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= 0168.0037.p (313 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310180|ref|YP_003774272.1| TRAP-type C4-dicarboxylate tran... 540 e-155 gi|300311996|ref|YP_003776088.1| TRAP-type C4-dicarboxylate tran... 156 2e-39 gi|300310440|ref|YP_003774532.1| TrapT dctQ-M fusion permease, d... 126 2e-30 gi|300313111|ref|YP_003777203.1| TRAP-type C4-dicarboxylate tran... 110 2e-25 >gi|300310180|ref|YP_003774272.1| TRAP-type C4-dicarboxylate transport system large permease [Herbaspirillum seropedicae SmR1] Length = 426 Score = 540 bits (1392), Expect = e-155, Method: Compositional matrix adjust. Identities = 283/303 (93%), Positives = 295/303 (97%) Query: 1 MNAAIIFVLLFGLMLTGMPISISLGLTVLTFLFTMTDVPIQSVALKLFTGIEKFEIMAIP 60 MNA IIFVLLF LMLTGMPISISLGLTVLTFLFTMT+VPIQSVALKLFTGIEKFEIMAIP Sbjct: 1 MNALIIFVLLFALMLTGMPISISLGLTVLTFLFTMTEVPIQSVALKLFTGIEKFEIMAIP 60 Query: 61 FFILAGNFLTHGGVARRMINFATSMVGHWHGGLALAGVMACALFAAVSGSSPATVVAIGS 120 FFILAGNFLTHGGVARRMINFATSMVGHWHGGLALAGV+ACALFAAVSGSSPATVVAIGS Sbjct: 61 FFILAGNFLTHGGVARRMINFATSMVGHWHGGLALAGVLACALFAAVSGSSPATVVAIGS 120 Query: 121 IILPAMVRQGFPKKFGAGVITTSGALGILIPPSIVMVMYSVSTNTSVGKLFMAGVVPGLM 180 IILPAMV+QGFP +FGAGVITTSGALGILIPPSIVMVMYSVSTNTSVGKLFMAGVVPGL+ Sbjct: 121 IILPAMVKQGFPNRFGAGVITTSGALGILIPPSIVMVMYSVSTNTSVGKLFMAGVVPGLL 180 Query: 181 LALLLGLTTWYLARKHNYPRLPKASWAERGAAFRKSGWGLFLIVIVMGGIYSGAFTPTEA 240 LA LLG+TTW+LARK+NYPRL KA+WAER AAFRKSGWGLFLIVIVMGGIY+G FTPTEA Sbjct: 181 LAFLLGVTTWFLARKNNYPRLKKATWAERAAAFRKSGWGLFLIVIVMGGIYTGVFTPTEA 240 Query: 241 AAMAAVYAFIIAVFVYKDMSLKQVPKVLLDSASMSAMLLYIITNAVLFSFLVTSENIPQA 300 AAMAAVYAF IAVFVYKD++LKQVPKVLLDSASMSAMLLYIITNAVLFSFLVTSENIPQA Sbjct: 241 AAMAAVYAFFIAVFVYKDLTLKQVPKVLLDSASMSAMLLYIITNAVLFSFLVTSENIPQA 300 Query: 301 MAA 303 MAA Sbjct: 301 MAA 303 >gi|300311996|ref|YP_003776088.1| TRAP-type C4-dicarboxylate transport system large permease [Herbaspirillum seropedicae SmR1] Length = 449 Score = 156 bits (394), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 110/322 (34%), Positives = 176/322 (54%), Gaps = 28/322 (8%) Query: 13 LMLTGMPISISLGLTVLTFL-FTMTDVPIQSVALKLFTGIEKFEIMAIPFFILAGNFLTH 71 +M +GMPI+ +LG+ F+ F M + + ++ ++ I +++IP FIL G + Sbjct: 17 VMCSGMPIAFALGVVATGFMYFFMPESSLDTITQNVYEEIASITLLSIPLFILKGAAIGK 76 Query: 72 GGVARRMINFATSMVGHWHGGLALAGVMACALFAAVSGSSPATVVAIGSIILPAMVRQGF 131 + + + + + GGL +A V ACALFAA++GSSPAT AIGS +P M R+G+ Sbjct: 77 SPAGKDLYSAIHAWLNKVPGGLGIANVFACALFAAMAGSSPATCSAIGSAGIPEMRRRGY 136 Query: 132 PKKFGAGVITTSGALGILIPPSIVMVMYSVSTNTSVGKLFMAGVVPGLMLALLLGLTTWY 191 F AG+I G LGIL+PPSI M++Y+V+ S+G+LF+AG+ PG++L LL Y Sbjct: 137 SPGFAAGIIAAGGTLGILLPPSITMILYAVAAEQSLGRLFLAGIGPGVLLVLLFAGYAVY 196 Query: 192 LARKHNYPRLPKASWAERGAAFRKSGW--------------------GLFLIVIVMGGIY 231 ARK RL A ++ GA KS + L L++ VM +Y Sbjct: 197 RARKEY--RLAHAVYSAGGA---KSAYLDDEHFTLAQKVEMLPRVLPFLILLIGVMVALY 251 Query: 232 SGAFTPTEAAAMAAVYAFIIAVFVYKDMSLKQVPKVLLDSASMSAMLLYIITNAVLFSFL 291 G TP+E A + A+ A ++ VY+ +++ L + S MLL II ++L+S++ Sbjct: 252 GGLATPSETAGLGALLALVLIAVVYRIYKPREIAPFLSSTIKESGMLLLIIGMSLLYSYV 311 Query: 292 VTSENIPQAMAAMRWRIQLPYS 313 ++ +I Q +A +W + L S Sbjct: 312 MSYLHISQ--SAAQWVVDLHLS 331 >gi|300310440|ref|YP_003774532.1| TrapT dctQ-M fusion permease, dicarboxylate transport protein [Herbaspirillum seropedicae SmR1] Length = 618 Score = 126 bits (316), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 88/304 (28%), Positives = 157/304 (51%), Gaps = 12/304 (3%) Query: 7 FVLLFGLMLT-----GMPISISLGLTVLTFLFTMTDVPIQSVALKLFTGIEKFEIMAIPF 61 V+ FGL+L G+PI+ GL + F+ T+T P+ VA + G+ ++A+P Sbjct: 200 LVVFFGLVLAVSVLLGIPIAFCFGLATVAFMLTVTTSPLAVVAGRFDEGMSSLILLAVPL 259 Query: 62 FILAGNFLTHGGVARRMINFATSMVGHWHGGLALAGVMACALFAAVSGSSPATVVAIGSI 121 FIL G+ + G+A+ M++F S++GH GGL + A L + +SG+ A + A+ + Sbjct: 260 FILLGHLVEMTGMAKAMVDFLASLLGHVRGGLNYVLLGAMLLVSGISGAKTADMAAVAPV 319 Query: 122 ILPAMVRQGFPKKFGAGVITTSGALGILIPPSIVMVMYSVSTNTSVGKLFMAGVVPGLML 181 +LP M R+G + ++ SGA+ IPPS+V++ S+ LF G++PG++L Sbjct: 320 LLPEMKRRGNHEGELISLLAASGAMAETIPPSLVLITIGSVAGVSIAALFTGGIMPGIVL 379 Query: 182 ALLLGLTTWYLARKHNYPRLPKASWAERGAAFRKSGWGLFLIVIVMG---GIYSGAFTPT 238 A+LL + LAR + + A R L +++ + + G T T Sbjct: 380 AVLLAI----LARWRSAEIMEGIQRAPGRVVLRTLIIALPALLLPILIRTAVVEGVATAT 435 Query: 239 EAAAMAAVYAFIIAVFVYKDMSLKQVPKVLLDSASMSAMLLYIITNAVLFSFLVTSENIP 298 E + + Y+ + + VY+ K++ +L+D+A++S +L+II A S+ +T Sbjct: 436 EVSTIGIAYSVVAGLLVYRKFDWKRLYPMLVDTAALSGAILFIIGTATGMSWALTQSGFS 495 Query: 299 QAMA 302 A+A Sbjct: 496 HALA 499 >gi|300313111|ref|YP_003777203.1| TRAP-type C4-dicarboxylate transport system dctQ-M fusion permease large permease [Herbaspirillum seropedicae SmR1] Length = 627 Score = 110 bits (274), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 79/307 (25%), Positives = 159/307 (51%), Gaps = 4/307 (1%) Query: 2 NAAIIFVLLFGLMLTG-MPISISLGLTVLTFLFTMTDVPIQSVALKLFTGIEKFEIMAIP 60 N + FVLL G+ + G +PI+ + G + +L T P+ V ++ G+ ++++P Sbjct: 204 NLIVFFVLLIGVCVAGGIPIAFAFGTATMAYLALATTAPLMIVVSRMDEGMSSLILLSVP 263 Query: 61 FFILAGNFLTHGGVARRMINFATSMVGHWHGGLALAGVMACALFAAVSGSSPATVVAIGS 120 F+L G+ L G+A+ +I+F +++GH GGL + A L + +SGS A + AI Sbjct: 264 LFVLLGSLLEMSGLAKTLIDFMAALLGHVRGGLQYVLLGAMFLVSGISGSKAADMAAIAP 323 Query: 121 IILPAMVRQGFPKKFGAGVITTSGALGILIPPSIVMVMYSVSTNTSVGKLFMAGVVPGLM 180 + P M ++G + ++++SGA+ IPPS+V++ + S+ LF+ G++P + Sbjct: 324 ALFPEMKKRGSKPEELVALLSSSGAMTETIPPSLVLITIGAVCSVSITALFIGGLMPAAI 383 Query: 181 LALLLGLTTWYLARKHNYPRLPKASWAERGAAFRKSGWGLFLIVIVMGGIYSGAFTPTEA 240 + + + W AR+ P + +A + A + L L +++ + G T TE Sbjct: 384 ATIAIAVVCWMRARREPMPDVKRAPLSLIVKALIAAIPALALPMLIRVAVIEGVATATEV 443 Query: 241 AAMAAVYAFIIAVFVY---KDMSLKQVPKVLLDSASMSAMLLYIITNAVLFSFLVTSENI 297 A + Y ++ + ++ + +S K++ +L++SA++S +L II A ++ +T Sbjct: 444 ATIGVAYTVVVGLIMHLFMRHLSFKRLYPMLIESAALSGAILLIIGMATAMAWALTQSGF 503 Query: 298 PQAMAAM 304 + A+ Sbjct: 504 SAKLVAL 510 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.328 0.139 0.415 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 802,499 Number of extensions: 29913 Number of successful extensions: 148 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 145 Number of HSP's successfully gapped: 4 Length of query: 313 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 228 Effective length of database: 1,217,395 Effective search space: 277566060 Effective search space used: 277566060 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: 130 (54.7 bits)