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= 0001.1271.p (898 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... 1852 0.0 gi|300313265|ref|YP_003777357.1| pyruvate dehydrogenase E1 compo... 963 0.0 >gi|300310785|ref|YP_003774877.1| pyruvate dehydrogenase E1 component protein [Herbaspirillum seropedicae SmR1] Length = 898 Score = 1852 bits (4796), Expect = 0.0, Method: Compositional matrix adjust. Identities = 890/898 (99%), Positives = 896/898 (99%) Query: 1 MSAQIDQVLAQAANDPDVMETQEWLDALEAVIEKEGPDRAHYLMERMVDLARRRGAHIPF 60 MSAQIDQVLAQAANDPDVMETQEWLDALEAVIEKEGPDRAHYLMERMVDLARRRGAHIPF Sbjct: 1 MSAQIDQVLAQAANDPDVMETQEWLDALEAVIEKEGPDRAHYLMERMVDLARRRGAHIPF 60 Query: 61 SSNTAYVNTIPADQGEHCPGNLEYEERLRSWMRWNAMAMVVKANRVDGDLGGHLSSFASL 120 SSNTAYVNTIPADQGEHCPGNLEYEERLRSWMRWNAMAMVVKANRVDGDLGGHLSSFASL Sbjct: 61 SSNTAYVNTIPADQGEHCPGNLEYEERLRSWMRWNAMAMVVKANRVDGDLGGHLSSFASL 120 Query: 121 ANMLGIGFNHFWHAPTEDHGGDLLYIQGHSSPGIYARAFLEGRLTEDQLIHFRREADGHG 180 ANMLGIGFNHFWHAPTEDHGGDLLYIQGHSSPGIYARAFLEGRLTEDQLIHFRREADGHG Sbjct: 121 ANMLGIGFNHFWHAPTEDHGGDLLYIQGHSSPGIYARAFLEGRLTEDQLIHFRREADGHG 180 Query: 181 LSSYPHPKLMPEFWQFPTVSMGLGPLMAIYQARFLKYLHARGIAKTDNRKVWAFCGDGEM 240 LSSYPHPKLMPEFWQFPTVSMGLGPLMAIYQARFLKYLHARGIAKTDNRKVWAFCGDGEM Sbjct: 181 LSSYPHPKLMPEFWQFPTVSMGLGPLMAIYQARFLKYLHARGIAKTDNRKVWAFCGDGEM 240 Query: 241 DEPESMGAIGMAGREKLNNLVIVVNCNLQRLDGPVRGNGKIIQELESDFRGAGWNVVKVI 300 DEPESMGAIGMAGREKLNNLVIVVNCNLQRLDGPVRGNGKIIQELESDFRGAGWNVVKVI Sbjct: 241 DEPESMGAIGMAGREKLNNLVIVVNCNLQRLDGPVRGNGKIIQELESDFRGAGWNVVKVI 300 Query: 301 WGSGWDELLAKDKDGILQKVMMETVDGEYQNYKAKDGAYVRKHFFGKHPKLLGMVSKMSD 360 WGSGWDELLAKDKDGILQKVMMETVDGEYQNYKAKDGAYVRKHFFGKHPKLL MVSKMSD Sbjct: 301 WGSGWDELLAKDKDGILQKVMMETVDGEYQNYKAKDGAYVRKHFFGKHPKLLEMVSKMSD 360 Query: 361 DDIWRLTRGGHDPHKIYAAFKVAQESKDQPTVILAKSIKGYGFGKAGEARNTAHNTKKLD 420 DDIWRLTRGGHDPHKIYAAFKVAQESKDQPTVILAKSIKGYGFGKAGEARNTAHNTKKLD Sbjct: 361 DDIWRLTRGGHDPHKIYAAFKVAQESKDQPTVILAKSIKGYGFGKAGEARNTAHNTKKLD 420 Query: 421 DEAIRAMRDRFQLPISDAELPNIPFFKPADDAPEMQYLHERRKALGGYLPQRRVHADEKL 480 DEAIRAMRDRFQLPISDA+LPNIPFFKP+DDAPEMQYLHERRKALGGYLPQRRV ADEKL Sbjct: 421 DEAIRAMRDRFQLPISDADLPNIPFFKPSDDAPEMQYLHERRKALGGYLPQRRVQADEKL 480 Query: 481 PVPELSAFQAMLEPTAEGREISTTAAYSRVLTALLRDPNLGPRVVPIMVDESRTFGMEGL 540 PVPELSAFQAMLEPTAEGREISTTAAYSRVLTALLRDPNLGPRVVPIMVDESRTFGMEGL Sbjct: 481 PVPELSAFQAMLEPTAEGREISTTAAYSRVLTALLRDPNLGPRVVPIMVDESRTFGMEGL 540 Query: 541 FRQIGIFSQVGQLYEPVDKDQVMYYREDKAGQILQEGINEAGGMSSWIAAATSYSTNNRV 600 FRQIGIFSQVGQLYEPVDKDQVMYYREDKAGQILQEGINEAGGMSSWIAAATSYSTNNRV Sbjct: 541 FRQIGIFSQVGQLYEPVDKDQVMYYREDKAGQILQEGINEAGGMSSWIAAATSYSTNNRV 600 Query: 601 MIPFYTYYSMFGLQRIGDLAWAAGDMRARGFLIGGTAGRTTLNGEGLQHEDGHSHVFASA 660 MIPFYTYYSMFGLQRIGDLAWAAGDMRARGFLIGGTAGRTTLNGEGLQHEDGHSHVFASA Sbjct: 601 MIPFYTYYSMFGLQRIGDLAWAAGDMRARGFLIGGTAGRTTLNGEGLQHEDGHSHVFASA 660 Query: 661 IPNCIPYDPTFAHEVAVIIHDGLRRMVANQEDVFYYITVMNENYGHPGIKPGQEEGIVKG 720 IPNCIPYDPTFAHEVAVIIHDGLRRMVANQEDVFYYITVMNENYGHPGIKPGQEEGI+KG Sbjct: 661 IPNCIPYDPTFAHEVAVIIHDGLRRMVANQEDVFYYITVMNENYGHPGIKPGQEEGIIKG 720 Query: 721 LYLLNEGGKQNQLRVQLLGSGTILREVIAAADLLREDWKVDADVWSAPSFTLLARDGQDV 780 LYLLNEGGKQN+LRVQLLGSGTILREVIAAADLLR+DWKVDADVWSAPSFTLLARDGQDV Sbjct: 721 LYLLNEGGKQNKLRVQLLGSGTILREVIAAADLLRDDWKVDADVWSAPSFTLLARDGQDV 780 Query: 781 ERWNMLHPAEAPKKSYFEQSLEGSEGPIVVSTDYMRTYAEQVRAFVPKGRSYKVLGTDGF 840 ERWNMLHPAEAPKKSYFEQSLEGSEGPIVVSTDYMRTYAEQVRAFVPKGRSYKVLGTDG+ Sbjct: 781 ERWNMLHPAEAPKKSYFEQSLEGSEGPIVVSTDYMRTYAEQVRAFVPKGRSYKVLGTDGY 840 Query: 841 GRSDTRAKLREFFEVNRYFVTVAALKSLADEGKIKPEVVAQAIAKYGIDPNKPNPVTL 898 GRSDTRAKLREFFEVNRYFVTVAALKSLADEGKIKPEVVAQAIAKYGIDPNKPNPVTL Sbjct: 841 GRSDTRAKLREFFEVNRYFVTVAALKSLADEGKIKPEVVAQAIAKYGIDPNKPNPVTL 898 >gi|300313265|ref|YP_003777357.1| pyruvate dehydrogenase E1 component protein [Herbaspirillum seropedicae SmR1] Length = 893 Score = 963 bits (2489), Expect = 0.0, Method: Compositional matrix adjust. Identities = 479/892 (53%), Positives = 631/892 (70%), Gaps = 20/892 (2%) Query: 15 DPDVMETQEWLDALEAVIEKEGPDRAHYLMERMVDLARRRGAHIPFSSNTAYVNTIPADQ 74 D D ETQEWL AL++V+ + GP+RA +L+ R+ A++ G + + NT YVNTI +Q Sbjct: 14 DIDSQETQEWLQALQSVLAEAGPERARFLLSRLSAAAQQWGVNWRDARNTPYVNTIRPEQ 73 Query: 75 GEHCPGNLE---YEERLRSWMRWNAMAMVVKANRVDGDLGGHLSSFASLANMLGIGFNHF 131 PG + EER+ S MRWNA+AMVV+ANR G+LGGH++SFAS A++ +GFNHF Sbjct: 74 EPPFPGGSDAQAIEERIASIMRWNALAMVVRANRAYGELGGHIASFASAADLFEVGFNHF 133 Query: 132 WHAPTEDHGGDLLYIQGHSSPGIYARAFLEGRLTEDQLIHFRREADG-----HGLSSYPH 186 + A E GD++Y Q HS+PGIYARAFLEG L+ED L ++RRE + GLSSYPH Sbjct: 134 FRARDEQFAGDVVYFQPHSAPGIYARAFLEGALSEDDLAYYRREIEAKRVGRQGLSSYPH 193 Query: 187 PKLMPEFWQFPTVSMGLGPLMAIYQARFLKYLHARGIAKTDNRKVWAFCGDGEMDEPESM 246 P LMP+FWQFPT SMG+GP+ AIYQARFL+Y+ RG+ + RKVW GDGEMDEPES+ Sbjct: 194 PWLMPQFWQFPTGSMGIGPINAIYQARFLRYMEHRGLLQDQGRKVWGVFGDGEMDEPESL 253 Query: 247 GAIGMAGREKLNNLVIVVNCNLQRLDGPVRGNGKIIQELESDFRGAGWNVVKVIWGSGWD 306 A+ +A REKL+NL+ VVNCNLQRLDGPVRGNG I+ ELE+ F GAGWNV+K++WGS WD Sbjct: 254 AALSLASREKLDNLIFVVNCNLQRLDGPVRGNGHIVDELETLFAGAGWNVIKLLWGSDWD 313 Query: 307 ELLAKDKDGILQKVMMETVDGEYQNYKAKDGAYVRKHFFGKHPKLLGMVSKMSDDDIWRL 366 L A+DKDG L + TVDG+ Q + A DGA+ R+HFFG+ P + + ++D++I RL Sbjct: 314 GLFARDKDGELVDALNRTVDGQLQTFAANDGAFNRQHFFGQTPGTRAIGATLTDEEINRL 373 Query: 367 TRGGHDPHKIYAAFKVAQESKDQPTVILAKSIKGYGFGKAGEARNTAHNTKKLDDEAIRA 426 RGGHD KIY+A++ A + QPTVILA++ KGYG G AGE + T H KKLD+E++ Sbjct: 374 RRGGHDMKKIYSAYQAAARHRGQPTVILAQTKKGYGMGAAGEGKMTTHQQKKLDEESLLQ 433 Query: 427 MRDRFQLPISDAELPNIPFFKPADDAPEMQYLHERRKALGGYLPQRRVHADEKLPVPELS 486 RDRF+LP+SD + + F+KPADD+PEM++LH RR AL GYLP RR + VP L+ Sbjct: 434 FRDRFKLPLSDEQCRALAFYKPADDSPEMKHLHARRAALSGYLP-RRQAGQARRAVPPLA 492 Query: 487 AFQAMLEPTAEGREISTTAAYSRVLTALLRDPNLGPRVVPIMVDESRTFGMEGLFRQIGI 546 A + A+G+E+S+T A R L LL+D + G VVPI+ DE+RTFGM LFRQ+GI Sbjct: 493 A-HSKFALEADGKEMSSTMALVRQLGNLLKDKDFGQYVVPIVADEARTFGMANLFRQVGI 551 Query: 547 FSQVGQLYEPVDKDQVMYYREDKAGQILQEGINEAGGMSSWIAAATSYSTNNRVMIPFYT 606 +S GQLYEP D ++YYRE K GQIL+EGI EAG +SSW AAAT+YS + M+PFY Sbjct: 552 YSSQGQLYEPEDIGSILYYREAKDGQILEEGITEAGAISSWTAAATAYSVHGTPMLPFYI 611 Query: 607 YYSMFGLQRIGDLAWAAGDMRARGFLIGGTAGRTTLNGEGLQHEDGHSHVFASAIPNCIP 666 YYSMFG QRIGDL WAA D RARGFLIG T+GRTTL GEGLQH+DG+S V A++IPNC+ Sbjct: 612 YYSMFGFQRIGDLIWAAADQRARGFLIGATSGRTTLGGEGLQHQDGNSLVTAASIPNCVS 671 Query: 667 YDPTFAHEVAVIIHDGLRRMVANQEDVFYYITVMNENYGHPGIKPGQEEGIVKGLYLLNE 726 YDP +A+E+AVI+ +G+RRM+ +DVFYYITV NEN P + G ++GI++GLY L Sbjct: 672 YDPAYAYELAVILDEGMRRMMERGDDVFYYITVTNENEAQPSLPEGVQDGILRGLYCL-- 729 Query: 727 GGKQNQLRVQLLGSGTILREVIAAADLLREDWKVDADVWSAPSFTLLARDGQDVERWNML 786 ++ Q + +LLGSG IL+E +AAA LL++ W+++A+VWS S+T LARDG +R L Sbjct: 730 -ARKPQAQARLLGSGPILKEAVAAAALLQQHWQIEAEVWSVTSYTELARDGVAAQRAQRL 788 Query: 787 HPAEAPKKSYFEQSLEGSEGPIVVSTDYMRTYAEQVRAFVPKGRSYKVLGTDGFGRSDTR 846 A + Y Q L+GS P++ +DY+RT E +RAFVP Y LGTDGFGRSDTR Sbjct: 789 --AGSAALPYVTQQLQGSAVPVIAVSDYIRTLPESIRAFVPA--PYVTLGTDGFGRSDTR 844 Query: 847 AKLREFFEVNRYFVTVAALKSLADEGKIKPEVVAQAIAKYGIDPNKPNPVTL 898 LR+FFE++ ++ AL + + + + + A+ + GID KP T+ Sbjct: 845 VNLRDFFEIDARWIAYTALCEVWGDDRARLQEAARTL---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 0.319 0.137 0.414 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: 3,054,850 Number of extensions: 138186 Number of successful extensions: 349 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 342 Number of HSP's successfully gapped: 2 Length of query: 898 Length of database: 1,619,870 Length adjustment: 94 Effective length of query: 804 Effective length of database: 1,174,780 Effective search space: 944523120 Effective search space used: 944523120 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 (21.7 bits) S2: 135 (56.6 bits)