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= 0088.0005.p (303 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1HNQ0.1 B1HNQ0_LYSSC High-affinity branched-chain amino acid tr... 316 2e-84 Q5KVM2.1 Q5KVM2_GEOKA Branched-chain amino acid ABC transporter ... 309 2e-82 C3IYE1.1 C3IYE1_9BACI Inner-membrane translocator 308 5e-82 B7Y8I6.1 B7Y8I6_9BACI Inner-membrane translocator 308 5e-82 A4ISH0.1 A4ISH0_GEOTN Branched-chain amino acid ABC transporter ... 302 3e-80 >B1HNQ0.1 B1HNQ0_LYSSC High-affinity branched-chain amino acid transport system permease protein Length = 291 Score = 316 bits (809), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 170/302 (56%), Positives = 203/302 (67%), Gaps = 12/302 (3%) Query: 3 MEYFIQQLINGISVGSIYALIALGYTMVYGIIKLINFAHGDVFMVGSFIGLYS-AKYLTD 61 ME+ IQQL+NGIS+GSIYALIALGYTMVYGIIKLINFAHGDVFM+GSFIG Y+ AK+ + Sbjct: 1 MEW-IQQLVNGISLGSIYALIALGYTMVYGIIKLINFAHGDVFMIGSFIGFYAIAKW--E 57 Query: 62 AGFPPXXXXXXXXXXXXXXXALLGITIERLAYKPLRKSTRIAALITAIGVSFLLEYTGVL 121 GF P A+ G+ IER+AYK LR +TRIAALITAIGVS L+EYT + Sbjct: 58 LGFFPALLLAMLIC------AIFGVLIERIAYKRLRNATRIAALITAIGVSLLIEYTTIF 111 Query: 122 ILGPQAQGFPDIMDKKQFTLFGSSIQVESNQVXXXXXXXXXXXXXQYIVRFTKTGKAMRA 181 G Q +P++ K F + G +Q+ S + Q+IV TK GKAMRA Sbjct: 112 FRGAQPAAYPEVFKNKSFDILG--VQISSTSILILSVAVVLMILLQFIVHKTKIGKAMRA 169 Query: 182 VSFDVEAARLMGINVDRTISXXXXXXXXXXXXXGVIFGMTYNSVDPLMGVMPGLKAFVAA 241 VS D +AARLMGINVD TIS GVIFG+ Y +DPLMGV+PG+KAF+AA Sbjct: 170 VSHDADAARLMGINVDNTISATFAIGSALAGAAGVIFGVYYTKIDPLMGVIPGVKAFIAA 229 Query: 242 VLGGIGSIPXXXXXXXXXXTVETEISSLGFSSWRDGVAFAVLILILIFKPSGLFGKNVRE 301 VLGGIG IP VE+ +S+LGFS WRD AF +LILILIF+PSG+FGKN RE Sbjct: 230 VLGGIGIIPGAMVGGMLLGVVESLVSALGFSLWRDAAAFVILILILIFRPSGIFGKNARE 289 Query: 302 KV 303 KV Sbjct: 290 KV 291 >Q5KVM2.1 Q5KVM2_GEOKA Branched-chain amino acid ABC transporter (Permease) Length = 292 Score = 309 bits (791), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 164/299 (54%), Positives = 198/299 (66%), Gaps = 10/299 (3%) Query: 6 FIQQLINGISVGSIYALIALGYTMVYGIIKLINFAHGDVFMVGSFIGLYSAKYLTDAGFP 65 IQQL+NGIS+GSIYALIALGYTMVYGI++LINFAHGDVFMVGSF+G Y+ L FP Sbjct: 3 LIQQLVNGISLGSIYALIALGYTMVYGIVRLINFAHGDVFMVGSFVGFYAVTMLGVGFFP 62 Query: 66 PXXXXXXXXXXXXXXXALLGITIERLAYKPLRKSTRIAALITAIGVSFLLEYTGVLILGP 125 A+LG+ IER+AYKPLR + RIA LITAIGVS L+EY + + G Sbjct: 63 ALLLAMASC-------AVLGMIIERIAYKPLRNAARIAVLITAIGVSLLIEYVTIYLRGA 115 Query: 126 QAQGFPD-IMDKKQFTLFGSSIQVESNQVXXXXXXXXXXXXXQYIVRFTKTGKAMRAVSF 184 Q + +P ++ + LFG + + S + Q+IV TK GKAMRAVS Sbjct: 116 QPEAYPSTLLPDRNLKLFG--VVISSQSLFILGTSLVLMILLQFIVHRTKIGKAMRAVSH 173 Query: 185 DVEAARLMGINVDRTISXXXXXXXXXXXXXGVIFGMTYNSVDPLMGVMPGLKAFVAAVLG 244 D EAARLMGINVD TIS GVIFG+ Y ++PLMG++PGLKAFVAAVLG Sbjct: 174 DAEAARLMGINVDNTISATFAIGSALAGAAGVIFGIYYTKIEPLMGILPGLKAFVAAVLG 233 Query: 245 GIGSIPXXXXXXXXXXTVETEISSLGFSSWRDGVAFAVLILILIFKPSGLFGKNVREKV 303 GIG IP +E+ +S LG+S WRDGVAF +LILILIF+P+GLFGKNVREKV Sbjct: 234 GIGIIPGAMVGGLLLGVIESLVSGLGYSLWRDGVAFVILILILIFRPAGLFGKNVREKV 292 >C3IYE1.1 C3IYE1_9BACI Inner-membrane translocator Length = 292 Score = 308 bits (788), Expect = 5e-82, Method: Compositional matrix adjust. Identities = 164/299 (54%), Positives = 198/299 (66%), Gaps = 10/299 (3%) Query: 6 FIQQLINGISVGSIYALIALGYTMVYGIIKLINFAHGDVFMVGSFIGLYSAKYLTDAGFP 65 IQQL+NGIS+GSIYALIALGYTMVYGI++LINFAHGDVFMVGSF+G Y+ L GF Sbjct: 3 LIQQLVNGISLGSIYALIALGYTMVYGIVRLINFAHGDVFMVGSFVGFYAVTML-HVGFV 61 Query: 66 PXXXXXXXXXXXXXXXALLGITIERLAYKPLRKSTRIAALITAIGVSFLLEYTGVLILGP 125 P A+LG+ IER+AYKPLR + RIA LITAIGVS L+EY + + G Sbjct: 62 PALLLAMASC------AVLGMIIERIAYKPLRNAARIAVLITAIGVSLLIEYITIYLRGA 115 Query: 126 QAQGFPD-IMDKKQFTLFGSSIQVESNQVXXXXXXXXXXXXXQYIVRFTKTGKAMRAVSF 184 Q + +P ++ + LFG + + S + Q+IV TK GKAMRAVS Sbjct: 116 QPEAYPSTLLPDRNLELFG--VVISSQSLFILGTSLVLMVLLQFIVHRTKIGKAMRAVSH 173 Query: 185 DVEAARLMGINVDRTISXXXXXXXXXXXXXGVIFGMTYNSVDPLMGVMPGLKAFVAAVLG 244 D EAARLMGINVD TIS GVIFG+ Y ++PLMG++PGLKAFVAAVLG Sbjct: 174 DAEAARLMGINVDNTISATFAIGSALAGAAGVIFGIYYTKIEPLMGILPGLKAFVAAVLG 233 Query: 245 GIGSIPXXXXXXXXXXTVETEISSLGFSSWRDGVAFAVLILILIFKPSGLFGKNVREKV 303 GIG IP +E+ +S LG+S WRDG AF +LILILIF+P+GLFGKNVREKV Sbjct: 234 GIGIIPGAMVGGLLLGVIESLVSGLGYSLWRDGAAFVILILILIFRPAGLFGKNVREKV 292 >B7Y8I6.1 B7Y8I6_9BACI Inner-membrane translocator Length = 292 Score = 308 bits (788), Expect = 5e-82, Method: Compositional matrix adjust. Identities = 164/299 (54%), Positives = 198/299 (66%), Gaps = 10/299 (3%) Query: 6 FIQQLINGISVGSIYALIALGYTMVYGIIKLINFAHGDVFMVGSFIGLYSAKYLTDAGFP 65 IQQL+NGIS+GSIYALIALGYTMVYGI++LINFAHGDVFMVGSF+G Y+ L GF Sbjct: 3 LIQQLVNGISLGSIYALIALGYTMVYGIVRLINFAHGDVFMVGSFVGFYAVTML-HVGFV 61 Query: 66 PXXXXXXXXXXXXXXXALLGITIERLAYKPLRKSTRIAALITAIGVSFLLEYTGVLILGP 125 P A+LG+ IER+AYKPLR + RIA LITAIGVS L+EY + + G Sbjct: 62 PALLLAMASC------AVLGMIIERIAYKPLRNAARIAVLITAIGVSLLIEYITIYLRGA 115 Query: 126 QAQGFPD-IMDKKQFTLFGSSIQVESNQVXXXXXXXXXXXXXQYIVRFTKTGKAMRAVSF 184 Q + +P ++ + LFG + + S + Q+IV TK GKAMRAVS Sbjct: 116 QPEAYPSTLLPDRNLELFG--VVISSQSLFILGTSLVLMVLLQFIVHRTKIGKAMRAVSH 173 Query: 185 DVEAARLMGINVDRTISXXXXXXXXXXXXXGVIFGMTYNSVDPLMGVMPGLKAFVAAVLG 244 D EAARLMGINVD TIS GVIFG+ Y ++PLMG++PGLKAFVAAVLG Sbjct: 174 DAEAARLMGINVDNTISATFAIGSALAGAAGVIFGIYYTKIEPLMGILPGLKAFVAAVLG 233 Query: 245 GIGSIPXXXXXXXXXXTVETEISSLGFSSWRDGVAFAVLILILIFKPSGLFGKNVREKV 303 GIG IP +E+ +S LG+S WRDG AF +LILILIF+P+GLFGKNVREKV Sbjct: 234 GIGIIPGAMVGGLLLGVIESLVSGLGYSLWRDGAAFVILILILIFRPAGLFGKNVREKV 292 >A4ISH0.1 A4ISH0_GEOTN Branched-chain amino acid ABC transporter (Permease) Length = 292 Score = 302 bits (773), Expect = 3e-80, Method: Compositional matrix adjust. Identities = 167/299 (55%), Positives = 201/299 (67%), Gaps = 10/299 (3%) Query: 6 FIQQLINGISVGSIYALIALGYTMVYGIIKLINFAHGDVFMVGSFIGLYSAKYLTDAGFP 65 IQQL+NGIS+GSIYALIALGYTMVYGI++LINFAHGDVFM+GSF+G Y+ L FP Sbjct: 3 LIQQLVNGISLGSIYALIALGYTMVYGIVRLINFAHGDVFMIGSFVGFYAVTMLGVGFFP 62 Query: 66 PXXXXXXXXXXXXXXXALLGITIERLAYKPLRKSTRIAALITAIGVSFLLEYTGVLILGP 125 A+LG+TIER+AYKPLR +TRIA LITAIGVS L+EY + + G Sbjct: 63 ALLLAMAVC-------AVLGMTIERIAYKPLRNATRIAVLITAIGVSLLIEYVMIYLRGA 115 Query: 126 QAQGFP-DIMDKKQFTLFGSSIQVESNQVXXXXXXXXXXXXXQYIVRFTKTGKAMRAVSF 184 Q + +P ++ K+ LFG + + S + Q+IV TK GKAMRAVS Sbjct: 116 QPEAYPGTLLPKQNLELFG--VVISSQSLFILGTSLVLMILLQFIVHRTKIGKAMRAVSH 173 Query: 185 DVEAARLMGINVDRTISXXXXXXXXXXXXXGVIFGMTYNSVDPLMGVMPGLKAFVAAVLG 244 D EAARLMGINVD TIS GVIFG+ Y +DPLMG++PGLKAFVAAVLG Sbjct: 174 DAEAARLMGINVDNTISATFAIGSALAGAAGVIFGIYYTKIDPLMGILPGLKAFVAAVLG 233 Query: 245 GIGSIPXXXXXXXXXXTVETEISSLGFSSWRDGVAFAVLILILIFKPSGLFGKNVREKV 303 GIG IP +E+ +S LG+S WRDGVAF +LILILIF+P+GLFGKNVREKV Sbjct: 234 GIGIIPGAMVGGLLLGVIESLVSGLGYSLWRDGVAFIILILILIFRPAGLFGKNVREKV 292 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 0.326 0.142 0.406 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: 1,357,005,620 Number of extensions: 44427217 Number of successful extensions: 147516 Number of sequences better than 1.0e-05: 2527 Number of HSP's gapped: 142270 Number of HSP's successfully gapped: 2558 Length of query: 303 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 168 Effective length of database: 1,788,859,178 Effective search space: 300528341904 Effective search space used: 300528341904 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)