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= 0586.0044.p (263 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KID9.1 B3KID9_9BACI Flagellar biosynthetic protein fliR 299 1e-79 B1DLM7.1 B1DLM7_9BACL Flagellar biosynthetic protein fliR 251 3e-65 P35537.2 FLIR_BACSU Flagellar biosynthetic protein fliR 239 2e-61 A7Z4Q8.1 A7Z4Q8_BACA2 Flagellar biosynthetic protein fliR 233 1e-59 A8FDA2.1 A8FDA2_BACP2 Flagellar biosynthetic protein fliR 228 5e-58 >B3KID9.1 B3KID9_9BACI Flagellar biosynthetic protein fliR Length = 262 Score = 299 bits (766), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 152/261 (58%), Positives = 200/261 (76%) Query: 3 METWLQNFPVFLLIFCRISAFFVVVPVFSTRSIPATFKIGLSFFVALVIFSSRGTGIAVP 62 ME Q+ PVF+LIFCRI++FFV+ PVF++R IP+++KI LS +AL+++ S G G VP Sbjct: 1 MEWLQQSLPVFMLIFCRITSFFVISPVFASRGIPSSYKIALSAIIALIVYLSFGLGEVVP 60 Query: 63 QDLTYILLIAREALIGLLLGFIAYLMFMAIQTAGSFIDIQIGFGIANVIDPMTGTSAPVI 122 QDL+Y +LI +E L+GLLLGF AYL+ +QTAG+ IDIQIGF +ANVIDP TGTS P+I Sbjct: 61 QDLSYAILIVQEVLVGLLLGFTAYLIMAVVQTAGALIDIQIGFSMANVIDPFTGTSTPLI 120 Query: 123 GNFKYLIATLLFLSMNGHHYLLDAIVYSYKWVPIDNNLLIKMIDGSLSEFLVRSFAQSFM 182 GNFKY +A L+FLSMNGHHYL DAI+YSY W+PI ++ K+ +G++++FLVR+F+ SF+ Sbjct: 121 GNFKYYLALLVFLSMNGHHYLFDAIMYSYDWIPITGDVFGKIHEGNVTDFLVRTFSHSFV 180 Query: 183 LAFQMSAPLVTALFLTDIGLAFLARTAPQYNVFVIGVPLKIIVXXXXXXXXXXXXXXXFQ 242 LA QM+APLV ALFLTD+GL FLARTAPQ+NVFVIG+ +KIIV F Sbjct: 181 LAIQMAAPLVAALFLTDVGLGFLARTAPQFNVFVIGIIIKIIVGLVLLMLLMPMLVSLFD 240 Query: 243 NLFDIMFESMHNLLGLMGKSP 263 +LF MFE++ LLG++G P Sbjct: 241 HLFAKMFEALRELLGVLGDEP 261 >B1DLM7.1 B1DLM7_9BACL Flagellar biosynthetic protein fliR Length = 247 Score = 251 bits (642), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 124/244 (50%), Positives = 181/244 (74%), Gaps = 1/244 (0%) Query: 20 ISAFFVVVPVFSTRSIPATFKIGLSFFVALVIFSSRG-TGIAVPQDLTYILLIAREALIG 78 +++FFVV P+F+ R +P+TFKIGL FF++L++F + G VP D YIL I RE LIG Sbjct: 1 MTSFFVVAPLFNMRGVPSTFKIGLGFFLSLIVFMTYGLKEQTVPMDAEYILYIFREVLIG 60 Query: 79 LLLGFIAYLMFMAIQTAGSFIDIQIGFGIANVIDPMTGTSAPVIGNFKYLIATLLFLSMN 138 LL+G+I YL +QTAG+ +D+QIGF ++NVIDPMTG SAP++GNFKY++ ++FL++N Sbjct: 61 LLMGYIVYLFMTVVQTAGALMDMQIGFAMSNVIDPMTGVSAPLLGNFKYMLLIMVFLAVN 120 Query: 139 GHHYLLDAIVYSYKWVPIDNNLLIKMIDGSLSEFLVRSFAQSFMLAFQMSAPLVTALFLT 198 GHHYLL ++ SYKW+P+ N L ++ DGS+++FL R+ +F+LA Q++APLV A+FLT Sbjct: 121 GHHYLLTGLMDSYKWMPLSNELFSRIYDGSITDFLSRAVGNAFLLAMQVAAPLVIAMFLT 180 Query: 199 DIGLAFLARTAPQYNVFVIGVPLKIIVXXXXXXXXXXXXXXXFQNLFDIMFESMHNLLGL 258 D+GL FLA+TAPQYNVFVIG+PLK+++ F+ LF IMF+++ L G+ Sbjct: 181 DVGLGFLAKTAPQYNVFVIGIPLKLLLGLGLLILVLPGISAIFERLFAIMFDNLEQLFGI 240 Query: 259 MGKS 262 + ++ Sbjct: 241 VQQT 244 >P35537.2 FLIR_BACSU Flagellar biosynthetic protein fliR Length = 259 Score = 239 bits (610), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 123/260 (47%), Positives = 169/260 (65%), Gaps = 1/260 (0%) Query: 3 METWLQNFPVFLLIFCRISAFFVVVPVFSTRSIPATFKIGLSFFVALVIFSSRGTGIAVP 62 M + + FP FLL+F RISAFFV +P+F R++PA +IG +FF+A++ FS+ ++ Sbjct: 1 MNSIIDLFPAFLLVFIRISAFFVTIPLFGHRNVPAVHRIGFAFFLAVICFSTIDKPPSLE 60 Query: 63 QDLTYILLIAREALIGLLLGFIAYLMFMAIQTAGSFIDIQIGFGIANVIDPMTGTSAPVI 122 D Y+LL +EAL+GL LG IAY+M A+Q AGSFID Q+GF IANVIDP TG +P+I Sbjct: 61 IDEHYMLLAFKEALVGLCLGLIAYMMIAAVQIAGSFIDFQMGFSIANVIDPQTGAQSPLI 120 Query: 123 GNFKYLIATLLFLSMNGHHYLLDAIVYSYKWVPIDNNLLIKMIDGSLSEFLVRSFAQSFM 182 G F Y +A L LS+N HH LLD I YS++++ +D D + F+ +SF F+ Sbjct: 121 GQFIYTMALLFMLSVNAHHLLLDGIYYSFQYISVDQAFP-NFGDEKFAYFIAKSFNAMFI 179 Query: 183 LAFQMSAPLVTALFLTDIGLAFLARTAPQYNVFVIGVPLKIIVXXXXXXXXXXXXXXXFQ 242 +AFQMSAP+V +LFL D+ L +ART PQ NVFV+G+PLKI V + Sbjct: 180 IAFQMSAPVVASLFLVDLALGIVARTVPQLNVFVVGLPLKIAVSFIMLIVCMSVIFVVVR 239 Query: 243 NLFDIMFESMHNLLGLMGKS 262 N+F + E+M NLL L+G S Sbjct: 240 NVFSLTIETMRNLLALVGVS 259 >A7Z4Q8.1 A7Z4Q8_BACA2 Flagellar biosynthetic protein fliR Length = 259 Score = 233 bits (595), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 120/258 (46%), Positives = 168/258 (65%), Gaps = 1/258 (0%) Query: 3 METWLQNFPVFLLIFCRISAFFVVVPVFSTRSIPATFKIGLSFFVALVIFSSRGTGIAVP 62 M + + FP FLL+F RISAFFV VPVF R++PA +IG +FF++++ FS+ + Sbjct: 1 MNSIIDLFPAFLLVFIRISAFFVTVPVFGHRNLPAVHRIGFAFFLSVICFSTLKHAPEIE 60 Query: 63 QDLTYILLIAREALIGLLLGFIAYLMFMAIQTAGSFIDIQIGFGIANVIDPMTGTSAPVI 122 Y+LL+ +EA++GL LG IA++M AIQ AGSFID Q+GF IANVIDP +GT +P+I Sbjct: 61 IGEQYMLLVIKEAVVGLSLGLIAFMMMTAIQIAGSFIDFQMGFSIANVIDPQSGTQSPLI 120 Query: 123 GNFKYLIATLLFLSMNGHHYLLDAIVYSYKWVPIDNNLLIKMIDGSLSEFLVRSFAQSFM 182 G F Y +A L LS+N H+ LLD I YS++++P+D + F+ +SF F+ Sbjct: 121 GQFVYTLALLFMLSINAHYLLLDGIYYSFQYIPLDQAFP-SFGNDHFGLFIAKSFNAMFI 179 Query: 183 LAFQMSAPLVTALFLTDIGLAFLARTAPQYNVFVIGVPLKIIVXXXXXXXXXXXXXXXFQ 242 +AFQMSAP+V +LFL D+ L +ART PQ NVFV+G+PLKI V + Sbjct: 180 IAFQMSAPVVASLFLVDLALGIVARTVPQLNVFVVGLPLKIAVSFIMLIVCMAVMFVVVR 239 Query: 243 NLFDIMFESMHNLLGLMG 260 N+F + E+M NLL L+G Sbjct: 240 NIFSLTVETMRNLLALVG 257 >A8FDA2.1 A8FDA2_BACP2 Flagellar biosynthetic protein fliR Length = 259 Score = 228 bits (580), Expect = 5e-58, Method: Compositional matrix adjust. Identities = 118/258 (45%), Positives = 167/258 (64%), Gaps = 1/258 (0%) Query: 5 TWLQNFPVFLLIFCRISAFFVVVPVFSTRSIPATFKIGLSFFVALVIFSSRGTGIAVPQD 64 + ++ FP FLL+F RI+AFFV VP+ + R+IPA ++G S F+A++ FS+ A+ D Sbjct: 2 SIIELFPAFLLVFIRITAFFVTVPLLAHRTIPAVHRVGFSLFLAVISFSTIKEPPALDID 61 Query: 65 LTYILLIAREALIGLLLGFIAYLMFMAIQTAGSFIDIQIGFGIANVIDPMTGTSAPVIGN 124 Y++L +EA++GLLLG IAY+M A+Q AGSFID Q+GF IANVIDP TG P++G Sbjct: 62 GLYMMLAVKEAMVGLLLGLIAYIMVSAVQIAGSFIDFQMGFAIANVIDPQTGAQTPLMGQ 121 Query: 125 FKYLIATLLFLSMNGHHYLLDAIVYSYKWVPIDNNLLIKMIDGSLSEFLVRSFAQSFMLA 184 F Y + LL L+ N HH LLD I YS++++ +D L S + F+ +SF Q F++A Sbjct: 122 FFYTVTLLLMLATNAHHLLLDGIYYSFQYIAVDQYAL-NFGSESFAYFIAKSFNQMFIIA 180 Query: 185 FQMSAPLVTALFLTDIGLAFLARTAPQYNVFVIGVPLKIIVXXXXXXXXXXXXXXXFQNL 244 FQ+SAP+V +LFL D+ L +ART PQ NVFV+G+P+K+ V QN Sbjct: 181 FQISAPVVASLFLVDLALGIVARTVPQMNVFVVGLPIKMGVSFIMIIICMGVIFGVVQNT 240 Query: 245 FDIMFESMHNLLGLMGKS 262 FD + +M N L L+G S Sbjct: 241 FDTIVLTMRNFLALVGGS 258 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.333 0.146 0.433 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,347,842,564 Number of extensions: 51619195 Number of successful extensions: 161382 Number of sequences better than 1.0e-05: 1228 Number of HSP's gapped: 159453 Number of HSP's successfully gapped: 1228 Length of query: 263 Length of database: 3,060,696,203 Length adjustment: 133 Effective length of query: 130 Effective length of database: 1,807,701,208 Effective search space: 235001157040 Effective search space used: 235001157040 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (22.0 bits) S2: 130 (54.7 bits)