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= 0342.0004.p (323 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1DIZ7.1 B1DIZ7_9BACL Binding-protein-dependent transport system... 491 e-137 C0Z5Q8.1 C0Z5Q8_BREBN Oligopeptide ABC transporter permease protein 471 e-131 P42062.2 APPB_BACSU Oligopeptide transport system permease prote... 287 1e-75 B4AFB3.1 B4AFB3_BACPU Oligopeptide transport system permease pro... 286 2e-75 A7Z3C7.1 A7Z3C7_BACA2 AppB 285 5e-75 >B1DIZ7.1 B1DIZ7_9BACL Binding-protein-dependent transport systems inner membrane component Length = 323 Score = 491 bits (1263), Expect = e-137, Method: Compositional matrix adjust. Identities = 227/323 (70%), Positives = 279/323 (86%) Query: 1 MTEYLIRRVLQSXXXXXXXXXXXXXXXHAAPGGPTQMMLSPGLSPEVFKQQAHNLGLDQP 60 MTE++IRR LQS HAAPGGP Q+ML+PGLSPE + QAHN+GLD+P Sbjct: 1 MTEFIIRRTLQSVLVLFLITLVTFGLIHAAPGGPFQIMLAPGLSPEAMEIQAHNMGLDKP 60 Query: 61 VPVQYVRWISGLLQGDLGYTFKNHLPVADLLWPRIGNTFILMGAAWLLSLIIAIPWGIYN 120 +P+QY+ W+ LLQGDLGYTFKNH+P+ +++WP + NTFILM AWLL+LIIAIPWGIYN Sbjct: 61 LPMQYLSWLGNLLQGDLGYTFKNHVPIGEIIWPTVKNTFILMSVAWLLTLIIAIPWGIYN 120 Query: 121 STKVYGLSDQSASFISYLGFAMPTFWFGILLQQWFSLKLNWFPLSDMHTRGKEGDIGDLL 180 STK Y LSDQ+ASFISY+GFAMPTFWFGI+LQQ FS+KL+ PL+DM++ KEG GDL+ Sbjct: 121 STKEYSLSDQTASFISYIGFAMPTFWFGIILQQIFSIKLDLLPLADMYSMDKEGQFGDLM 180 Query: 181 MHLVLPVTVLSLGFLASYMKYARASMLEVLDQDYIRTARAKGVKERKVVFHHALRNALIP 240 +HL+LPVTVL+LGFLA+Y+KY+R+SM+EVL+QDYIRTARAKGV+E KV++ HALRNALIP Sbjct: 181 LHLILPVTVLTLGFLAAYVKYSRSSMMEVLNQDYIRTARAKGVQEGKVIYKHALRNALIP 240 Query: 241 IITILGLDLPILVAGAALTESVFNWPGMGRWFVQMASEREYSVLMAITIVTAVMVVLGNL 300 IITI+ LDLP+LVAGAA+TESVFNWPGMGR FVQMA REYSVLMAIT++TAV+V+ GNL Sbjct: 241 IITIIALDLPLLVAGAAITESVFNWPGMGRLFVQMAVAREYSVLMAITLLTAVIVIFGNL 300 Query: 301 LADILYAIVDPRVKLGKQGGKAA 323 LAD+LYA+VDPRV+LGK+GG++A Sbjct: 301 LADLLYAVVDPRVQLGKRGGRSA 323 >C0Z5Q8.1 C0Z5Q8_BREBN Oligopeptide ABC transporter permease protein Length = 323 Score = 471 bits (1213), Expect = e-131, Method: Compositional matrix adjust. Identities = 219/323 (67%), Positives = 274/323 (84%) Query: 1 MTEYLIRRVLQSXXXXXXXXXXXXXXXHAAPGGPTQMMLSPGLSPEVFKQQAHNLGLDQP 60 MTEYL+RRVLQ+ HAAPGGP ++MLSPG+SPE Q N+GLDQP Sbjct: 1 MTEYLVRRVLQAVLVLFLITVVSFGLMHAAPGGPLKVMLSPGMSPEAQLIQMKNMGLDQP 60 Query: 61 VPVQYVRWISGLLQGDLGYTFKNHLPVADLLWPRIGNTFILMGAAWLLSLIIAIPWGIYN 120 V +QY++W+ LLQGDLG+TFKN++PV D+LWP + NTF+LM AW LS++IAIPWGIYN Sbjct: 61 VYIQYMKWVGNLLQGDLGHTFKNNVPVGDILWPTVWNTFVLMSVAWGLSMLIAIPWGIYN 120 Query: 121 STKVYGLSDQSASFISYLGFAMPTFWFGILLQQWFSLKLNWFPLSDMHTRGKEGDIGDLL 180 STK YGLSDQ AS ++YLGFAMPTFWFGI+LQQ+F+++LN PLSDM+T GKEG I DL+ Sbjct: 121 STKQYGLSDQIASIVAYLGFAMPTFWFGIMLQQYFAMQLNLLPLSDMYTMGKEGQISDLI 180 Query: 181 MHLVLPVTVLSLGFLASYMKYARASMLEVLDQDYIRTARAKGVKERKVVFHHALRNALIP 240 +HL+LPVTVL+L +A+Y+KY RASMLE L+QDYIRTARAKG+KER+V+F HALRNALIP Sbjct: 181 LHLILPVTVLTLVNIAAYVKYTRASMLEALEQDYIRTARAKGMKERRVIFRHALRNALIP 240 Query: 241 IITILGLDLPILVAGAALTESVFNWPGMGRWFVQMASEREYSVLMAITIVTAVMVVLGNL 300 ++TI+GLDLP LVAGAALTESVFNWPGMGR FV+MA REYSVLM+IT++ ++MV++GNL Sbjct: 241 VVTIIGLDLPTLVAGAALTESVFNWPGMGRLFVEMAVAREYSVLMSITLLISLMVIIGNL 300 Query: 301 LADILYAIVDPRVKLGKQGGKAA 323 LAD++YA+VDPRV+LG++GG+AA Sbjct: 301 LADLIYALVDPRVQLGRKGGRAA 323 >P42062.2 APPB_BACSU Oligopeptide transport system permease protein appB Length = 316 Score = 287 bits (734), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 137/315 (43%), Positives = 206/315 (65%), Gaps = 1/315 (0%) Query: 1 MTEYLIRRVLQSXXXXXXXXXXXXXXXHAAPGGPTQMMLSPGLSPEVFKQQAHNLGLDQP 60 M Y+IRR L S AAPG P +M+ P +S +Q GL+ P Sbjct: 1 MAAYIIRRTLMSIPILLGITILSFVIMKAAPGDPMTLMMDPKISQADREQFIEKYGLNDP 60 Query: 61 VPVQYVRWISGLLQGDLGYTF-KNHLPVADLLWPRIGNTFILMGAAWLLSLIIAIPWGIY 119 VQY++W+ ++QGD G + + PV++L+ R+ NT +LM + +L+L+I+IP+G+ Sbjct: 61 QYVQYLKWLGNMVQGDFGTSIVRKGTPVSELIMARLPNTLLLMLVSTILALMISIPFGVL 120 Query: 120 NSTKVYGLSDQSASFISYLGFAMPTFWFGILLQQWFSLKLNWFPLSDMHTRGKEGDIGDL 179 ++ + Y D +F S++G A+P FWFG++L S+ L WFP + T E +I D Sbjct: 121 SAKRPYSKIDYGITFTSFIGLAIPNFWFGLILIMVLSVNLGWFPTGGVETLNTEFNIFDR 180 Query: 180 LMHLVLPVTVLSLGFLASYMKYARASMLEVLDQDYIRTARAKGVKERKVVFHHALRNALI 239 + HL+LP VL+ +A +Y R++ML+VL+QDYIRTARAKG KE +V+F H LRNAL+ Sbjct: 181 IHHLILPAFVLATADMAGLTRYTRSNMLDVLNQDYIRTARAKGFKENRVLFKHGLRNALL 240 Query: 240 PIITILGLDLPILVAGAALTESVFNWPGMGRWFVQMASEREYSVLMAITIVTAVMVVLGN 299 P+ITI GL +P + G+ + E +F WPG+G+ FV A +R+Y V+MA+T+++AV+VV+GN Sbjct: 241 PVITIFGLMIPSFIGGSVVVEQIFTWPGLGKLFVDSAFQRDYPVIMAMTVISAVLVVVGN 300 Query: 300 LLADILYAIVDPRVK 314 L+ADILYAIVDPR++ Sbjct: 301 LIADILYAIVDPRIE 315 >B4AFB3.1 B4AFB3_BACPU Oligopeptide transport system permease protein AppB Length = 316 Score = 286 bits (732), Expect = 2e-75, Method: Compositional matrix adjust. Identities = 139/315 (44%), Positives = 203/315 (64%), Gaps = 1/315 (0%) Query: 1 MTEYLIRRVLQSXXXXXXXXXXXXXXXHAAPGGPTQMMLSPGLSPEVFKQQAHNLGLDQP 60 M Y+IRR L S AAPG P +M+ P +S + GL+ P Sbjct: 1 MVTYIIRRTLLSIPILFGITILSFAIMKAAPGDPMSLMMDPTISAADREAFIDKYGLNDP 60 Query: 61 VPVQYVRWISGLLQGDLGYTF-KNHLPVADLLWPRIGNTFILMGAAWLLSLIIAIPWGIY 119 +QY++W+ +LQGD G + K PVADL++ R+ NT ILM + L++LIIAIP+G+ Sbjct: 61 EYMQYMKWLGNMLQGDFGTSIVKKGTPVADLIFARLPNTLILMIFSTLVALIIAIPFGVL 120 Query: 120 NSTKVYGLSDQSASFISYLGFAMPTFWFGILLQQWFSLKLNWFPLSDMHTRGKEGDIGDL 179 ++ + Y D +F S++G A+P FWFG++L S+ L WFP + T + ++ D Sbjct: 121 SAKRPYTKLDYGITFTSFIGLAIPNFWFGLILIMVLSVNLGWFPTGGVSTLNADFNVFDR 180 Query: 180 LMHLVLPVTVLSLGFLASYMKYARASMLEVLDQDYIRTARAKGVKERKVVFHHALRNALI 239 L H++LP VL+ +A +Y R+SML+V+ QDYIRTARAKG +E KV+F H LRN L+ Sbjct: 181 LHHIILPAFVLATADMAGLTRYTRSSMLDVMRQDYIRTARAKGFRENKVIFKHGLRNGLM 240 Query: 240 PIITILGLDLPILVAGAALTESVFNWPGMGRWFVQMASEREYSVLMAITIVTAVMVVLGN 299 P+ITI GL +P + GA + E +F WPG+G+ F+ A R+Y V+MA+T+++AV+VV+GN Sbjct: 241 PVITIFGLMIPSFIGGAVVVEQIFTWPGLGKLFIDSAFSRDYPVIMAMTVISAVLVVVGN 300 Query: 300 LLADILYAIVDPRVK 314 L+ADILYAIVDPR++ Sbjct: 301 LIADILYAIVDPRIE 315 >A7Z3C7.1 A7Z3C7_BACA2 AppB Length = 316 Score = 285 bits (728), Expect = 5e-75, Method: Compositional matrix adjust. Identities = 137/315 (43%), Positives = 202/315 (64%), Gaps = 1/315 (0%) Query: 1 MTEYLIRRVLQSXXXXXXXXXXXXXXXHAAPGGPTQMMLSPGLSPEVFKQQAHNLGLDQP 60 M Y++RR L S AAPG P +M+ P +S + GL+ P Sbjct: 1 MVTYILRRTLMSLPILLGITILSFAIMKAAPGDPMSLMMDPTISQADRAKFIEKYGLNDP 60 Query: 61 VPVQYVRWISGLLQGDLGYTF-KNHLPVADLLWPRIGNTFILMGAAWLLSLIIAIPWGIY 119 PVQYV+W+ +LQGD G + K PV++L+ R+ NT +LM + L++L+I+IP+G+ Sbjct: 61 EPVQYVKWLGNMLQGDFGTSIVKKGTPVSELILSRLPNTIVLMLFSTLVALLISIPFGVL 120 Query: 120 NSTKVYGLSDQSASFISYLGFAMPTFWFGILLQQWFSLKLNWFPLSDMHTRGKEGDIGDL 179 ++ + Y D + S+LG A+P FWFG++L S+ L WFP + T + +I D Sbjct: 121 SAKRPYSKLDYGITVTSFLGLAIPNFWFGLILIMVLSVNLGWFPTGGVSTLNADFNIFDR 180 Query: 180 LMHLVLPVTVLSLGFLASYMKYARASMLEVLDQDYIRTARAKGVKERKVVFHHALRNALI 239 L HL+LP VL+ +A +Y R+SML+VL QDYIRTARAKG ++ KV+F H LRN L+ Sbjct: 181 LHHLILPAFVLATADMAGITRYTRSSMLDVLKQDYIRTARAKGFRDNKVIFKHGLRNGLL 240 Query: 240 PIITILGLDLPILVAGAALTESVFNWPGMGRWFVQMASEREYSVLMAITIVTAVMVVLGN 299 P+ITI GL +P + GA + E +F WPG+G+ F+ A R+Y V+MA+T+++AV+VV+GN Sbjct: 241 PVITIFGLMIPSFIGGAVVVEQIFTWPGLGKLFIDSAFSRDYPVIMAMTVISAVLVVVGN 300 Query: 300 LLADILYAIVDPRVK 314 L+ADILYA+VDPR++ Sbjct: 301 LIADILYALVDPRIE 315 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 0.325 0.140 0.436 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: 1,849,683,294 Number of extensions: 76875006 Number of successful extensions: 254795 Number of sequences better than 1.0e-05: 6046 Number of HSP's gapped: 246852 Number of HSP's successfully gapped: 6121 Length of query: 323 Length of database: 3,060,696,203 Length adjustment: 136 Effective length of query: 187 Effective length of database: 1,779,438,163 Effective search space: 332754936481 Effective search space used: 332754936481 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 131 (55.1 bits)