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= 0342.0003.p (282 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1DIZ6.1 B1DIZ6_9BACL Binding-protein-dependent transport system... 396 e-108 C0Z5Q7.1 C0Z5Q7_BREBN Oligopeptide ABC transporter permease protein 372 e-101 A5G374.1 A5G374_GEOUR Binding-protein-dependent transport system... 225 3e-57 Q65LC8.1 Q65LC8_BACLD Oligopeptide ABC transporter (Permease) 223 1e-56 P42063.1 APPC_BACSU Oligopeptide transport system permease prote... 222 3e-56 >B1DIZ6.1 B1DIZ6_9BACL Binding-protein-dependent transport systems inner membrane component Length = 323 Score = 396 bits (1017), Expect = e-108, Method: Compositional matrix adjust. Identities = 200/280 (71%), Positives = 227/280 (81%), Gaps = 2/280 (0%) Query: 1 MSGLVVLLFFIVIAALAPFLTKYKPEAIDLMFANLKPGVDGHLLGTDELGRDILTRLLYS 60 ++GLVVLL FI A AP+LTKY P ID+MF N+K G GHLLGTDELGRDI RLLYS Sbjct: 44 ITGLVVLLVFIFGGAAAPWLTKYDPAKIDMMFVNVKAGTAGHLLGTDELGRDIFARLLYS 103 Query: 61 ARISLMIGXXXXXXXXXXXXXXXXXXXXXXXWVDTVFMRIVDVMNSVPTLFLNILVLAIF 120 ARISL +G ++DT FMR+VDVMNS+P LFLNILVLAIF Sbjct: 104 ARISLTVGFSVAAGSVIIGAVIGSISGFFGGFIDTCFMRLVDVMNSIPLLFLNILVLAIF 163 Query: 121 GSRMEYMIMILALTSWMSIARLVRGNFLQLREMQYVEAAKAIGVSSWGIIFRHLLRNASF 180 G+ YMI++L LTSWMS+ARLVRG FLQLREMQYVEAA+AIGVS+ GIIF+HLLRNASF Sbjct: 164 GTEFRYMIIVLILTSWMSVARLVRGMFLQLREMQYVEAARAIGVSNLGIIFKHLLRNASF 223 Query: 181 PIIVNATLMVGGAILSESALSYLGLGIQAPATSWGLMLSNAQEFMLIDPLQAVYPGLCIL 240 PIIVNATLMVG AILSESALSYLGLGIQAP TSWGLMLSNAQEFML+DPLQAVYPG+CIL Sbjct: 224 PIIVNATLMVGSAILSESALSYLGLGIQAPKTSWGLMLSNAQEFMLVDPLQAVYPGICIL 283 Query: 241 LVVLAVNFIGDGIRDGLDPRQQLTKSRRRLDKWRKNYSKS 280 LVVLAVNFIGDGI+D L+PRQ++ S RR+D+WRK++ KS Sbjct: 284 LVVLAVNFIGDGIQDSLNPRQKM--SERRIDRWRKSFLKS 321 >C0Z5Q7.1 C0Z5Q7_BREBN Oligopeptide ABC transporter permease protein Length = 326 Score = 372 bits (954), Expect = e-101, Method: Compositional matrix adjust. Identities = 180/279 (64%), Positives = 214/279 (76%) Query: 1 MSGLVVLLFFIVIAALAPFLTKYKPEAIDLMFANLKPGVDGHLLGTDELGRDILTRLLYS 60 + GL+VLLFF+ IAA A ++ + P +D M NL PG +GH+LGTDELGRDIL+RL++S Sbjct: 48 VGGLIVLLFFVGIAAGADWVAPHDPAKVDFMITNLPPGTEGHVLGTDELGRDILSRLIHS 107 Query: 61 ARISLMIGXXXXXXXXXXXXXXXXXXXXXXXWVDTVFMRIVDVMNSVPTLFLNILVLAIF 120 +R+S+++G W+DT FMR+VDVMNS+P+LF NILVLA+F Sbjct: 108 SRVSMLVGFSVAFAAVVIGTLIGAISGYFGGWIDTCFMRLVDVMNSIPSLFFNILVLALF 167 Query: 121 GSRMEYMIMILALTSWMSIARLVRGNFLQLREMQYVEAAKAIGVSSWGIIFRHLLRNASF 180 G+ YMI+IL+LTSW S+ARLVRG FLQLREMQYVEAA+AIGVS WGII RHL+RNA Sbjct: 168 GAEFVYMILILSLTSWTSVARLVRGQFLQLREMQYVEAARAIGVSHWGIITRHLIRNAMA 227 Query: 181 PIIVNATLMVGGAILSESALSYLGLGIQAPATSWGLMLSNAQEFMLIDPLQAVYPGLCIL 240 PIIV ATLMVG AILSES LSYLGLGIQ P TSWGLMLS AQEFML+DPLQA+YPGLCIL Sbjct: 228 PIIVYATLMVGSAILSESGLSYLGLGIQPPETSWGLMLSKAQEFMLVDPLQALYPGLCIL 287 Query: 241 LVVLAVNFIGDGIRDGLDPRQQLTKSRRRLDKWRKNYSK 279 LVVLAVNF+GDGIRD DPR + +RRL+KW SK Sbjct: 288 LVVLAVNFVGDGIRDAFDPRNKKKNPKRRLNKWNATSSK 326 >A5G374.1 A5G374_GEOUR Binding-protein-dependent transport systems inner membrane component Length = 280 Score = 225 bits (574), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 116/262 (44%), Positives = 166/262 (63%), Gaps = 1/262 (0%) Query: 1 MSGLVVLLFFIVIAALAPFLTKYKPEAIDLMFANLKPGVDGHLLGTDELGRDILTRLLYS 60 ++G V+L V + +APF+T Y P+AID + L P H GTDELGRD+ TR++Y Sbjct: 19 LAGAFVVLSLFVFSFMAPFVTPYDPDAID-AYHVLLPPTGAHWFGTDELGRDVFTRVMYG 77 Query: 61 ARISLMIGXXXXXXXXXXXXXXXXXXXXXXXWVDTVFMRIVDVMNSVPTLFLNILVLAIF 120 ARISL +G W+DT+ MR VD+M PT FL + V+A+ Sbjct: 78 ARISLKVGFVAVGIAVLVGTVVGLVAGFYGGWIDTILMRFVDIMLCFPTFFLILAVIAML 137 Query: 121 GSRMEYMIMILALTSWMSIARLVRGNFLQLREMQYVEAAKAIGVSSWGIIFRHLLRNASF 180 + Y+++I+ LT WM +ARLVR L LRE +V AA+A+G S IIFRH+ NA Sbjct: 138 EPSIWYIMIIIGLTGWMGVARLVRAEVLSLRERDFVLAARALGASDLRIIFRHIFPNAMS 197 Query: 181 PIIVNATLMVGGAILSESALSYLGLGIQAPATSWGLMLSNAQEFMLIDPLQAVYPGLCIL 240 P++V+ATL V GAIL+ESALS+LG+G+Q P SWG +L++ ++++ +++PGL IL Sbjct: 198 PVLVSATLGVAGAILTESALSFLGIGVQPPTPSWGNILTSGKDYIEFAWWLSLFPGLAIL 257 Query: 241 LVVLAVNFIGDGIRDGLDPRQQ 262 + VL+ N +G+GIRD LDPR + Sbjct: 258 VTVLSYNLLGEGIRDALDPRLK 279 >Q65LC8.1 Q65LC8_BACLD Oligopeptide ABC transporter (Permease) Length = 304 Score = 223 bits (569), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 123/261 (47%), Positives = 166/261 (63%), Gaps = 8/261 (3%) Query: 6 VLLFFIVIAAL-APFLTKYKPEAIDLMFANLKPGVDGHLLGTDELGRDILTRLLYSARIS 64 VLLF I+++A+ AP + Y PE +L+ LKP HL+GTD+ GRDI +RLLY AR+S Sbjct: 45 VLLFIIILSAIFAPVIAPYPPEQQNLL-NKLKPPSGEHLMGTDKFGRDIFSRLLYGARVS 103 Query: 65 LMIGXXXXXXXXXXXXXXXXXXXXXXXWVDTVFMRIVDVMNSVPTLFLNILVLAIFGSRM 124 L++G +D + MR+VD++ S+P +FL I ++ IF + Sbjct: 104 LLVGFASVLGSITIGTVVGAIAGYFGGIIDAIMMRLVDIVLSIPDIFLLITLVTIFQPGI 163 Query: 125 EYMIMILALTSWMSIARLVRGNFLQLREMQYVEAAKAIGVSSWGIIFRHLLRNASFPIIV 184 + +I+I ALT W + ARLVR FL LR ++V AAK IG ++ IIF H+L NA PIIV Sbjct: 164 DKLILIFALTRWTTTARLVRSEFLSLRSREFVLAAKTIGTRNYKIIFSHILPNAMGPIIV 223 Query: 185 NATLMVGGAILSESALSYLGLGIQAPATSWGLMLSNAQEFMLIDPLQA----VYPGLCIL 240 ATL VG IL+ESALSYLG G+Q P SWG ML +AQ F ++ +QA ++PGL IL Sbjct: 224 AATLSVGTVILAESALSYLGFGVQPPMASWGNMLQDAQNFTIM--IQAWWYPLFPGLMIL 281 Query: 241 LVVLAVNFIGDGIRDGLDPRQ 261 L VL NF+GDG+RD LDP+ Sbjct: 282 LTVLCFNFLGDGLRDALDPKN 302 >P42063.1 APPC_BACSU Oligopeptide transport system permease protein appC Length = 303 Score = 222 bits (566), Expect = 3e-56, Method: Compositional matrix adjust. Identities = 122/263 (46%), Positives = 162/263 (61%), Gaps = 7/263 (2%) Query: 3 GLVVLLFFIVIAALAPFLTKYKPEAIDLMFANLKPGVDGHLLGTDELGRDILTRLLYSAR 62 G V+L I+ A AP + Y E L+ PG++ HL+GTD+ GRDI +R+LY AR Sbjct: 42 GAVILFIIIMSAVFAPLIAPYPQEQQSLLDKYKAPGLE-HLMGTDKFGRDIFSRILYGAR 100 Query: 63 ISLMIGXXXXXXXXXXXXXXXXXXXXXXXWVDTVFMRIVDVMNSVPTLFLNILVLAIFGS 122 +SL++G VD V MR+VD++ S+P +FL I ++ IF Sbjct: 101 VSLLVGFASVVGSILIGTVLGALAGYFRGIVDAVIMRVVDIVLSIPDIFLLITLVTIFKP 160 Query: 123 RMEYMIMILALTSWMSIARLVRGNFLQLREMQYVEAAKAIGVSSWGIIFRHLLRNASFPI 182 ++ +I+I LT W + ARLVRG FL LR +YV AAK IG + IIF H+L NA PI Sbjct: 161 GVDKLILIFCLTGWTTTARLVRGEFLSLRSREYVLAAKTIGTKTHKIIFSHILPNALGPI 220 Query: 183 IVNATLMVGGAILSESALSYLGLGIQAPATSWGLMLSNAQEFMLIDPLQA----VYPGLC 238 IV+ATL VG IL+ESALSYLG GIQ P SWG ML +AQ F ++ +QA ++PGL Sbjct: 221 IVSATLKVGSVILAESALSYLGFGIQPPIASWGNMLQDAQNFTVM--IQAWWYPLFPGLF 278 Query: 239 ILLVVLAVNFIGDGIRDGLDPRQ 261 IL+ VL NF+GDG+RD LDP+ Sbjct: 279 ILMTVLCFNFVGDGLRDALDPKN 301 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 0.328 0.142 0.421 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: 1,415,760,520 Number of extensions: 49944464 Number of successful extensions: 204018 Number of sequences better than 1.0e-05: 6553 Number of HSP's gapped: 195422 Number of HSP's successfully gapped: 6561 Length of query: 282 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 148 Effective length of database: 1,798,280,193 Effective search space: 266145468564 Effective search space used: 266145468564 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: 130 (54.7 bits)