEHCPGNLE---YEERLRSWMRWNAMAMVVKANRVDGDLGGHLSSFASLANMLGIGFNHF 131 Query: 134 FRARDDKFAGDVVYFQPHSAPGIYARAFLEGALSEDDLAYYRREIEAKRVGRQGLSSYPH 193 + A + GD++Y Q HS+PGIYARAFLEG L+ED L ++RRE + GLSSYPH Sbjct: 132 WHAPTEDHGGDLLYIQGHSSPGIYARAFLEGRLTEDQLIHFRREADG-----HGLSSYPH 186 Query: 194 PWLMPHFWQFPTGSMGIGPINAIYQARFLRYMEHRGLLQDQGRKVWGVFGDGEMDEPESL 253 P LMP FWQFPT SMG+GP+ AIYQARFL+Y+ RG+ + RKVW GDGEMDEPES+ Sbjct: 187 PKLMPEFWQFPTVSMGLGPLMAIYQARFLKYLHARGIAKTDNRKVWAFCGDGEMDEPESM 246 Query: 254 AALSLASREKLDNLIFVVNCNLQRLDGPVRGNGHIVDELETLFAGAGWNVIKLLWGSDWD 313 A+ +A REKL+NL+ VVNCNLQRLDGPVRGNG I+ ELE+ F GAGWNV+K++WGS WD Sbjct: 247 GAIGMAGREKLNNLVIVVNCNLQRLDGPVRGNGKIIQELESDFRGAGWNVVKVIWGSGWD 306 Query: 314 GLFARDQDGELVDALNRTVDGQLQTFAANDGAFNRQHFFGQTPGTRAIGATLTDEEINRL 373 L A+D+DG L + TVDG+ Q + A DGA+ R+HFFG+ P + + ++D++I RL Sbjct: 307 ELLAKDKDGILQKVMMETVDGEYQNYKAKDGAYVRKHFFGKHPKLLEMVSKMSDDDIWRL 366 Query: 374 RRGGHDMKKIFSAYQAAAQHRGQPTVILAQTKKGYGMGAAGEGKMTTHQQKKLDEESLLQ 433 RGGHD KI++A++ A + + QPTVILA++ KGYG G AGE + T H KKLD+E++ Sbjct: 367 TRGGHDPHKIYAAFKVAQESKDQPTVILAKSIKGYGFGKAGEARNTAHNTKKLDDEAIRA 426 Query: 434 FRDRFKLPLSDEQCRALAFYKPAADSAEMKHLHARRAALGGYMP-RRQGGDARRAVPPLE 492 RDRF+LP+SD + F+KP+ D+ EM++LH RR ALGGY+P RR D + VP L Sbjct: 427 MRDRFQLPISDADLPNIPFFKPSDDAPEMQYLHERRKALGGYLPQRRVQADEKLPVPELS 486 Query: 493 A-HSQFALQADGKEMSSTMALVRQLGNLLKDPEFGRYVVPIVADEARTFGMANLFRQVGI 551 A + A+G+E+S+T A R L LL+DP G VVPI+ DE+RTFGM LFRQ+GI Sbjct: 487 AFQAMLEPTAEGREISTTAAYSRVLTALLRDPNLGPRVVPIMVDESRTFGMEGLFRQIGI 546 Query: 552 YSSQGQLYEPEDIGSILYYREAKDGQILEEGITEAGAISSWTAAATAYSVHGTPMLPFYI 611 +S GQLYEP D ++YYRE K GQIL+EGI EAG +SSW AAAT+YS + M+PFY Sbjct: 547 FSQVGQLYEPVDKDQVMYYREDKAGQILQEGINEAGGMSSWIAAATSYSTNNRVMIPFYT 606 Query: 612 YYSMFGFQRIGDLIWAAADQRARGFLIGATSGRTTLGGEGLQHQDGNSLVTAASIPNCVS 671 YYSMFG QRIGDL WAA D RARGFLIG T+GRTTL GEGLQH+DG+S V A++IPNC+ Sbjct: 607 YYSMFGLQRIGDLAWAAGDMRARGFLIGGTAGRTTLNGEGLQHEDGHSHVFASAIPNCIP 666 Query: 672 YDPAYAYELAVILDEGMRRMMERGDDVFYYITVTNENEAQPSLPPGVQQGILRGLYCLD- 730 YDP +A+E+AVI+ +G+RRM+ +DVFYYITV NEN P + PG ++GI++GLY L+ Sbjct: 667 YDPTFAHEVAVIIHDGLRRMVANQEDVFYYITVMNENYGHPGIKPGQEEGIIKGLYLLNE 726 Query: 731 --SKPGAAVRLLGSGPILKEAAAAAALLQQHWQIPAEVWSVTSYTELARDGVAAQRAQRL 788 + V+LLGSG IL+E AAA LL+ W++ A+VWS S+T LARDG +R L Sbjct: 727 GGKQNKLRVQLLGSGTILREVIAAADLLRDDWKVDADVWSAPSFTLLARDGQDVERWNML 786 Query: 789 --TGSATLPYVTQQLQGSAAPVIAVSDYIRSLPESIRAFVPA--DYVTLGTDGFGRSDTR 844 + Y Q L+GS P++ +DY+R+ E +RAFVP Y LGTDG+GRSDTR Sbjct: 787 HPAEAPKKSYFEQSLEGSEGPIVVSTDYMRTYAEQVRAFVPKGRSYKVLGTDGYGRSDTR 846 Query: 845 VNLRDFFEIDARWIAYTALCQVWGNDRARLEEAARVL---DIDTGKPLSSTV 893 LR+FFE++ ++ AL + + + E A+ + ID KP T+ Sbjct: 847 AKLREFFEVNRYFVTVAALKSLADEGKIKPEVVAQAIAKYGIDPNKPNPVTL 898 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 0.135 0.408 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: 3,002,537 Number of extensions: 134780 Number of successful extensions: 421 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 414 Number of HSP's successfully gapped: 2 Length of query: 893 Length of database: 1,619,870 Length adjustment: 94 Effective length of query: 799 Effective length of database: 1,174,780 Effective search space: 938649220 Effective search space used: 938649220 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)