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= 0013.0150.p (623 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310440|ref|YP_003774532.1| TrapT dctQ-M fusion permease, d... 692 0.0 gi|300313111|ref|YP_003777203.1| TRAP-type C4-dicarboxylate tran... 591 e-170 gi|300310180|ref|YP_003774272.1| TRAP-type C4-dicarboxylate tran... 159 5e-40 gi|300311996|ref|YP_003776088.1| TRAP-type C4-dicarboxylate tran... 101 2e-22 >gi|300310440|ref|YP_003774532.1| TrapT dctQ-M fusion permease, dicarboxylate transport protein [Herbaspirillum seropedicae SmR1] Length = 618 Score = 692 bits (1785), Expect = 0.0, Method: Compositional matrix adjust. Identities = 376/599 (62%), Positives = 467/599 (77%), Gaps = 1/599 (0%) Query: 25 QHWLEKSVEILTATVVVAEVALLFIGIIARSVLHSSLIWSDELASILFLWLAMLGSALAV 84 +HWL ++EI A +VV EVA+L G+I R + ++ + W+DELASILFLWLA LG+A+A+ Sbjct: 21 EHWLGLAIEIPAAALVVGEVAVLLAGVIMRFIFNNPIPWADELASILFLWLANLGAAVAL 80 Query: 85 QRSCHMRLTFFISKLSPRAQAWAETLAVGVTAVLLLMMIHPSFDYVEDQGFVETPALGWS 144 +R HMR T + +S R +AWAE LA+ V+LL+++HP ++Y ED+ FV+TPALGW Sbjct: 81 RRGTHMRTTVLVGFMSERGKAWAEALAIIAPCVMLLILMHPMWEYAEDEMFVQTPALGWP 140 Query: 145 GMVRALAVPVGFLIALVSCALRLMHHDKRDIFTVAALLAVIAGACYLSAPMLTAMGQSAL 204 VRA AV VG + + LR+ D+ V ALLAV+AGA YL A L A+G L Sbjct: 141 NTVRAAAVAVGAALMIALSLLRISRQKLVDLVGVLALLAVVAGAMYLGAAWLQAIGNWNL 200 Query: 205 PIFFIGLLGAAVMAGAPIAFAFAIATCAYLLTTTSTPVVIVVGRMDEGMSSLILLAVPMF 264 +FF +L +V+ G PIAF F +AT A++LT T++P+ +V GR DEGMSSLILLAVP+F Sbjct: 201 VVFFGLVLAVSVLLGIPIAFCFGLATVAFMLTVTTSPLAVVAGRFDEGMSSLILLAVPLF 260 Query: 265 VLLGQLVHATGLARVMVEFLAALVGHVRGGMSYVLLGAMLLVSGISGSKTADMAAVAPVL 324 +LLG LV TG+A+ MV+FLA+L+GHVRGG++YVLLGAMLLVSGISG+KTADMAAVAPVL Sbjct: 261 ILLGHLVEMTGMAKAMVDFLASLLGHVRGGLNYVLLGAMLLVSGISGAKTADMAAVAPVL 320 Query: 325 FPEMRKRGMQDSELISLLAASGAMSETIPPSLVLIAIASVTGISIAALFTAGIMPAFVLA 384 PEM++RG + ELISLLAASGAM+ETIPPSLVLI I SV G+SIAALFT GIMP VLA Sbjct: 321 LPEMKRRGNHEGELISLLAASGAMAETIPPSLVLITIGSVAGVSIAALFTGGIMPGIVLA 380 Query: 385 IVLAVVAWWRAGSDHVTTSRAPLKRVLKTFAIAVPALLLPFVIRTAVVEGVATATEVSTI 444 ++LA++A WR+ RAP + VL+T IA+PALLLP +IRTAVVEGVATATEVSTI Sbjct: 381 VLLAILARWRSAEIMEGIQRAPGRVVLRTLIIALPALLLPILIRTAVVEGVATATEVSTI 440 Query: 445 GIAYSLIVGLIIYRGSLKWHMALPILVQTAALSGAILFIVGAASAMGWALTQSGFSHDLA 504 GIAYS++ GL++YR W P+LV TAALSGAILFI+G A+ M WALTQSGFSH LA Sbjct: 441 GIAYSVVAGLLVYR-KFDWKRLYPMLVDTAALSGAILFIIGTATGMSWALTQSGFSHALA 499 Query: 505 AMMTAVPGGATGFLLVSIAAFIVLGSVLEGIPAIVLFGPLLFPVARQLGIHEIHYAMVVI 564 MT+VPGG GFLLVSIAAFIVLGSVLEGIPA+VLF PLLFPVA+ +G+HE+HYAMV+I Sbjct: 500 EAMTSVPGGKYGFLLVSIAAFIVLGSVLEGIPAMVLFAPLLFPVAKAIGVHEVHYAMVII 559 Query: 565 LAMGLGVFAPPFGLCYYAACIIGEVKPEVALKRIWLYLGMLLLGLIAITFVPWISTGFL 623 L+MG+G+FAPPFGL YYAAC IG V P+VA+KRIW YLG L++GL+ + FVPW S GFL Sbjct: 560 LSMGVGLFAPPFGLGYYAACTIGRVHPDVAVKRIWPYLGALVVGLLIVAFVPWFSIGFL 618 >gi|300313111|ref|YP_003777203.1| TRAP-type C4-dicarboxylate transport system dctQ-M fusion permease large permease [Herbaspirillum seropedicae SmR1] Length = 627 Score = 591 bits (1524), Expect = e-170, Method: Compositional matrix adjust. Identities = 333/585 (56%), Positives = 433/585 (74%), Gaps = 4/585 (0%) Query: 43 EVALLFIGIIARSVLHSSLIWSDELASILFLWLAMLGSALAVQRSCHMRLTFFISKLSPR 102 E +L G+I R LH L+WSDELASILF+WL+MLG+ LA+ R HMRLT I+K S + Sbjct: 43 ETVVLLTGVIYRYALHDPLVWSDELASILFIWLSMLGAVLALDRGEHMRLTAIINKCSEK 102 Query: 103 AQAWAETLAVGVTAVLLLMMIHPSFDYVEDQGFVETPALGWSGMVRALAVPVGFLIALVS 162 + W ET+A V + +LM+IHP+ D+ +Q + TPAL +RA A+PVG ++ L++ Sbjct: 103 GRIWLETVAALVVCIFVLMVIHPAVDHAVEQMPITTPALEIPDGLRAAALPVGAILMLLA 162 Query: 163 CALRLMHHDK-RDIFTVAALLAVIAGACYLSAPMLTAMGQSALPIFFIGLLGAAVMAGAP 221 R+ R + + A++AVI GA +L+ PML MG L +FF+ L+G V G P Sbjct: 163 AVSRMAAMTTMRLLLSALAVVAVIGGALWLAKPMLLGMGNYNLIVFFVLLIGVCVAGGIP 222 Query: 222 IAFAFAIATCAYLLTTTSTPVVIVVGRMDEGMSSLILLAVPMFVLLGQLVHATGLARVMV 281 IAFAF AT AYL T+ P++IVV RMDEGMSSLILL+VP+FVLLG L+ +GLA+ ++ Sbjct: 223 IAFAFGTATMAYLALATTAPLMIVVSRMDEGMSSLILLSVPLFVLLGSLLEMSGLAKTLI 282 Query: 282 EFLAALVGHVRGGMSYVLLGAMLLVSGISGSKTADMAAVAPVLFPEMRKRGMQDSELISL 341 +F+AAL+GHVRGG+ YVLLGAM LVSGISGSK ADMAA+AP LFPEM+KRG + EL++L Sbjct: 283 DFMAALLGHVRGGLQYVLLGAMFLVSGISGSKAADMAAIAPALFPEMKKRGSKPEELVAL 342 Query: 342 LAASGAMSETIPPSLVLIAIASVTGISIAALFTAGIMPAFVLAIVLAVVAWWRAGSDHV- 400 L++SGAM+ETIPPSLVLI I +V +SI ALF G+MPA + I +AVV W RA + + Sbjct: 343 LSSSGAMTETIPPSLVLITIGAVCSVSITALFIGGLMPAAIATIAIAVVCWMRARREPMP 402 Query: 401 TTSRAPLKRVLKTFAIAVPALLLPFVIRTAVVEGVATATEVSTIGIAYSLIVGLI--IYR 458 RAPL ++K A+PAL LP +IR AV+EGVATATEV+TIG+AY+++VGLI ++ Sbjct: 403 DVKRAPLSLIVKALIAAIPALALPMLIRVAVIEGVATATEVATIGVAYTVVVGLIMHLFM 462 Query: 459 GSLKWHMALPILVQTAALSGAILFIVGAASAMGWALTQSGFSHDLAAMMTAVPGGATGFL 518 L + P+L+++AALSGAIL I+G A+AM WALTQSGFS L A+M VPGG GFL Sbjct: 463 RHLSFKRLYPMLIESAALSGAILLIIGMATAMAWALTQSGFSAKLVALMQGVPGGGVGFL 522 Query: 519 LVSIAAFIVLGSVLEGIPAIVLFGPLLFPVARQLGIHEIHYAMVVILAMGLGVFAPPFGL 578 L++I FIVLGS+LEGIPAIVLFGPLLFPVAR LG+H++HYAMVVILAMG+G+FAPPFG+ Sbjct: 523 LITIVIFIVLGSLLEGIPAIVLFGPLLFPVARSLGVHDVHYAMVVILAMGIGLFAPPFGV 582 Query: 579 CYYAACIIGEVKPEVALKRIWLYLGMLLLGLIAITFVPWISTGFL 623 +YAAC IG+V P+ R+W YL L++ L+ + FVPWIS GFL Sbjct: 583 GFYAACAIGKVSPDGVFNRVWGYLAALVVALLVVAFVPWISIGFL 627 >gi|300310180|ref|YP_003774272.1| TRAP-type C4-dicarboxylate transport system large permease [Herbaspirillum seropedicae SmR1] Length = 426 Score = 159 bits (403), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 111/384 (28%), Positives = 200/384 (52%), Gaps = 4/384 (1%) Query: 202 SALPIFFIGLLGAAVMAGAPIAFAFAIATCAYLLTTTSTPVVIVVGRMDEGMSSLILLAV 261 +AL IF LL A ++ G PI+ + + +L T T P+ V ++ G+ ++A+ Sbjct: 2 NALIIFV--LLFALMLTGMPISISLGLTVLTFLFTMTEVPIQSVALKLFTGIEKFEIMAI 59 Query: 262 PMFVLLGQLVHATGLARVMVEFLAALVGHVRGGMSYVLLGAMLLVSGISGSKTADMAAVA 321 P F+L G + G+AR M+ F ++VGH GG++ + A L + +SGS A + A+ Sbjct: 60 PFFILAGNFLTHGGVARRMINFATSMVGHWHGGLALAGVLACALFAAVSGSSPATVVAIG 119 Query: 322 PVLFPEMRKRGMQDSELISLLAASGAMSETIPPSLVLIAIASVTGISIAALFTAGIMPAF 381 ++ P M K+G + ++ SGA+ IPPS+V++ + T S+ LF AG++P Sbjct: 120 SIILPAMVKQGFPNRFGAGVITTSGALGILIPPSIVMVMYSVSTNTSVGKLFMAGVVPGL 179 Query: 382 VLAIVLAVVAWWRA-GSDHVTTSRAPLKRVLKTFAIAVPALLLPFVIRTAVVEGVATATE 440 +LA +L V W+ A +++ +A F + L L ++ + GV T TE Sbjct: 180 LLAFLLGVTTWFLARKNNYPRLKKATWAERAAAFRKSGWGLFLIVIVMGGIYTGVFTPTE 239 Query: 441 VSTIGIAYSLIVGLIIYRGSLKWHMALPILVQTAALSGAILFIVGAASAMGWALTQSGFS 500 + + Y+ + + +Y+ L +L+ +A++S +L+I+ A + +T Sbjct: 240 AAAMAAVYAFFIAVFVYK-DLTLKQVPKVLLDSASMSAMLLYIITNAVLFSFLVTSENIP 298 Query: 501 HDLAAMMTAVPGGATGFLLVSIAAFIVLGSVLEGIPAIVLFGPLLFPVARQLGIHEIHYA 560 +AA +T G FLLV ++ G+V+E +++ P+LFPVA +LGI +H+ Sbjct: 299 QAMAAWITDSGLGPITFLLVVNILLLLAGNVMEPSSIVLILAPILFPVAMKLGIDPVHFG 358 Query: 561 MVVILAMGLGVFAPPFGLCYYAAC 584 +++++ M +G+ PP GL Y A Sbjct: 359 ILIVVNMEVGMCHPPVGLNLYVAS 382 >gi|300311996|ref|YP_003776088.1| TRAP-type C4-dicarboxylate transport system large permease [Herbaspirillum seropedicae SmR1] Length = 449 Score = 101 bits (251), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 103/424 (24%), Positives = 196/424 (46%), Gaps = 25/424 (5%) Query: 218 AGAPIAFAFAIATCAYL-LTTTSTPVVIVVGRMDEGMSSLILLAVPMFVLLGQLVHATGL 276 +G PIAFA + ++ + + + + E ++S+ LL++P+F+L G + + Sbjct: 20 SGMPIAFALGVVATGFMYFFMPESSLDTITQNVYEEIASITLLSIPLFILKGAAIGKSPA 79 Query: 277 ARVMVEFLAALVGHVRGGMSYVLLGAMLLVSGISGSKTADMAAVAPVLFPEMRKRGMQDS 336 + + + A + V GG+ + A L + ++GS A +A+ PEMR+RG Sbjct: 80 GKDLYSAIHAWLNKVPGGLGIANVFACALFAAMAGSSPATCSAIGSAGIPEMRRRGYSPG 139 Query: 337 ELISLLAASGAMSETIPPSLVLIAIASVTGISIAALFTAGIMPAFVLAIVLAVVAWWRAG 396 ++AA G + +PPS+ +I A S+ LF AGI P +L ++ A A +RA Sbjct: 140 FAAGIIAAGGTLGILLPPSITMILYAVAAEQSLGRLFLAGIGPGVLLVLLFAGYAVYRAR 199 Query: 397 SD----------------HVTTSRAPLKRVLKTFAIAVPALLLPFVIRTAVVEGVATATE 440 + ++ L + ++ +P L+L + A+ G+AT +E Sbjct: 200 KEYRLAHAVYSAGGAKSAYLDDEHFTLAQKVEMLPRVLPFLILLIGVMVALYGGLATPSE 259 Query: 441 VSTIGIAYSLIVGLIIYRGSLKWHMALPILVQTAALSGAILFIVGAASAMGWALTQSGFS 500 + +G +L++ ++YR +A P L T SG +L I+G + + ++ S Sbjct: 260 TAGLGALLALVLIAVVYRIYKPREIA-PFLSSTIKESGMLLLIIGMSLLYSYVMSYLHIS 318 Query: 501 HDLAAMMTAVPGGATGFLLVSIAAFIVLGSVLEGIPAIVLFGPLLFPVARQLGIHEIHYA 560 A + + L V + IVLG L + I++ P++ P + G I + Sbjct: 319 QSAAQWVVDLHLSKWLLLAVILGMVIVLGFFLPPVSIILMTAPIILPPLKAAGFDLIWFG 378 Query: 561 MVVILAMGLGVFAPPFGLCYYAACIIGEVKPEVAL----KRIWLYLGMLLLGLIAITFVP 616 +V+ + M +G+ PP GL + +I + P++AL K +L ++ L ++ + P Sbjct: 379 IVMTVVMEMGLIHPPVGLNLF---VIKNIAPDIALGDVIKGTIPFLALMFLAVLLLCMFP 435 Query: 617 WIST 620 I+T Sbjct: 436 GIAT 439 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 0.414 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: 1,709,224 Number of extensions: 66160 Number of successful extensions: 457 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 443 Number of HSP's successfully gapped: 4 Length of query: 623 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 532 Effective length of database: 1,188,985 Effective search space: 632540020 Effective search space used: 632540020 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: 133 (55.8 bits)