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= 0260.0008.p (137 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KEU3.1 B3KEU3_9BACI Binding-protein-dependent transport system... 234 2e-60 C0ZJM9.1 C0ZJM9_BREBN ABC transporter permease protein 227 2e-58 Q5WAL4.1 Q5WAL4_BACSK Oligopeptide ABC transporter permease 216 4e-55 B3K8R1.1 B3K8R1_9BACI Binding-protein-dependent transport system... 209 7e-53 Q97ED3.1 Q97ED3_CLOAB Oligopeptide ABC transporter, permease com... 201 2e-50 >B3KEU3.1 B3KEU3_9BACI Binding-protein-dependent transport systems inner membrane component Length = 317 Score = 234 bits (597), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 108/137 (78%), Positives = 127/137 (92%) Query: 1 VVRHMALPVVVMTLLGLGSLTRYFRSNMIDVLKQDYIRTARAKGLKERKVLFRHALRNAL 60 V+ HM LP VM LLG+GSLTRYFRSNM++V++QDY+RTARAKGLKER VL+RHAL+NA+ Sbjct: 181 VLHHMLLPAAVMILLGVGSLTRYFRSNMLEVIRQDYVRTARAKGLKERTVLYRHALKNAM 240 Query: 61 LPAITLVGFELPALFGGSLIIEQIFNWPGIGQLYMKSFGLRDYPLLMGFTMFIAILTVIG 120 LPAITL+GFELP LFGGS+IIE+IFNWPGIGQLYM+SF +RDYPLLMGFTMF+AILTV+G Sbjct: 241 LPAITLIGFELPGLFGGSIIIEKIFNWPGIGQLYMQSFTVRDYPLLMGFTMFLAILTVVG 300 Query: 121 TLLSDILYRVADPRVRL 137 TL+SDILY +DPRVRL Sbjct: 301 TLISDILYHTSDPRVRL 317 >C0ZJM9.1 C0ZJM9_BREBN ABC transporter permease protein Length = 318 Score = 227 bits (579), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 104/137 (75%), Positives = 128/137 (93%) Query: 1 VVRHMALPVVVMTLLGLGSLTRYFRSNMIDVLKQDYIRTARAKGLKERKVLFRHALRNAL 60 VV+HM LPV V+TLL +G+LTRYFR+NM++V++QD++RTARAKGLKE+ VL +HALRNAL Sbjct: 181 VVQHMFLPVTVLTLLSVGTLTRYFRTNMLEVIQQDFVRTARAKGLKEKVVLHKHALRNAL 240 Query: 61 LPAITLVGFELPALFGGSLIIEQIFNWPGIGQLYMKSFGLRDYPLLMGFTMFIAILTVIG 120 LPAITL+GFELPALFGG++I E+IFNWPG+GQLYM++F +RDYPLLMGFTMF+AILTVIG Sbjct: 241 LPAITLLGFELPALFGGAIITEKIFNWPGVGQLYMQAFSVRDYPLLMGFTMFLAILTVIG 300 Query: 121 TLLSDILYRVADPRVRL 137 L +D+LYRVADPRVRL Sbjct: 301 NLSADLLYRVADPRVRL 317 >Q5WAL4.1 Q5WAL4_BACSK Oligopeptide ABC transporter permease Length = 318 Score = 216 bits (551), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 98/137 (71%), Positives = 124/137 (90%) Query: 1 VVRHMALPVVVMTLLGLGSLTRYFRSNMIDVLKQDYIRTARAKGLKERKVLFRHALRNAL 60 V+ HM LPV+V+T+LG+G LTRYFR+NM++V+KQD+IRTARAKGL+E+ V+++HALRNAL Sbjct: 181 VLEHMILPVLVLTMLGIGGLTRYFRTNMLEVIKQDFIRTARAKGLREKVVVYKHALRNAL 240 Query: 61 LPAITLVGFELPALFGGSLIIEQIFNWPGIGQLYMKSFGLRDYPLLMGFTMFIAILTVIG 120 LPAITL FELPALF G++I EQIFNWPGIG +YM++F +RDYPLLMGFTMFIA+LTVI Sbjct: 241 LPAITLFAFELPALFSGAIITEQIFNWPGIGAIYMQAFSVRDYPLLMGFTMFIAVLTVIS 300 Query: 121 TLLSDILYRVADPRVRL 137 L++D+LY VADPRVR+ Sbjct: 301 NLIADLLYGVADPRVRV 317 >B3K8R1.1 B3K8R1_9BACI Binding-protein-dependent transport systems inner membrane component Length = 320 Score = 209 bits (532), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 92/137 (67%), Positives = 123/137 (89%) Query: 1 VVRHMALPVVVMTLLGLGSLTRYFRSNMIDVLKQDYIRTARAKGLKERKVLFRHALRNAL 60 + HM LPV V+T+L GSLTRYFR++M++V++QDYIRTARAKGLKER V+F+HALRNA+ Sbjct: 183 IAWHMFLPVTVLTMLSTGSLTRYFRTSMLEVIRQDYIRTARAKGLKERTVIFKHALRNAM 242 Query: 61 LPAITLVGFELPALFGGSLIIEQIFNWPGIGQLYMKSFGLRDYPLLMGFTMFIAILTVIG 120 LPAITL+GFELPALFGG++I+E+IF WPG+GQ+Y++S +RDYP ++GFT+FI++LT++G Sbjct: 243 LPAITLMGFELPALFGGAIIMEKIFIWPGVGQVYLESINMRDYPFMLGFTVFISVLTLLG 302 Query: 121 TLLSDILYRVADPRVRL 137 LLSD+LY ADPR+RL Sbjct: 303 NLLSDVLYGTADPRIRL 319 >Q97ED3.1 Q97ED3_CLOAB Oligopeptide ABC transporter, permease component Length = 318 Score = 201 bits (511), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 89/137 (64%), Positives = 115/137 (83%) Query: 1 VVRHMALPVVVMTLLGLGSLTRYFRSNMIDVLKQDYIRTARAKGLKERKVLFRHALRNAL 60 V+RHM LPV ++T L +GSLTRYFRS+M+DVLKQD+IRTARA GLKERK++F+HAL+NA+ Sbjct: 181 VIRHMILPVGILTFLSIGSLTRYFRSSMLDVLKQDFIRTARANGLKERKIIFKHALKNAI 240 Query: 61 LPAITLVGFELPALFGGSLIIEQIFNWPGIGQLYMKSFGLRDYPLLMGFTMFIAILTVIG 120 LPAITL+ FELP LF G++I EQIFNWPGIG++ +++ RDYP+LM FTM ++ LT+ G Sbjct: 241 LPAITLLSFELPGLFSGAIITEQIFNWPGIGRIQLEALSFRDYPVLMTFTMLLSFLTIFG 300 Query: 121 TLLSDILYRVADPRVRL 137 +DILY ADPR+RL Sbjct: 301 NFCADILYAAADPRIRL 317 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 0.332 0.148 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: 744,240,351 Number of extensions: 27198747 Number of successful extensions: 119886 Number of sequences better than 1.0e-05: 5979 Number of HSP's gapped: 119274 Number of HSP's successfully gapped: 5979 Length of query: 137 Length of database: 3,060,696,203 Length adjustment: 101 Effective length of query: 36 Effective length of database: 2,109,173,688 Effective search space: 75930252768 Effective search space used: 75930252768 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 (21.9 bits) S2: 125 (52.8 bits)