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= 0001.2414.p (696 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310121|ref|YP_003774213.1| type III secretion HrcV transme... 1165 0.0 gi|300311342|ref|YP_003775434.1| flagellar biosynthesis FlhA tra... 291 2e-79 >gi|300310121|ref|YP_003774213.1| type III secretion HrcV transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 1165 bits (3013), Expect = 0.0, Method: Compositional matrix adjust. Identities = 584/696 (83%), Positives = 639/696 (91%), Gaps = 1/696 (0%) Query: 1 MQGIGILMALNKFAAKLAQRAELIVAAFVIGIVFMLVLPMPVWLLDMLIALSLCISGLIV 60 M+ +GI+M LNKFA +L +RAEL+ AA VIGIVFMLVLPMP+WLLD+LIA+SLC SGLIV Sbjct: 1 MKAMGIVMLLNKFAIQLGKRAELLAAALVIGIVFMLVLPMPIWLLDILIAMSLCASGLIV 60 Query: 61 IVAMYMPGPTAFSTFPAVLLLTTLFRLAISVSTTRLILLEGDAGHIVETFGNFVVGGNLV 120 +VAMYM GPTAFSTFPAVLLLTTLFRLAISVSTTRLILLE DAGHIVETFGNFVVGGNLV Sbjct: 61 VVAMYMAGPTAFSTFPAVLLLTTLFRLAISVSTTRLILLEADAGHIVETFGNFVVGGNLV 120 Query: 121 VGLVIFLILTVVQFIVITKGSERVSEVSARFSLDAMPGKQMSIDSDLRAGILTAEEAKEK 180 VGLVIFLILTVVQFIVITKGSERVSEVSARFSLDAMPGKQMSIDSDLRAGILT EEAK K Sbjct: 121 VGLVIFLILTVVQFIVITKGSERVSEVSARFSLDAMPGKQMSIDSDLRAGILTPEEAKAK 180 Query: 181 RAKLGQESQLHGAMDGAMKFVKGDAIAGICIVAINLIGGISIGIIQRNLDAAESMRVYSI 240 RA LGQESQLHGAMDGAMKFVKGDAIAGICIVAINLIGGISIGIIQR +DA ++M+VYSI Sbjct: 181 RAHLGQESQLHGAMDGAMKFVKGDAIAGICIVAINLIGGISIGIIQRGMDAGQAMQVYSI 240 Query: 241 LSIGDALIAQIPALLISLGAGVITTRVSKDEEPGQSTNIGRDLVGELFAEPRALLTAAAI 300 LSIGDALIAQIPALLISLGAG+ITTRVS D E G+ TNIGRD+VGELF EP+ALLTAA I Sbjct: 241 LSIGDALIAQIPALLISLGAGIITTRVSDDNEEGE-TNIGRDIVGELFGEPKALLTAAGI 299 Query: 301 MLLFAAIPGMPSMVFIILALGLFVAGMVGVLKPLVDAQSKLEAEEIERANAGIVDLTNFS 360 MLLF IPGMP+++F+ LA+GL VAG+VG+LKPL DA+ E+EE+ER NAGIVDLT+F+ Sbjct: 300 MLLFGLIPGMPTVIFVALAVGLCVAGVVGMLKPLADAEMARESEELERKNAGIVDLTSFA 359 Query: 361 ATTPFTLRMPEVMRNTPEAEIIRSAVRIMRNGLLERRGIPDLKPIEFEFHGAVPEGRVQF 420 ATTPF LRM E MR EAE+IR+AVRIMRN +LERRGIPDLKPI+FEF VPEGRV F Sbjct: 360 ATTPFILRMNESMRGKAEAEVIRTAVRIMRNAMLERRGIPDLKPIDFEFSSMVPEGRVFF 419 Query: 421 LMAEVPLIDEPIMLGWGATRENLERVTELGFEAHERNIAGSRRRRVWLRLEDEEKLSQTG 480 +M+EVPL+D IMLGW ATRE+LERV ELGF+ ERNI GSRRRRVW++ ED EKL++ G Sbjct: 420 MMSEVPLVDAEIMLGWSATRESLERVQELGFQGFERNIPGSRRRRVWVKTEDPEKLAEAG 479 Query: 481 VPVQRWEHVFSADIEVEMLRNCQMFVGVNEVIRFTRWAERRYPELGKEVIKSVTLPRLTE 540 + + WE VF++DIEVEMLRNCQMFVGVNEVIRFTRWAERRYPELGKEV+K+VTLPRLTE Sbjct: 480 LLAESWEKVFASDIEVEMLRNCQMFVGVNEVIRFTRWAERRYPELGKEVVKTVTLPRLTE 539 Query: 541 VVQRLTREGVALRNARLLLETTLDWAPKERDPDVIADYVRLAFKRQLCFEVAREGLIEVI 600 VVQRLTREGV+LRNARLLLETTLDWAPKERDPDVIADYVRLAFKRQLCFE +REGLIEVI Sbjct: 540 VVQRLTREGVSLRNARLLLETTLDWAPKERDPDVIADYVRLAFKRQLCFEASREGLIEVI 599 Query: 601 LLSPELEDKLRNAMRQTSQGSYLDIDSELEQMFLDRLNELSSNVSTPITPPVLVTAADIR 660 LLSPELED+LRNAMRQTSQGSYLDIDSELEQM LDRLNELS+NVSTPI PPVLVTAADIR Sbjct: 600 LLSPELEDQLRNAMRQTSQGSYLDIDSELEQMILDRLNELSTNVSTPIVPPVLVTAADIR 659 Query: 661 RSVRKLIEEEFFPVPVFAFSELTQHSKVKPVGMIEI 696 RSVRKLIEEEFFPVPVFAFSELTQH+KVKPVGMIE+ Sbjct: 660 RSVRKLIEEEFFPVPVFAFSELTQHAKVKPVGMIEV 695 >gi|300311342|ref|YP_003775434.1| flagellar biosynthesis FlhA transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 705 Score = 291 bits (744), Expect = 2e-79, Method: Compositional matrix adjust. Identities = 132/296 (44%), Positives = 219/296 (73%), Gaps = 11/296 (3%) Query: 28 FVIGIVFMLVLPMPVWLLDMLIALSLCISGLIVIVAMYMPGPTAFSTFPAVLLLTTLFRL 87 ++ ++ M+VLP+P ++LD+L + ++ +S ++++ A+Y P F FPAVLL++T+ RL Sbjct: 27 LIVMMLAMMVLPLPAFMLDLLFSFNISLSVIVLMTALYTVKPLDFIAFPAVLLVSTMLRL 86 Query: 88 AISVSTTRLILLEGD-----AGHIVETFGNFVVGGNLVVGLVIFLILTVVQFIVITKGSE 142 +++V++TR++L EG AG ++E FG+F++GGN VG+V+F+ILT++ F+V+TKG+ Sbjct: 87 SLNVASTRVVLTEGHTGPDAAGKVIEAFGHFLIGGNYTVGIVVFVILTIINFMVVTKGAG 146 Query: 143 RVSEVSARFSLDAMPGKQMSIDSDLRAGILTAEEAKEKRAKLGQESQLHGAMDGAMKFVK 202 R++EV ARF+LDAMPGKQM+ID+DL AG++ EA+ +R ++ QES+ +GAMDGA K+V+ Sbjct: 147 RIAEVGARFTLDAMPGKQMAIDADLNAGLIGEPEARARRKEVAQESEFYGAMDGASKYVR 206 Query: 203 GDAIAGICIVAINLIGGISIGIIQRNLDAAESMRVYSILSIGDALIAQIPALLISLGAGV 262 GDA+AGI + +N++GG+ +G++Q +L +++ Y++L+IGD L+AQIP+L+IS AGV Sbjct: 207 GDAVAGIIVTVVNIVGGLVVGMVQHDLAFDAALKNYTLLAIGDGLVAQIPSLIISTAAGV 266 Query: 263 ITTRVSKDEEPGQSTNIGRDLVGELFAEPRALLTAAAIMLLFAAIPGMPSMVFIIL 318 + +RV+ D++ +G L+ +LFA+P L A I+ IPGMP + FI+L Sbjct: 267 VVSRVANDQD------VGGQLINQLFAKPEVLYITAVIIGGMGLIPGMPHIAFILL 316 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 0.323 0.139 0.393 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: 1,886,771 Number of extensions: 75132 Number of successful extensions: 284 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 280 Number of HSP's successfully gapped: 2 Length of query: 696 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 604 Effective length of database: 1,184,250 Effective search space: 715287000 Effective search space used: 715287000 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 134 (56.2 bits)