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= 0102.0054.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|300311342|ref|YP_003775434.1| flagellar biosynthesis FlhA tra... 1187 0.0 gi|300310121|ref|YP_003774213.1| type III secretion HrcV transme... 280 4e-76 >gi|300311342|ref|YP_003775434.1| flagellar biosynthesis FlhA transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 705 Score = 1187 bits (3072), Expect = 0.0, Method: Compositional matrix adjust. Identities = 593/703 (84%), Positives = 645/703 (91%), Gaps = 9/703 (1%) Query: 2 NINSMKLPAWVPIKHTKALAAPILIVMMLAMMVLPLPAFALDILFSFNISLSVIVLLTAL 61 +N+MK+PAWVP+K+ +A+AAPILIVMMLAMMVLPLPAF LD+LFSFNISLSVIVL+TAL Sbjct: 4 KLNTMKIPAWVPVKNARAMAAPILIVMMLAMMVLPLPAFMLDLLFSFNISLSVIVLMTAL 63 Query: 62 YTVKPLDFVAFPAVLLVSTMLRLSLNVASTRVVLTEGHTGPDAAGKVIEAFGHFLIGGNY 121 YTVKPLDF+AFPAVLLVSTMLRLSLNVASTRVVLTEGHTGPDAAGKVIEAFGHFLIGGNY Sbjct: 64 YTVKPLDFIAFPAVLLVSTMLRLSLNVASTRVVLTEGHTGPDAAGKVIEAFGHFLIGGNY 123 Query: 122 TVGIVVFIILTIINFTVVTKGAGRIAEVGARFTLDAMPGKQMAIDADLNAGMIGEPEARA 181 TVGIVVF+ILTIINF VVTKGAGRIAEVGARFTLDAMPGKQMAIDADLNAG+IGEPEARA Sbjct: 124 TVGIVVFVILTIINFMVVTKGAGRIAEVGARFTLDAMPGKQMAIDADLNAGLIGEPEARA 183 Query: 182 RRKEVAQEAEFYGAMDGASKYVRGDAVAGIIVTVVNIVGGLVVGMIQHDLAFDMALKNYT 241 RRKEVAQE+EFYGAMDGASKYVRGDAVAGIIVTVVNIVGGLVVGM+QHDLAFD ALKNYT Sbjct: 184 RRKEVAQESEFYGAMDGASKYVRGDAVAGIIVTVVNIVGGLVVGMVQHDLAFDAALKNYT 243 Query: 242 LLAIGDGLVAQIPSLIISTAAGVVVSRVANDQDVGGQLINQLFAKPEVLYLTAIIIGGMG 301 LLAIGDGLVAQIPSLIISTAAGVVVSRVANDQDVGGQLINQLFAKPEVLY+TA+IIGGMG Sbjct: 244 LLAIGDGLVAQIPSLIISTAAGVVVSRVANDQDVGGQLINQLFAKPEVLYITAVIIGGMG 303 Query: 302 LIPGMPHVAFIIIAAMLAGAGYSVSQRKQQAGA--------IAELPAPVTTPQEIEEATW 353 LIPGMPH+AFI++AA + G Y++S+R ++A A PQE EEATW Sbjct: 304 LIPGMPHIAFILLAAAMGGGAYAISKRVEKAKTEAAASQAQAAAGGGAAAAPQESEEATW 363 Query: 354 QDILPVDTLGLEVGYRLIPLVDKGQGGELLRRIKGIRKKFAQEVGFLSPPVHIRDNLELK 413 D++PVDTLGLEVGYRLIPLVDKGQGGELL+RIKGIRKKFAQEVGFLSPP+HIRDNLELK Sbjct: 364 NDVMPVDTLGLEVGYRLIPLVDKGQGGELLKRIKGIRKKFAQEVGFLSPPIHIRDNLELK 423 Query: 414 PSAYRIALKGVEIGKGEATFGQFLAINPGMVTGPLPGLMTTDPAFGLPAVWIESNMREMA 473 PSAYRI LKGVE+G GEA GQ+LAINPGMVTGPLPG+MTTDPAFGLPAVWI++ +RE A Sbjct: 424 PSAYRITLKGVEVGNGEAHAGQYLAINPGMVTGPLPGMMTTDPAFGLPAVWIDNGLREQA 483 Query: 474 QTMGYTVVDTGTVIATHLNHLITIHAAELLGRQEVQQLLDHIGKDAPKLIEDLVPKALPL 533 TMGYTVVD GTV+ATHLNHLIT HAAELLGRQEVQ LLDH+ KDAPKL+EDLVPK LPL Sbjct: 484 STMGYTVVDAGTVVATHLNHLITTHAAELLGRQEVQSLLDHLAKDAPKLVEDLVPKMLPL 543 Query: 534 GTVQKVLQNLLIEGVHIRDMRTIIETLAEHAPRVQEPNELTAIVRIALGRAIVQQIFPTE 593 G++QKVLQNLLIEGVHIRDMRTIIETLAEHA R+Q+P +LTAIVRIALGRAIVQQ+FP E Sbjct: 544 GSLQKVLQNLLIEGVHIRDMRTIIETLAEHAARIQDPTDLTAIVRIALGRAIVQQMFPGE 603 Query: 594 SELSVMTLDTKLERLLMQAMQASGPEGGGIEPGLADTLITQTENAARHQEQLGLTPVLLV 653 SEL VM LD+KLERLLMQA+QASG E GGIEPGLAD+L+ TE AA+ QEQ+G +PVLLV Sbjct: 604 SELPVMALDSKLERLLMQALQASG-ESGGIEPGLADSLVQHTEIAAQRQEQMGYSPVLLV 662 Query: 654 PGPLRALLARFLRRAMPQLRVLSHAEVPDSKTIKVTSLVGGQA 696 PLR LLARFLRRAMPQLRVLSHAEVP+SKTIKVTSLVGGQA Sbjct: 663 GAPLRTLLARFLRRAMPQLRVLSHAEVPESKTIKVTSLVGGQA 705 >gi|300310121|ref|YP_003774213.1| type III secretion HrcV transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 280 bits (715), Expect = 4e-76, Method: Compositional matrix adjust. Identities = 218/711 (30%), Positives = 370/711 (52%), Gaps = 79/711 (11%) Query: 15 KHTKALAAPILIVMMLAMMVLPLPAFALDILFSFNISLSVIVLLTALYTVKPLDFVAFPA 74 K + LAA L++ ++ M+VLP+P + LDIL + ++ S ++++ A+Y P F FPA Sbjct: 19 KRAELLAAA-LVIGIVFMLVLPMPIWLLDILIAMSLCASGLIVVVAMYMAGPTAFSTFPA 77 Query: 75 VLLVSTMLRLSLNVASTRVVLTEGHTGPDAAGKVIEAFGHFLIGGNYTVGIVVFIILTII 134 VLL++T+ RL+++V++TR++L E AG ++E FG+F++GGN VG+V+F+ILT++ Sbjct: 78 VLLLTTLFRLAISVSTTRLILLEAD-----AGHIVETFGNFVVGGNLVVGLVIFLILTVV 132 Query: 135 NFTVVTKGAGRIAEVGARFTLDAMPGKQMAIDADLNAGMIGEPEARARRKEVAQEAEFYG 194 F V+TKG+ R++EV ARF+LDAMPGKQM+ID+DL AG++ EA+A+R + QE++ +G Sbjct: 133 QFIVITKGSERVSEVSARFSLDAMPGKQMSIDSDLRAGILTPEEAKAKRAHLGQESQLHG 192 Query: 195 AMDGASKYVRGDAVAGIIVTVVNIVGGLVVGMIQHDLAFDMALKNYTLLAIGDGLVAQIP 254 AMDGA K+V+GDA+AGI + +N++GG+ +G+IQ + A++ Y++L+IGD L+AQIP Sbjct: 193 AMDGAMKFVKGDAIAGICIVAINLIGGISIGIIQRGMDAGQAMQVYSILSIGDALIAQIP 252 Query: 255 SLIISTAAGVVVSRVANDQD-----VGGQLINQLFAKPEVLYLTAIIIGGMGLIPGMPHV 309 +L+IS AG++ +RV++D + +G ++ +LF +P+ L A I+ GLI P + Sbjct: 253 ALLISLGAGIITTRVSDDNEEGETNIGRDIVGELFGEPKALLTAAGIMLLFGLI---PGM 309 Query: 310 AFIIIAAMLAGAGYSVSQRKQQAGAIAELP--APVTTPQEIEEATWQDILPVDTLGLEVG 367 +I A+ G V AG + L A +E EE ++ VD Sbjct: 310 PTVIFVAL--AVGLCV------AGVVGMLKPLADAEMARESEELERKNAGIVDLTSFAAT 361 Query: 368 YRLIPLVDKGQGGE-----------------LLRR----IKGIRKKFAQ-----EVGFLS 401 I +++ G+ L RR +K I +F+ V F+ Sbjct: 362 TPFILRMNESMRGKAEAEVIRTAVRIMRNAMLERRGIPDLKPIDFEFSSMVPEGRVFFMM 421 Query: 402 PPVHIRD-NLELKPSAYRIALKGV-EIGKGEATFGQFLAINPGMVTGPLPGLMTTDPAFG 459 V + D + L SA R +L+ V E+G G P Sbjct: 422 SEVPLVDAEIMLGWSATRESLERVQELG--------------------FQGFERNIPGSR 461 Query: 460 LPAVWIESNMREMAQTMGYTVVDTGTVIATHLNHLITIHAAELLGRQEVQQLLDHIGKDA 519 VW+++ E G V A+ + + + +G EV + + Sbjct: 462 RRRVWVKTEDPEKLAEAGLLAESWEKVFASDIEVEMLRNCQMFVGVNEVIRFTRWAERRY 521 Query: 520 PKLIEDLVPKALPLGTVQKVLQNLLIEGVHIRDMRTIIETLAEHAPRVQEPNELTAIVRI 579 P+L +++V K + L + +V+Q L EGV +R+ R ++ET + AP+ ++P+ + VR+ Sbjct: 522 PELGKEVV-KTVTLPRLTEVVQRLTREGVSLRNARLLLETTLDWAPKERDPDVIADYVRL 580 Query: 580 ALGRAIVQQIFPTESE--LSVMTLDTKLERLLMQAM-QASGPEGGGIEPGLADTLITQTE 636 A R Q F E + V+ L +LE L AM Q S I+ L ++ + Sbjct: 581 AFKR---QLCFEASREGLIEVILLSPELEDQLRNAMRQTSQGSYLDIDSELEQMILDRLN 637 Query: 637 NAARHQEQLGLTPVLLVPGPLRALLARFLRRAMPQLRVLSHAEVPDSKTIK 687 + + + PVL+ +R + + + + V + +E+ +K Sbjct: 638 ELSTNVSTPIVPPVLVTAADIRRSVRKLIEEEFFPVPVFAFSELTQHAKVK 688 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 0.322 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: 1,919,994 Number of extensions: 77351 Number of successful extensions: 300 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 297 Number of HSP's successfully gapped: 3 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 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 134 (56.2 bits)