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= 0088.0004.p (322 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|ZP_00180482.1| hypothetical protein Mther157501 [Moorella th... 283 5e-75 ref|NP_786310.1| branched-chain amino acid ABC transporter, perm... 238 2e-61 ref|ZP_00144707.1| Branched-chain amino acid transport system pe... 230 3e-59 ref|NP_688571.1| branched-chain amino acid ABC transporter, perm... 228 2e-58 ref|NP_736065.1| Unknown [Streptococcus agalactiae NEM316] >gi|2... 228 2e-58 >ref|ZP_00180482.1| hypothetical protein Mther157501 [Moorella thermoacetica ATCC 39073] Length = 320 Score = 283 bits (723), Expect = 5e-75, Method: Compositional matrix adjust. Identities = 153/291 (52%), Positives = 203/291 (69%) Query: 19 YGIVQVLLTTGIFSDVTRSMLLLIGVNIMLAVSLNLITGITGQFSIGHAGFMSVGAYTSA 78 Y +V L G+ S L+++G+NI+LAVSLNLI G TGQ ++GHAGFM+VGAY SA Sbjct: 21 YFLVYELQAAGVISAFQEINLMMLGINIILAVSLNLIVGFTGQLALGHAGFMAVGAYVSA 80 Query: 79 ILTLDYNVPFIPAILAGGVLAAVFGVLIGMPTLRLNGDYLAIATLGFGEIIRIIMLNTEY 138 IL+ ++N PF A+LAG AAV G++IG+PTLRL GDYLAIATLGFGEIIR N Y Sbjct: 81 ILSTNFNQPFPVALLAGACAAAVAGIVIGLPTLRLRGDYLAIATLGFGEIIRGAANNINY 140 Query: 139 VGGASGLSGIPAKTTWTMLFLFTLITVVVINNFIGSTHGRXXXXXXXXXXXXXXMGINTT 198 +GGA+G+ GIP T WT L+ ++T++V NFI STHGR MGINTT Sbjct: 141 IGGAAGMIGIPQLTNWTWLYAMMVLTILVTTNFINSTHGRACVAIRENEIAAETMGINTT 200 Query: 199 RYKIIAFTIGALFAGMAGGLSAHTFYVITPGSFNFLKSFEIIVMVVLGGLGSTAGSIVGA 258 YK++AF +GA FAG+AG L AH FY+I P +F F +SF+I+VMVV GGLGS GSI+ A Sbjct: 201 YYKVLAFAMGAFFAGIAGALYAHYFYLIQPTTFTFFRSFDILVMVVFGGLGSITGSIIAA 260 Query: 259 VFVTLLYTYLREFPEWRMIIYSIVLILMMIFRPSGLLGKTKFSLGKLGKKE 309 +T + L++ RM+IY+++LI++M+FRP GL+G +F+L + KK Sbjct: 261 AGITFVNAALQDLAVLRMVIYAVLLIIIMVFRPQGLMGNKEFTLDRWLKKR 311 >ref|NP_786310.1| branched-chain amino acid ABC transporter, permease protein [Lactobacillus plantarum WCFS1] emb|CAD65168.1| branched-chain amino acid ABC transporter, permease protein [Lactobacillus plantarum WCFS1] Length = 320 Score = 238 bits (606), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 137/320 (42%), Positives = 198/320 (61%), Gaps = 6/320 (1%) Query: 3 KLNTNF-WVGIIVALAFYGIVQVLLTTGIFSDVTRSMLLLIGVNIMLAVSLNLITGITGQ 61 L TN W+G++V + F ++ L G+ + +ML+ IG+N++LAV LNLI G GQ Sbjct: 4 NLKTNMAWLGVMV-IGFV-VIDGLELMGVINSFIENMLVTIGINVILAVGLNLIIGFAGQ 61 Query: 62 FSIGHAGFMSVGAYTSAILTLDYNVP--FIPAILAGGVLAAVFGVLIGMPTLRLNGDYLA 119 FS+GH GFM++GAY + I+T P F +++ G V+A V V++G+PTLRL GDYLA Sbjct: 62 FSLGHVGFMAIGAYATGIMTQTMATPAGFYLSMIVGMVIAMVAAVIVGIPTLRLRGDYLA 121 Query: 120 IATLGFGEIIRIIMLNTEYVGGASGLSGIPAKTTWTMLFLFTLITVVVINNFIGSTHGRX 179 IAT+G EIIRI++ N + GA+GL IPA +W +++ +T ++ NFI S GR Sbjct: 122 IATMGAAEIIRILINNLKITNGAAGLFNIPALASWATVYVLMCLTTIITVNFIHSRGGRA 181 Query: 180 XXXXXXXXXXXXXMGINTTRYKIIAFTIGALFAGMAGGLSAHTFYVITPGSFNFLKSFEI 239 MGINTTR+K+ AF GA A + G L A I PG FN + S I Sbjct: 182 VMAVRDDELAAGAMGINTTRWKLAAFVFGAATAAIGGSLHAAYIQTIAPGDFNIMASIAI 241 Query: 240 IVMVVLGGLGSTAGSIVGAVFVTLLYTYLREFPEWRMIIYSIVLILMMIFRPSGLLGKTK 299 +++VVLGG+GS G+ V A+ + L T L+ F RMIIYS+ LIL+MIF+P+GLLG + Sbjct: 242 LIIVVLGGVGSITGTFVAAIVLGALDTILQNFGTIRMIIYSLALILIMIFKPAGLLGTWE 301 Query: 300 FSLGKLGKKEAKANDAISES 319 FS +L ++ + +A++ Sbjct: 302 FSFTRLFRRRST-KEAVNHE 320 >ref|ZP_00144707.1| Branched-chain amino acid transport system permease protein livM [Fusobacterium nucleatum subsp. vincentii ATCC 49256] gb|EAA23692.1| Branched-chain amino acid transport system permease protein livM [Fusobacterium nucleatum subsp. vincentii ATCC 49256] Length = 324 Score = 230 bits (587), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 124/273 (45%), Positives = 178/273 (65%), Gaps = 8/273 (2%) Query: 49 AVSLNLITGITGQFSIGHAGFMSVGAYTSAILT----LDYNVPFIPAILAGGVLAAVFGV 104 A SLN+ G GQ ++GHAGFMS+GAYT+A+LT L +I A++ GGV+A G Sbjct: 50 AASLNVTVGCLGQITLGHAGFMSIGAYTAALLTKSGFLSGYPGYIVALIIGGVVAGFIGF 109 Query: 105 LIGMPTLRLNGDYLAIATLGFGEIIRIIMLNTEYVGGASGLSGIPAKTTWTMLFLFTLIT 164 +IG+P LRL GDYLAI TL FGEIIR+++ ++ GGA GL+GIP +T+++ T+ + Sbjct: 110 IIGIPALRLTGDYLAIITLAFGEIIRVLIEYFKFTGGAQGLTGIPRINNFTLIYFITIFS 169 Query: 165 VVVINNFIGSTHGRXXXXXXXXXXXXXXMGINTTRYKIIAFTIGALFAGMAGGLSAHTFY 224 V+ + + + S HGR GINTT YK AF + A+FAG+AGG+ AH Sbjct: 170 VIFMYSIMTSRHGRAVLAIREDEIASGASGINTTYYKTFAFVLSAIFAGIAGGIYAHNLG 229 Query: 225 VITPGSFNFLKSFEIIVMVVLGGLGSTAGSIVGAVFVTLLYTYLREFPEWRMIIYSIVLI 284 ++ F++ S I+VMVVLGG+GS GSI+ A+ +T+L LR F E+RMI+Y ++LI Sbjct: 230 ILGAKQFDYNYSINILVMVVLGGMGSFTGSILSAIVLTILPEVLRSFAEYRMIVYPLILI 289 Query: 285 LMMIFRPSGLLGKTKFSLGKL----GKKEAKAN 313 +MM+FRP GLLG+ +F + K+ KK +A+ Sbjct: 290 IMMLFRPKGLLGREEFQISKVISYFTKKRGEAD 322 >ref|NP_688571.1| branched-chain amino acid ABC transporter, permease protein [Streptococcus agalactiae 2603V/R] gb|AAN00444.1| branched-chain amino acid ABC transporter, permease protein [Streptococcus agalactiae 2603V/R] Length = 317 Score = 228 bits (581), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 131/309 (42%), Positives = 201/309 (65%), Gaps = 5/309 (1%) Query: 9 WVGIIVALAFYGIVQVLLTTGIFSDVTRSMLLLIGVNIMLAVSLNLITGITGQFSIGHAG 68 W+ I+V Y ++ VL++ GIF+ ++ IG+N++LAV LNLI G +GQFS+GHAG Sbjct: 11 WLAIVVL--DYLLISVLISMGIFNLYHIQIIETIGINVILAVGLNLIVGCSGQFSLGHAG 68 Query: 69 FMSVGAYTSAIL--TLDYNVPFIPAILAGGVLAAVFGVLIGMPTLRLNGDYLAIATLGFG 126 FM++GAY AI+ + V F+ AIL G ++A + +G+PTLRL GDYLAIATLG Sbjct: 69 FMAIGAYAVAIIGVKMPTYVGFLIAILVGTLVAGGIALGVGIPTLRLKGDYLAIATLGVA 128 Query: 127 EIIRIIMLNT-EYVGGASGLSGIPAKTTWTMLFLFTLITVVVINNFIGSTHGRXXXXXXX 185 EIIRI+++N + GA+G+ GIP TTW++++ ++++++ NF+ S GR Sbjct: 129 EIIRILLVNGGDITNGAAGIMGIPPFTTWSLVYGVAVVSLILAMNFLRSPLGRNTIAIRE 188 Query: 186 XXXXXXXMGINTTRYKIIAFTIGALFAGMAGGLSAHTFYVITPGSFNFLKSFEIIVMVVL 245 MG++TT+ K+I F GA+ A +AG L A + P F+F+ S ++++VVL Sbjct: 189 DEIAAESMGVDTTKVKVIVFVFGAILASIAGSLQAGYVGTVMPKDFSFMMSVNVLIIVVL 248 Query: 246 GGLGSTAGSIVGAVFVTLLYTYLREFPEWRMIIYSIVLILMMIFRPSGLLGKTKFSLGKL 305 GGLGS G+++ A+ + LL L+++ RMIIY++ LIL+MIFRPSGLLG + +L L Sbjct: 249 GGLGSMTGTVLAAILLGLLNMLLQDYASVRMIIYALALILIMIFRPSGLLGTKELTLSHL 308 Query: 306 GKKEAKAND 314 +K +K + Sbjct: 309 FRKTSKGGN 317 >ref|NP_736065.1| Unknown [Streptococcus agalactiae NEM316] emb|CAD47289.1| Unknown [Streptococcus agalactiae NEM316] Length = 317 Score = 228 bits (580), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 131/309 (42%), Positives = 201/309 (65%), Gaps = 5/309 (1%) Query: 9 WVGIIVALAFYGIVQVLLTTGIFSDVTRSMLLLIGVNIMLAVSLNLITGITGQFSIGHAG 68 W+ I+V Y ++ VL++ GIF+ ++ IG+N++LAV LNLI G +GQFS+GHAG Sbjct: 11 WLAIVVL--GYLLISVLISMGIFNLYHIQIIETIGINVILAVGLNLIVGCSGQFSLGHAG 68 Query: 69 FMSVGAYTSAIL--TLDYNVPFIPAILAGGVLAAVFGVLIGMPTLRLNGDYLAIATLGFG 126 FM++GAY AI+ + V F+ AIL G ++A + +G+PTLRL GDYLAIATLG Sbjct: 69 FMAIGAYAVAIIGVKMPTYVGFLIAILVGTLVAGGIALGVGIPTLRLKGDYLAIATLGVA 128 Query: 127 EIIRIIMLNT-EYVGGASGLSGIPAKTTWTMLFLFTLITVVVINNFIGSTHGRXXXXXXX 185 EIIRI+++N + GA+G+ GIP TTW++++ ++++++ NF+ S GR Sbjct: 129 EIIRILLVNGGDITNGAAGIMGIPPFTTWSLVYGVAVVSLILAMNFLRSPLGRNTIAIRE 188 Query: 186 XXXXXXXMGINTTRYKIIAFTIGALFAGMAGGLSAHTFYVITPGSFNFLKSFEIIVMVVL 245 MG++TT+ K+I F GA+ A +AG L A + P F+F+ S ++++VVL Sbjct: 189 DEIAAESMGVDTTKVKVIVFVFGAILASIAGSLQAGYVGTVMPKDFSFMMSVNVLIIVVL 248 Query: 246 GGLGSTAGSIVGAVFVTLLYTYLREFPEWRMIIYSIVLILMMIFRPSGLLGKTKFSLGKL 305 GGLGS G+++ A+ + LL L+++ RMIIY++ LIL+MIFRPSGLLG + +L L Sbjct: 249 GGLGSMTGTVLAAILLGLLNMLLQDYASVRMIIYALALILIMIFRPSGLLGTKELTLSHL 308 Query: 306 GKKEAKAND 314 +K +K + Sbjct: 309 FRKTSKGGN 317 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.327 0.143 0.415 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 422,616,119 Number of extensions: 16587792 Number of successful extensions: 84530 Number of sequences better than 1.0e-05: 1185 Number of HSP's gapped: 83249 Number of HSP's successfully gapped: 1215 Length of query: 322 Length of database: 757,237,578 Length adjustment: 126 Effective length of query: 196 Effective length of database: 415,135,104 Effective search space: 81366480384 Effective search space used: 81366480384 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 126 (53.1 bits)