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= 0016.0038.p (705 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311342|ref|YP_003775434.1| flagellar biosynthesis FlhA tra... 1406 0.0 gi|300310121|ref|YP_003774213.1| type III secretion HrcV transme... 276 6e-75 >gi|300311342|ref|YP_003775434.1| flagellar biosynthesis FlhA transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 705 Score = 1406 bits (3640), Expect = 0.0, Method: Compositional matrix adjust. Identities = 705/705 (100%), Positives = 705/705 (100%) Query: 1 MATKLNTMKIPAWVPVKNARAMAAPILIVMMLAMMVLPLPAFMLDLLFSFNISLSVIVLM 60 MATKLNTMKIPAWVPVKNARAMAAPILIVMMLAMMVLPLPAFMLDLLFSFNISLSVIVLM Sbjct: 1 MATKLNTMKIPAWVPVKNARAMAAPILIVMMLAMMVLPLPAFMLDLLFSFNISLSVIVLM 60 Query: 61 TALYTVKPLDFIAFPAVLLVSTMLRLSLNVASTRVVLTEGHTGPDAAGKVIEAFGHFLIG 120 TALYTVKPLDFIAFPAVLLVSTMLRLSLNVASTRVVLTEGHTGPDAAGKVIEAFGHFLIG Sbjct: 61 TALYTVKPLDFIAFPAVLLVSTMLRLSLNVASTRVVLTEGHTGPDAAGKVIEAFGHFLIG 120 Query: 121 GNYTVGIVVFVILTIINFMVVTKGAGRIAEVGARFTLDAMPGKQMAIDADLNAGLIGEPE 180 GNYTVGIVVFVILTIINFMVVTKGAGRIAEVGARFTLDAMPGKQMAIDADLNAGLIGEPE Sbjct: 121 GNYTVGIVVFVILTIINFMVVTKGAGRIAEVGARFTLDAMPGKQMAIDADLNAGLIGEPE 180 Query: 181 ARARRKEVAQESEFYGAMDGASKYVRGDAVAGIIVTVVNIVGGLVVGMVQHDLAFDAALK 240 ARARRKEVAQESEFYGAMDGASKYVRGDAVAGIIVTVVNIVGGLVVGMVQHDLAFDAALK Sbjct: 181 ARARRKEVAQESEFYGAMDGASKYVRGDAVAGIIVTVVNIVGGLVVGMVQHDLAFDAALK 240 Query: 241 NYTLLAIGDGLVAQIPSLIISTAAGVVVSRVANDQDVGGQLINQLFAKPEVLYITAVIIG 300 NYTLLAIGDGLVAQIPSLIISTAAGVVVSRVANDQDVGGQLINQLFAKPEVLYITAVIIG Sbjct: 241 NYTLLAIGDGLVAQIPSLIISTAAGVVVSRVANDQDVGGQLINQLFAKPEVLYITAVIIG 300 Query: 301 GMGLIPGMPHIAFILLAAAMGGGAYAISKRVEKAKTEAAASQAQAAAGGGAAAAPQESEE 360 GMGLIPGMPHIAFILLAAAMGGGAYAISKRVEKAKTEAAASQAQAAAGGGAAAAPQESEE Sbjct: 301 GMGLIPGMPHIAFILLAAAMGGGAYAISKRVEKAKTEAAASQAQAAAGGGAAAAPQESEE 360 Query: 361 ATWNDVMPVDTLGLEVGYRLIPLVDKGQGGELLKRIKGIRKKFAQEVGFLSPPIHIRDNL 420 ATWNDVMPVDTLGLEVGYRLIPLVDKGQGGELLKRIKGIRKKFAQEVGFLSPPIHIRDNL Sbjct: 361 ATWNDVMPVDTLGLEVGYRLIPLVDKGQGGELLKRIKGIRKKFAQEVGFLSPPIHIRDNL 420 Query: 421 ELKPSAYRITLKGVEVGNGEAHAGQYLAINPGMVTGPLPGMMTTDPAFGLPAVWIDNGLR 480 ELKPSAYRITLKGVEVGNGEAHAGQYLAINPGMVTGPLPGMMTTDPAFGLPAVWIDNGLR Sbjct: 421 ELKPSAYRITLKGVEVGNGEAHAGQYLAINPGMVTGPLPGMMTTDPAFGLPAVWIDNGLR 480 Query: 481 EQASTMGYTVVDAGTVVATHLNHLITTHAAELLGRQEVQSLLDHLAKDAPKLVEDLVPKM 540 EQASTMGYTVVDAGTVVATHLNHLITTHAAELLGRQEVQSLLDHLAKDAPKLVEDLVPKM Sbjct: 481 EQASTMGYTVVDAGTVVATHLNHLITTHAAELLGRQEVQSLLDHLAKDAPKLVEDLVPKM 540 Query: 541 LPLGSLQKVLQNLLIEGVHIRDMRTIIETLAEHAARIQDPTDLTAIVRIALGRAIVQQMF 600 LPLGSLQKVLQNLLIEGVHIRDMRTIIETLAEHAARIQDPTDLTAIVRIALGRAIVQQMF Sbjct: 541 LPLGSLQKVLQNLLIEGVHIRDMRTIIETLAEHAARIQDPTDLTAIVRIALGRAIVQQMF 600 Query: 601 PGESELPVMALDSKLERLLMQALQASGESGGIEPGLADSLVQHTEIAAQRQEQMGYSPVL 660 PGESELPVMALDSKLERLLMQALQASGESGGIEPGLADSLVQHTEIAAQRQEQMGYSPVL Sbjct: 601 PGESELPVMALDSKLERLLMQALQASGESGGIEPGLADSLVQHTEIAAQRQEQMGYSPVL 660 Query: 661 LVGAPLRTLLARFLRRAMPQLRVLSHAEVPESKTIKVTSLVGGQA 705 LVGAPLRTLLARFLRRAMPQLRVLSHAEVPESKTIKVTSLVGGQA Sbjct: 661 LVGAPLRTLLARFLRRAMPQLRVLSHAEVPESKTIKVTSLVGGQA 705 >gi|300310121|ref|YP_003774213.1| type III secretion HrcV transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 276 bits (705), Expect = 6e-75, Method: Compositional matrix adjust. Identities = 136/309 (44%), Positives = 225/309 (72%), Gaps = 11/309 (3%) Query: 17 KNARAMAAPILIVMMLAMMVLPLPAFMLDLLFSFNISLSVIVLMTALYTVKPLDFIAFPA 76 K A +AA L++ ++ M+VLP+P ++LD+L + ++ S ++++ A+Y P F FPA Sbjct: 19 KRAELLAAA-LVIGIVFMLVLPMPIWLLDILIAMSLCASGLIVVVAMYMAGPTAFSTFPA 77 Query: 77 VLLVSTMLRLSLNVASTRVVLTEGHTGPDAAGKVIEAFGHFLIGGNYTVGIVVFVILTII 136 VLL++T+ RL+++V++TR++L E AG ++E FG+F++GGN VG+V+F+ILT++ Sbjct: 78 VLLLTTLFRLAISVSTTRLILLEAD-----AGHIVETFGNFVVGGNLVVGLVIFLILTVV 132 Query: 137 NFMVVTKGAGRIAEVGARFTLDAMPGKQMAIDADLNAGLIGEPEARARRKEVAQESEFYG 196 F+V+TKG+ R++EV ARF+LDAMPGKQM+ID+DL AG++ EA+A+R + QES+ +G Sbjct: 133 QFIVITKGSERVSEVSARFSLDAMPGKQMSIDSDLRAGILTPEEAKAKRAHLGQESQLHG 192 Query: 197 AMDGASKYVRGDAVAGIIVTVVNIVGGLVVGMVQHDLAFDAALKNYTLLAIGDGLVAQIP 256 AMDGA K+V+GDA+AGI + +N++GG+ +G++Q + A++ Y++L+IGD L+AQIP Sbjct: 193 AMDGAMKFVKGDAIAGICIVAINLIGGISIGIIQRGMDAGQAMQVYSILSIGDALIAQIP 252 Query: 257 SLIISTAAGVVVSRVANDQD-----VGGQLINQLFAKPEVLYITAVIIGGMGLIPGMPHI 311 +L+IS AG++ +RV++D + +G ++ +LF +P+ L A I+ GLIPGMP + Sbjct: 253 ALLISLGAGIITTRVSDDNEEGETNIGRDIVGELFGEPKALLTAAGIMLLFGLIPGMPTV 312 Query: 312 AFILLAAAM 320 F+ LA + Sbjct: 313 IFVALAVGL 321 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 0.321 0.137 0.384 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: 1,818,107 Number of extensions: 72152 Number of successful extensions: 276 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 275 Number of HSP's successfully gapped: 2 Length of query: 705 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 613 Effective length of database: 1,184,250 Effective search space: 725945250 Effective search space used: 725945250 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)