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= 0346.0046.p (321 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K642.1 B3K642_9BACI Binding-protein-dependent transport system... 326 2e-87 B1D782.1 B1D782_9BACL Binding-protein-dependent transport system... 310 2e-82 B1DGI1.1 B1DGI1_9BACL Binding-protein-dependent transport system... 305 5e-81 A4U8T9.1 A4U8T9_9BACT Sugar permease 276 2e-72 Q5WL96.1 Q5WL96_BACSK Sugar ABC transporter permease 259 2e-67 >B3K642.1 B3K642_9BACI Binding-protein-dependent transport systems inner membrane component Length = 310 Score = 326 bits (836), Expect = 2e-87, Method: Compositional matrix adjust. Identities = 161/302 (53%), Positives = 210/302 (69%), Gaps = 1/302 (0%) Query: 19 RRSRRRPHAAKELRYGLLFASPVLAGYLLFVLVPIATSIYLSFTNYSVGMVPEWIGIGNY 78 R R++ +EL YG LFA P + G L+F L P+ S+Y+SFTNY+ P +IG+ NY Sbjct: 10 NRMRKKRRTQREL-YGWLFALPAILGLLIFTLGPMMYSLYMSFTNYTGSNTPSFIGLDNY 68 Query: 79 KTLFTGADPFFYPAVKATFYYVFASVPLGIIISFFAAVLLNQKIVGRAFFRGIFYLPVII 138 K +F G D +FY ++ TFY+V SVP GI+ SF A+LLNQ + G++ FR +FYLP I+ Sbjct: 69 KRIFGGEDQYFYKSLSVTFYFVILSVPTGIVYSFLLAILLNQNVKGKSIFRTVFYLPSIV 128 Query: 139 PLAASSMVWMWLLQPDFGIVNYMLEQLHLPTSQWLGDTGSVVPTLILFSFWTLGNTIVIF 198 P+ A S +W+WLL PD G+ N +L L LP SQW+ SVVP+L L + WT G T++IF Sbjct: 129 PIIAISFIWLWLLNPDLGLANELLRSLGLPGSQWIFGEKSVVPSLALMNLWTTGGTMIIF 188 Query: 199 LAGLQGIPSQLYEAIEIDGGNRLHKLFYITIPMTSSIIFFNTVIAFINGFQAFVQPSVMT 258 LAGLQ IP LYEAIE+DGG+RL+KL +ITIPM + IFFN ++ INGFQ F Q VMT Sbjct: 189 LAGLQDIPRSLYEAIEMDGGSRLNKLRHITIPMMTPTIFFNLIMGIINGFQVFSQAYVMT 248 Query: 259 QGGPNNKSLFYVLYLFNEGFKSSRMGSASAISVLLFLVIALFTALIFFFSKSLVYYEGKG 318 GGPNN SLFYV YL+ E F+ SRMGSASAI+ +LF +I + T ++F S VYYEG G Sbjct: 249 NGGPNNASLFYVFYLYREAFQFSRMGSASAIAWVLFAIIMVLTYVVFRTSNKWVYYEGDG 308 Query: 319 EQ 320 + Sbjct: 309 AR 310 >B1D782.1 B1D782_9BACL Binding-protein-dependent transport systems inner membrane component Length = 315 Score = 310 bits (793), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 151/303 (49%), Positives = 210/303 (69%), Gaps = 3/303 (0%) Query: 18 VRRSRRRPHAAKELRYGLLFASPVLAGYLLFVLVPIATSIYLSFTNYSV-GMVPEWIGIG 76 VR+S +R K L YGLLF +P + G++++ L P+ S+YLS T+Y+V +IG+ Sbjct: 15 VRKSTKRER--KALFYGLLFTAPAILGFIIYTLGPMIASLYLSLTDYNVFKDTTSFIGLD 72 Query: 77 NYKTLFTGADPFFYPAVKATFYYVFASVPLGIIISFFAAVLLNQKIVGRAFFRGIFYLPV 136 NY LF+G D FY ++ TFY+V VP IIISFF A+LLN + GRA FR I YLP Sbjct: 73 NYIKLFSGEDDLFYKSLGTTFYFVLLRVPAVIIISFFLAILLNMNVKGRAIFRTIIYLPS 132 Query: 137 IIPLAASSMVWMWLLQPDFGIVNYMLEQLHLPTSQWLGDTGSVVPTLILFSFWTLGNTIV 196 I+P A+SM+W+WL+ PD G++N L LHLPTS WL GSV+P+++L + W +G T++ Sbjct: 133 IVPAVAASMIWLWLMNPDLGLLNMALNWLHLPTSNWLFGEGSVIPSIVLTTLWGIGGTVI 192 Query: 197 IFLAGLQGIPSQLYEAIEIDGGNRLHKLFYITIPMTSSIIFFNTVIAFINGFQAFVQPSV 256 IFLAGL GIP YEAI++DGG KL +IT+PM + IFFNT++ I FQ F + + Sbjct: 193 IFLAGLSGIPKSYYEAIDVDGGGWYSKLRHITVPMLTPTIFFNTIMTIIGSFQVFSEAYI 252 Query: 257 MTQGGPNNKSLFYVLYLFNEGFKSSRMGSASAISVLLFLVIALFTALIFFFSKSLVYYEG 316 +TQGGPNNKSLF+V YL+ F+ + MG ASA++ +LF++I +FT L+F SKS V+YEG Sbjct: 253 LTQGGPNNKSLFFVFYLWRTAFRDTEMGYASALAWVLFIIIMIFTVLVFKTSKSWVHYEG 312 Query: 317 KGE 319 + + Sbjct: 313 EKQ 315 >B1DGI1.1 B1DGI1_9BACL Binding-protein-dependent transport systems inner membrane component Length = 301 Score = 305 bits (780), Expect = 5e-81, Method: Compositional matrix adjust. Identities = 153/297 (51%), Positives = 202/297 (68%) Query: 24 RPHAAKELRYGLLFASPVLAGYLLFVLVPIATSIYLSFTNYSVGMVPEWIGIGNYKTLFT 83 R KE R G+LFASPV+AG+L+FVL P+ S S + Y+V + IG NY LF Sbjct: 5 RKLWNKEARAGILFASPVIAGFLIFVLGPMIASFIFSLSEYNVITPLKMIGFSNYADLFD 64 Query: 84 GADPFFYPAVKATFYYVFASVPLGIIISFFAAVLLNQKIVGRAFFRGIFYLPVIIPLAAS 143 G DP FY ++ T YYV SVPL I+++F A+LLN I G+AFFR +FY+P I+P AS Sbjct: 65 GTDPLFYKSLGVTAYYVILSVPLQILLAFMVALLLNHPIKGKAFFRTVFYMPTIVPAVAS 124 Query: 144 SMVWMWLLQPDFGIVNYMLEQLHLPTSQWLGDTGSVVPTLILFSFWTLGNTIVIFLAGLQ 203 SM+W+WL PD G++N +L+ +P QW+ VP+L+L S WT+G T+VIFLAGLQ Sbjct: 125 SMIWLWLFDPDLGLLNQLLKVFGIPGLQWIYSENLAVPSLVLMSLWTIGGTMVIFLAGLQ 184 Query: 204 GIPSQLYEAIEIDGGNRLHKLFYITIPMTSSIIFFNTVIAFINGFQAFVQPSVMTQGGPN 263 GIP LYE++E+DGG LHKLF ITIP+ + IFFN ++ FI FQ F Q +MTQGGPN Sbjct: 185 GIPKHLYESVEVDGGGPLHKLFSITIPLMTPTIFFNLIMGFIGSFQVFGQAYIMTQGGPN 244 Query: 264 NKSLFYVLYLFNEGFKSSRMGSASAISVLLFLVIALFTALIFFFSKSLVYYEGKGEQ 320 N +LFY YL+ E F+ S MGSASAI+ ++FLVI T ++F S VY E +G++ Sbjct: 245 NATLFYSYYLYREAFEFSSMGSASAIAWIMFLVILALTLMVFKTSAFWVYSESEGKR 301 >A4U8T9.1 A4U8T9_9BACT Sugar permease Length = 285 Score = 276 bits (706), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 133/285 (46%), Positives = 194/285 (68%), Gaps = 1/285 (0%) Query: 33 YGLLFASPVLAGYLLFVLVPIATSIYLSFTNYSVGMVPEWIGIGNYKTLFTGADPFFYPA 92 +G+LF +P + G++L+ L PI S++++FT++ + P+WIG GN++ +F D F + Sbjct: 2 WGILFVAPAVLGFVLWQLGPIIGSLFIAFTDWRLAGTPQWIGTGNFEKIF-AEDRLFRKS 60 Query: 93 VKATFYYVFASVPLGIIISFFAAVLLNQKIVGRAFFRGIFYLPVIIPLAASSMVWMWLLQ 152 + T YY SVPL ++++F AVLLNQKI FR IFYLP I+P+ ASSM+W+WL Sbjct: 61 LGVTVYYSLGSVPLRMLVAFALAVLLNQKIRALPVFRTIFYLPSIVPVIASSMLWLWLFN 120 Query: 153 PDFGIVNYMLEQLHLPTSQWLGDTGSVVPTLILFSFWTLGNTIVIFLAGLQGIPSQLYEA 212 PDFG++N +L L P QW+ + SV+P LIL S W +G ++IFLA LQG+P QLYEA Sbjct: 121 PDFGLLNSILRPLGFPKLQWIYASDSVIPALILMSLWDIGPMMIIFLAALQGVPRQLYEA 180 Query: 213 IEIDGGNRLHKLFYITIPMTSSIIFFNTVIAFINGFQAFVQPSVMTQGGPNNKSLFYVLY 272 +EIDGGN H++ +IT+P+ + I FN +++ I Q F Q +MT GGPNN SL YVLY Sbjct: 181 VEIDGGNAWHRMRHITVPIVTPAILFNLILSIIVAMQTFTQAYIMTDGGPNNNSLLYVLY 240 Query: 273 LFNEGFKSSRMGSASAISVLLFLVIALFTALIFFFSKSLVYYEGK 317 L+ + F+ S+MG ASA++ +LF++IA + +F S VYY G+ Sbjct: 241 LYRKAFEQSQMGYASALAWVLFIIIAGLSLFVFRSSSRWVYYGGR 285 >Q5WL96.1 Q5WL96_BACSK Sugar ABC transporter permease Length = 300 Score = 259 bits (663), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 140/297 (47%), Positives = 188/297 (63%), Gaps = 2/297 (0%) Query: 19 RRSRRRPHAAKELRYGLLFASPVLAGYLLFVLVPIATSIYLSFTNYSVGMVPEWIGIGNY 78 R + R +K L + LF SP L G+L P+ S Y+SFT + V EWIG+ NY Sbjct: 3 RPALARLRRSKTLAF-YLFISPWLIGFLALAAGPMIYSFYMSFTEWQVMGGAEWIGLENY 61 Query: 79 KTLFTGADPFFYPAVKATFYYVFASVPLGIIISFFAAVLLNQKIVGRAFFRGIFYLPVII 138 + LF DP F+ + TF+Y F VPLG+ + AVLLNQK+ FR IFYLP I+ Sbjct: 62 ERLFF-HDPLFWKTMWNTFFYTFLGVPLGLAFGYLLAVLLNQKVKFMGVFRTIFYLPSIV 120 Query: 139 PLAASSMVWMWLLQPDFGIVNYMLEQLHLPTSQWLGDTGSVVPTLILFSFWTLGNTIVIF 198 P ASS++W+ + QP+FG+ N +L+ + LPTS+WL V P LI+ S W +G ++I+ Sbjct: 121 PAVASSLLWVLIFQPEFGLANALLDSVGLPTSRWLLSESMVKPALIIMSLWGVGGGMIIY 180 Query: 199 LAGLQGIPSQLYEAIEIDGGNRLHKLFYITIPMTSSIIFFNTVIAFINGFQAFVQPSVMT 258 LAGLQG+P LYEA EIDG + K ++ITIPMTS +IFFN ++ I FQ F Q VM+ Sbjct: 181 LAGLQGVPPSLYEAAEIDGAGKWRKFWHITIPMTSHVIFFNLIMGVIGSFQVFTQAYVMS 240 Query: 259 QGGPNNKSLFYVLYLFNEGFKSSRMGSASAISVLLFLVIALFTALIFFFSKSLVYYE 315 GGPN SLFYVLYL+ F+ MG ASA++ +LF+++ +FT L F F VYYE Sbjct: 241 GGGPNYASLFYVLYLYQNAFEFFNMGYASALAWVLFVIVLIFTLLQFKFFGKKVYYE 297 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 0.329 0.144 0.439 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: 1,993,721,579 Number of extensions: 88265185 Number of successful extensions: 292074 Number of sequences better than 1.0e-05: 5927 Number of HSP's gapped: 281470 Number of HSP's successfully gapped: 5947 Length of query: 321 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 186 Effective length of database: 1,788,859,178 Effective search space: 332727807108 Effective search space used: 332727807108 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 (21.8 bits) S2: 131 (55.1 bits)