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= 0032.0006.p (426 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... 747 0.0 gi|300311996|ref|YP_003776088.1| TRAP-type C4-dicarboxylate tran... 216 2e-57 gi|300310440|ref|YP_003774532.1| TrapT dctQ-M fusion permease, d... 179 5e-46 gi|300313111|ref|YP_003777203.1| TRAP-type C4-dicarboxylate tran... 157 2e-39 >gi|300310180|ref|YP_003774272.1| TRAP-type C4-dicarboxylate transport system large permease [Herbaspirillum seropedicae SmR1] Length = 426 Score = 747 bits (1929), Expect = 0.0, Method: Compositional matrix adjust. Identities = 397/426 (93%), Positives = 415/426 (97%) Query: 1 MNAAIIFVLLFGLMLTGMPISISLGLTVLTFLFTMTDVPIQSVALKLFTGIEKFEIMAIP 60 MNA IIFVLLF LMLTGMPISISLGLTVLTFLFTMT+VPIQSVALKLFTGIEKFEIMAIP Sbjct: 1 MNALIIFVLLFALMLTGMPISISLGLTVLTFLFTMTEVPIQSVALKLFTGIEKFEIMAIP 60 Query: 61 FFILAGNFLTHGGVARRMINFATAMVGHWHGGLALAGVMACALFAAVSGSSPATVVAIGS 120 FFILAGNFLTHGGVARRMINFAT+MVGHWHGGLALAGV+ACALFAAVSGSSPATVVAIGS Sbjct: 61 FFILAGNFLTHGGVARRMINFATSMVGHWHGGLALAGVLACALFAAVSGSSPATVVAIGS 120 Query: 121 IILPAMVRQGFPNKFGAGVITTSGALGILIPPSIVMVMYSVSTNTSVGKLFMAGVVPGLM 180 IILPAMV+QGFPN+FGAGVITTSGALGILIPPSIVMVMYSVSTNTSVGKLFMAGVVPGL+ Sbjct: 121 IILPAMVKQGFPNRFGAGVITTSGALGILIPPSIVMVMYSVSTNTSVGKLFMAGVVPGLL 180 Query: 181 LAFLLGATTWYLARKHNYPRLPKASWAERGAAFRKSGWGLFLIVIVMGGIYTGIFTPTEA 240 LAFLLG TTW+LARK+NYPRL KA+WAER AAFRKSGWGLFLIVIVMGGIYTG+FTPTEA Sbjct: 181 LAFLLGVTTWFLARKNNYPRLKKATWAERAAAFRKSGWGLFLIVIVMGGIYTGVFTPTEA 240 Query: 241 AAMAAVYAFIIAVFVYKDMGLKQVPKVLLDSASMSAMLLYIITNAVLFSFLVTSENIPQA 300 AAMAAVYAF IAVFVYKD+ LKQVPKVLLDSASMSAMLLYIITNAVLFSFLVTSENIPQA Sbjct: 241 AAMAAVYAFFIAVFVYKDLTLKQVPKVLLDSASMSAMLLYIITNAVLFSFLVTSENIPQA 300 Query: 301 MAAMITDSGLGPITFLLVVNVLLLLAGNVMEPSSIVLIMAPILFPVAMKLGIDPVHFGIL 360 MAA ITDSGLGPITFLLVVN+LLLLAGNVMEPSSIVLI+APILFPVAMKLGIDPVHFGIL Sbjct: 301 MAAWITDSGLGPITFLLVVNILLLLAGNVMEPSSIVLILAPILFPVAMKLGIDPVHFGIL 360 Query: 361 IVVNMEVGMCHPPVGLNLYVASGITKMGITELTIAVMPWLLTMLVFLALITYVPQISLWL 420 IVVNMEVGMCHPPVGLNLYVASGITKMGITELTIAVMPWLLTML FLAL+TY P +SLWL Sbjct: 361 IVVNMEVGMCHPPVGLNLYVASGITKMGITELTIAVMPWLLTMLGFLALVTYWPALSLWL 420 Query: 421 PNLVFD 426 PNL+++ Sbjct: 421 PNLIYN 426 >gi|300311996|ref|YP_003776088.1| TRAP-type C4-dicarboxylate transport system large permease [Herbaspirillum seropedicae SmR1] Length = 449 Score = 216 bits (551), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 148/433 (34%), Positives = 239/433 (55%), Gaps = 27/433 (6%) Query: 14 MLTGMPISISLGLTVLTFL-FTMTDVPIQSVALKLFTGIEKFEIMAIPFFILAGNFLTHG 72 M +GMPI+ +LG+ F+ F M + + ++ ++ I +++IP FIL G + Sbjct: 18 MCSGMPIAFALGVVATGFMYFFMPESSLDTITQNVYEEIASITLLSIPLFILKGAAIGKS 77 Query: 73 GVARRMINFATAMVGHWHGGLALAGVMACALFAAVSGSSPATVVAIGSIILPAMVRQGFP 132 + + + A + GGL +A V ACALFAA++GSSPAT AIGS +P M R+G+ Sbjct: 78 PAGKDLYSAIHAWLNKVPGGLGIANVFACALFAAMAGSSPATCSAIGSAGIPEMRRRGYS 137 Query: 133 NKFGAGVITTSGALGILIPPSIVMVMYSVSTNTSVGKLFMAGVVPGLMLAFLLGATTWYL 192 F AG+I G LGIL+PPSI M++Y+V+ S+G+LF+AG+ PG++L L Y Sbjct: 138 PGFAAGIIAAGGTLGILLPPSITMILYAVAAEQSLGRLFLAGIGPGVLLVLLFAGYAVYR 197 Query: 193 ARKHNYPRLPKASWAERGAAFRKSGW--------------------GLFLIVIVMGGIYT 232 ARK RL A ++ GA KS + L L++ VM +Y Sbjct: 198 ARKEY--RLAHAVYSAGGA---KSAYLDDEHFTLAQKVEMLPRVLPFLILLIGVMVALYG 252 Query: 233 GIFTPTEAAAMAAVYAFIIAVFVYKDMGLKQVPKVLLDSASMSAMLLYIITNAVLFSFLV 292 G+ TP+E A + A+ A ++ VY+ +++ L + S MLL II ++L+S+++ Sbjct: 253 GLATPSETAGLGALLALVLIAVVYRIYKPREIAPFLSSTIKESGMLLLIIGMSLLYSYVM 312 Query: 293 TSENIPQAMAAMITDSGLGPITFLLVVNVLLLLAGNVMEPSSIVLIMAPILFPVAMKLGI 352 + +I Q+ A + D L L V+ ++++ G + P SI+L+ API+ P G Sbjct: 313 SYLHISQSAAQWVVDLHLSKWLLLAVILGMVIVLGFFLPPVSIILMTAPIILPPLKAAGF 372 Query: 353 DPVHFGILIVVNMEVGMCHPPVGLNLYVASGIT-KMGITELTIAVMPWLLTMLVFLALIT 411 D + FGI++ V ME+G+ HPPVGLNL+V I + + ++ +P+L M + + L+ Sbjct: 373 DLIWFGIVMTVVMEMGLIHPPVGLNLFVIKNIAPDIALGDVIKGTIPFLALMFLAVLLLC 432 Query: 412 YVPQISLWLPNLV 424 P I+ LP+L+ Sbjct: 433 MFPGIATLLPDLL 445 >gi|300310440|ref|YP_003774532.1| TrapT dctQ-M fusion permease, dicarboxylate transport protein [Herbaspirillum seropedicae SmR1] Length = 618 Score = 179 bits (453), Expect = 5e-46, Method: Compositional matrix adjust. Identities = 124/420 (29%), Positives = 220/420 (52%), Gaps = 12/420 (2%) 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 FILAGNFLTHGGVARRMINFATAMVGHWHGGLALAGVMACALFAAVSGSSPATVVAIGSI 121 FIL G+ + G+A+ M++F +++GH GGL + A L + +SG+ A + A+ + Sbjct: 260 FILLGHLVEMTGMAKAMVDFLASLLGHVRGGLNYVLLGAMLLVSGISGAKTADMAAVAPV 319 Query: 122 ILPAMVRQGFPNKFGAGVITTSGALGILIPPSIVMVMYSVSTNTSVGKLFMAGVVPGLML 181 +LP M R+G ++ SGA+ IPPS+V++ S+ LF G++PG++L Sbjct: 320 LLPEMKRRGNHEGELISLLAASGAMAETIPPSLVLITIGSVAGVSIAALFTGGIMPGIVL 379 Query: 182 AFLLGATTWYLARKHNYPRLPKASWAERGAAFRKSGWGLFLIVIVMG---GIYTGIFTPT 238 A LL LAR + + A R L +++ + + G+ T T Sbjct: 380 AVLLA----ILARWRSAEIMEGIQRAPGRVVLRTLIIALPALLLPILIRTAVVEGVATAT 435 Query: 239 EAAAMAAVYAFIIAVFVYKDMGLKQVPKVLLDSASMSAMLLYIITNAVLFSFLVTSENIP 298 E + + Y+ + + VY+ K++ +L+D+A++S +L+II A S+ +T Sbjct: 436 EVSTIGIAYSVVAGLLVYRKFDWKRLYPMLVDTAALSGAILFIIGTATGMSWALTQSGFS 495 Query: 299 QAMAAMITDSGLGPITFLLVVNVLLLLAGNVMEPSSIVLIMAPILFPVAMKLGIDPVHFG 358 A+A +T G FLLV ++ G+V+E +++ AP+LFPVA +G+ VH+ Sbjct: 496 HALAEAMTSVPGGKYGFLLVSIAAFIVLGSVLEGIPAMVLFAPLLFPVAKAIGVHEVHYA 555 Query: 359 ILIVVNMEVGMCHPPVGLNLYVASGITKMGITELTIAVMPWLLTMLVFLALITYVPQISL 418 ++I+++M VG+ PP GL Y A I ++ + P+L ++V L ++ +VP S+ Sbjct: 556 MVIILSMGVGLFAPPFGLGYYAACTIGRVHPDVAVKRIWPYLGALVVGLLIVAFVPWFSI 615 >gi|300313111|ref|YP_003777203.1| TRAP-type C4-dicarboxylate transport system dctQ-M fusion permease large permease [Herbaspirillum seropedicae SmR1] Length = 627 Score = 157 bits (397), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 105/389 (26%), Positives = 206/389 (52%), Gaps = 4/389 (1%) Query: 2 NAAIIFVLLFGLMLTG-MPISISLGLTVLTFLFTMTDVPIQSVALKLFTGIEKFEIMAIP 60 N + FVLL G+ + G +PI+ + G + +L T P+ V ++ G+ ++++P Sbjct: 204 NLIVFFVLLIGVCVAGGIPIAFAFGTATMAYLALATTAPLMIVVSRMDEGMSSLILLSVP 263 Query: 61 FFILAGNFLTHGGVARRMINFATAMVGHWHGGLALAGVMACALFAAVSGSSPATVVAIGS 120 F+L G+ L G+A+ +I+F A++GH GGL + A L + +SGS A + AI Sbjct: 264 LFVLLGSLLEMSGLAKTLIDFMAALLGHVRGGLQYVLLGAMFLVSGISGSKAADMAAIAP 323 Query: 121 IILPAMVRQGFPNKFGAGVITTSGALGILIPPSIVMVMYSVSTNTSVGKLFMAGVVPGLM 180 + P M ++G + ++++SGA+ IPPS+V++ + S+ LF+ G++P + Sbjct: 324 ALFPEMKKRGSKPEELVALLSSSGAMTETIPPSLVLITIGAVCSVSITALFIGGLMPAAI 383 Query: 181 LAFLLGATTWYLARKHNYPRLPKASWAERGAAFRKSGWGLFLIVIVMGGIYTGIFTPTEA 240 + W AR+ P + +A + A + L L +++ + G+ T TE Sbjct: 384 ATIAIAVVCWMRARREPMPDVKRAPLSLIVKALIAAIPALALPMLIRVAVIEGVATATEV 443 Query: 241 AAMAAVYAFIIAVFVY---KDMGLKQVPKVLLDSASMSAMLLYIITNAVLFSFLVTSENI 297 A + Y ++ + ++ + + K++ +L++SA++S +L II A ++ +T Sbjct: 444 ATIGVAYTVVVGLIMHLFMRHLSFKRLYPMLIESAALSGAILLIIGMATAMAWALTQSGF 503 Query: 298 PQAMAAMITDSGLGPITFLLVVNVLLLLAGNVMEPSSIVLIMAPILFPVAMKLGIDPVHF 357 + A++ G + FLL+ V+ ++ G+++E +++ P+LFPVA LG+ VH+ Sbjct: 504 SAKLVALMQGVPGGGVGFLLITIVIFIVLGSLLEGIPAIVLFGPLLFPVARSLGVHDVHY 563 Query: 358 GILIVVNMEVGMCHPPVGLNLYVASGITK 386 +++++ M +G+ PP G+ Y A I K Sbjct: 564 AMVVILAMGIGLFAPPFGVGFYAACAIGK 592 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 0.329 0.142 0.425 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: 1,180,231 Number of extensions: 47708 Number of successful extensions: 215 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 207 Number of HSP's successfully gapped: 4 Length of query: 426 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 338 Effective length of database: 1,203,190 Effective search space: 406678220 Effective search space used: 406678220 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: 132 (55.5 bits)