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= 0034.0100.p (653 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310785|ref|YP_003774877.1| pyruvate dehydrogenase E1 compo... 1338 0.0 gi|300313265|ref|YP_003777357.1| pyruvate dehydrogenase E1 compo... 695 0.0 >gi|300310785|ref|YP_003774877.1| pyruvate dehydrogenase E1 component protein [Herbaspirillum seropedicae SmR1] Length = 898 Score = 1338 bits (3462), Expect = 0.0, Method: Compositional matrix adjust. Identities = 647/653 (99%), Positives = 651/653 (99%) Query: 1 MGAIGMAGREKLNNLVIVVNCNLQRLDGPVRGNGKIIQELESDFRGAGWNVVKVIWGSGW 60 MGAIGMAGREKLNNLVIVVNCNLQRLDGPVRGNGKIIQELESDFRGAGWNVVKVIWGSGW Sbjct: 246 MGAIGMAGREKLNNLVIVVNCNLQRLDGPVRGNGKIIQELESDFRGAGWNVVKVIWGSGW 305 Query: 61 DELLAKDKDGILQKVMMETVDGEYQNYKAKDGAFVRKHFFGKHPKLLEMVSKMSDDDIWR 120 DELLAKDKDGILQKVMMETVDGEYQNYKAKDGA+VRKHFFGKHPKLLEMVSKMSDDDIWR Sbjct: 306 DELLAKDKDGILQKVMMETVDGEYQNYKAKDGAYVRKHFFGKHPKLLEMVSKMSDDDIWR 365 Query: 121 LTRGGHDPHKIYAAFKVAQESKDQPTVILAKSIKGYGFGKAGEARNTAHNTKKLDDEAIR 180 LTRGGHDPHKIYAAFKVAQESKDQPTVILAKSIKGYGFGKAGEARNTAHNTKKLDDEAIR Sbjct: 366 LTRGGHDPHKIYAAFKVAQESKDQPTVILAKSIKGYGFGKAGEARNTAHNTKKLDDEAIR 425 Query: 181 AMRDRFQLPISDAELPNIPFFKPSDDAPEMQYLHERRKALGGYLPQRRVHADEKLPVPEL 240 AMRDRFQLPISDA+LPNIPFFKPSDDAPEMQYLHERRKALGGYLPQRRV ADEKLPVPEL Sbjct: 426 AMRDRFQLPISDADLPNIPFFKPSDDAPEMQYLHERRKALGGYLPQRRVQADEKLPVPEL 485 Query: 241 SAFQAMLEPTAEGREISTTAAYSRVLTALLRDPNLGQRVVPIMVDESRTFGMEGLFRQIG 300 SAFQAMLEPTAEGREISTTAAYSRVLTALLRDPNLG RVVPIMVDESRTFGMEGLFRQIG Sbjct: 486 SAFQAMLEPTAEGREISTTAAYSRVLTALLRDPNLGPRVVPIMVDESRTFGMEGLFRQIG 545 Query: 301 IFSQVGQLYEPVDKDQVMYYREDKAGQILQEGINEAGGMSSWIAAATSYSTNNRVMIPFY 360 IFSQVGQLYEPVDKDQVMYYREDKAGQILQEGINEAGGMSSWIAAATSYSTNNRVMIPFY Sbjct: 546 IFSQVGQLYEPVDKDQVMYYREDKAGQILQEGINEAGGMSSWIAAATSYSTNNRVMIPFY 605 Query: 361 TYYSMFGLQRIGDLAWAAGDMRARGFLIGGTAGRTTLNGEGLQHEDGHSHVFASAIPNCI 420 TYYSMFGLQRIGDLAWAAGDMRARGFLIGGTAGRTTLNGEGLQHEDGHSHVFASAIPNCI Sbjct: 606 TYYSMFGLQRIGDLAWAAGDMRARGFLIGGTAGRTTLNGEGLQHEDGHSHVFASAIPNCI 665 Query: 421 PYDPTFAHEVAVIIHDGLRRMVANQEDVFYYITVMNENYGHPGIKPGQEEGIVKGLYLLN 480 PYDPTFAHEVAVIIHDGLRRMVANQEDVFYYITVMNENYGHPGIKPGQEEGI+KGLYLLN Sbjct: 666 PYDPTFAHEVAVIIHDGLRRMVANQEDVFYYITVMNENYGHPGIKPGQEEGIIKGLYLLN 725 Query: 481 EGGKENKLRVQLLGSGTILREVIAAADLLRDDWKVDADVWSAPSFTLLARDGQDVERWNM 540 EGGK+NKLRVQLLGSGTILREVIAAADLLRDDWKVDADVWSAPSFTLLARDGQDVERWNM Sbjct: 726 EGGKQNKLRVQLLGSGTILREVIAAADLLRDDWKVDADVWSAPSFTLLARDGQDVERWNM 785 Query: 541 LHPAEAPKKSYFEQSLEGSEGPIVVSTDYMRTYAEQVRAFVPKGRSYKVLGTDGYGRSDT 600 LHPAEAPKKSYFEQSLEGSEGPIVVSTDYMRTYAEQVRAFVPKGRSYKVLGTDGYGRSDT Sbjct: 786 LHPAEAPKKSYFEQSLEGSEGPIVVSTDYMRTYAEQVRAFVPKGRSYKVLGTDGYGRSDT 845 Query: 601 RAKLREFFEVNRYFVTVAALKSLADEGKIKPEVVAQAIAKYGIDPNKPNPVTL 653 RAKLREFFEVNRYFVTVAALKSLADEGKIKPEVVAQAIAKYGIDPNKPNPVTL Sbjct: 846 RAKLREFFEVNRYFVTVAALKSLADEGKIKPEVVAQAIAKYGIDPNKPNPVTL 898 >gi|300313265|ref|YP_003777357.1| pyruvate dehydrogenase E1 component protein [Herbaspirillum seropedicae SmR1] Length = 893 Score = 695 bits (1793), Expect = 0.0, Method: Compositional matrix adjust. Identities = 345/653 (52%), Positives = 460/653 (70%), Gaps = 12/653 (1%) Query: 1 MGAIGMAGREKLNNLVIVVNCNLQRLDGPVRGNGKIIQELESDFRGAGWNVVKVIWGSGW 60 + A+ +A REKL+NL+ VVNCNLQRLDGPVRGNG I+ ELE+ F GAGWNV+K++WGS W Sbjct: 253 LAALSLASREKLDNLIFVVNCNLQRLDGPVRGNGHIVDELETLFAGAGWNVIKLLWGSDW 312 Query: 61 DELLAKDKDGILQKVMMETVDGEYQNYKAKDGAFVRKHFFGKHPKLLEMVSKMSDDDIWR 120 D L A+DKDG L + TVDG+ Q + A DGAF R+HFFG+ P + + ++D++I R Sbjct: 313 DGLFARDKDGELVDALNRTVDGQLQTFAANDGAFNRQHFFGQTPGTRAIGATLTDEEINR 372 Query: 121 LTRGGHDPHKIYAAFKVAQESKDQPTVILAKSIKGYGFGKAGEARNTAHNTKKLDDEAIR 180 L RGGHD KIY+A++ A + QPTVILA++ KGYG G AGE + T H KKLD+E++ Sbjct: 373 LRRGGHDMKKIYSAYQAAARHRGQPTVILAQTKKGYGMGAAGEGKMTTHQQKKLDEESLL 432 Query: 181 AMRDRFQLPISDAELPNIPFFKPSDDAPEMQYLHERRKALGGYLPQRRVHADEKLPVPEL 240 RDRF+LP+SD + + F+KP+DD+PEM++LH RR AL GYLP RR + VP L Sbjct: 433 QFRDRFKLPLSDEQCRALAFYKPADDSPEMKHLHARRAALSGYLP-RRQAGQARRAVPPL 491 Query: 241 SAFQAMLEPTAEGREISTTAAYSRVLTALLRDPNLGQRVVPIMVDESRTFGMEGLFRQIG 300 +A + A+G+E+S+T A R L LL+D + GQ VVPI+ DE+RTFGM LFRQ+G Sbjct: 492 AA-HSKFALEADGKEMSSTMALVRQLGNLLKDKDFGQYVVPIVADEARTFGMANLFRQVG 550 Query: 301 IFSQVGQLYEPVDKDQVMYYREDKAGQILQEGINEAGGMSSWIAAATSYSTNNRVMIPFY 360 I+S GQLYEP D ++YYRE K GQIL+EGI EAG +SSW AAAT+YS + M+PFY Sbjct: 551 IYSSQGQLYEPEDIGSILYYREAKDGQILEEGITEAGAISSWTAAATAYSVHGTPMLPFY 610 Query: 361 TYYSMFGLQRIGDLAWAAGDMRARGFLIGGTAGRTTLNGEGLQHEDGHSHVFASAIPNCI 420 YYSMFG QRIGDL WAA D RARGFLIG T+GRTTL GEGLQH+DG+S V A++IPNC+ Sbjct: 611 IYYSMFGFQRIGDLIWAAADQRARGFLIGATSGRTTLGGEGLQHQDGNSLVTAASIPNCV 670 Query: 421 PYDPTFAHEVAVIIHDGLRRMVANQEDVFYYITVMNENYGHPGIKPGQEEGIVKGLYLLN 480 YDP +A+E+AVI+ +G+RRM+ +DVFYYITV NEN P + G ++GI++GLY L Sbjct: 671 SYDPAYAYELAVILDEGMRRMMERGDDVFYYITVTNENEAQPSLPEGVQDGILRGLYCL- 729 Query: 481 EGGKENKLRVQLLGSGTILREVIAAADLLRDDWKVDADVWSAPSFTLLARDGQDVERWNM 540 ++ + + +LLGSG IL+E +AAA LL+ W+++A+VWS S+T LARDG +R Sbjct: 730 --ARKPQAQARLLGSGPILKEAVAAAALLQQHWQIEAEVWSVTSYTELARDGVAAQRAQR 787 Query: 541 LHPAEAPKKSYFEQSLEGSEGPIVVSTDYMRTYAEQVRAFVPKGRSYKVLGTDGYGRSDT 600 L A + Y Q L+GS P++ +DY+RT E +RAFVP Y LGTDG+GRSDT Sbjct: 788 L--AGSAALPYVTQQLQGSAVPVIAVSDYIRTLPESIRAFVPA--PYVTLGTDGFGRSDT 843 Query: 601 RAKLREFFEVNRYFVTVAALKSLADEGKIKPEVVAQAIAKYGIDPNKPNPVTL 653 R LR+FFE++ ++ AL + + + + + A+ + GID KP T+ Sbjct: 844 RVNLRDFFEIDARWIAYTALCEVWGDDRARLQEAARTL---GIDTAKPLSSTV 893 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 0.318 0.137 0.406 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: 2,180,118 Number of extensions: 97813 Number of successful extensions: 242 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 238 Number of HSP's successfully gapped: 2 Length of query: 653 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 562 Effective length of database: 1,188,985 Effective search space: 668209570 Effective search space used: 668209570 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 134 (56.2 bits)