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= 0013.0162.p (618 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... 1060 0.0 gi|300313111|ref|YP_003777203.1| TRAP-type C4-dicarboxylate tran... 600 e-172 gi|300310180|ref|YP_003774272.1| TRAP-type C4-dicarboxylate tran... 172 5e-44 gi|300311996|ref|YP_003776088.1| TRAP-type C4-dicarboxylate tran... 137 3e-33 >gi|300310440|ref|YP_003774532.1| TrapT dctQ-M fusion permease, dicarboxylate transport protein [Herbaspirillum seropedicae SmR1] Length = 618 Score = 1060 bits (2742), Expect = 0.0, Method: Compositional matrix adjust. Identities = 565/618 (91%), Positives = 596/618 (96%) Query: 1 MSALSLERPALADTSLSVRLENWLGHAIEIPAAALVVGEVAVLLAGVVMRFIFNNPIPWA 60 MSALSLE+P + SL+ RLE+WLG AIEIPAAALVVGEVAVLLAGV+MRFIFNNPIPWA Sbjct: 1 MSALSLEQPVADERSLAARLEHWLGLAIEIPAAALVVGEVAVLLAGVIMRFIFNNPIPWA 60 Query: 61 DELASILFLWLANLGAAVALRRGTHMRTTVLVGFLSERGKAWAEALAIIAPCLMLLILMG 120 DELASILFLWLANLGAAVALRRGTHMRTTVLVGF+SERGKAWAEALAIIAPC+MLLILM Sbjct: 61 DELASILFLWLANLGAAVALRRGTHMRTTVLVGFMSERGKAWAEALAIIAPCVMLLILMH 120 Query: 121 PMWEYAEDEMFIQTPALGWPNTVRAAAVAVGAAFMIVICLLRISRHRLADFIGVVVAIAI 180 PMWEYAEDEMF+QTPALGWPNTVRAAAVAVGAA MI + LLRISR +L D +GV+ +A+ Sbjct: 121 PMWEYAEDEMFVQTPALGWPNTVRAAAVAVGAALMIALSLLRISRQKLVDLVGVLALLAV 180 Query: 181 LGAAMYLGSAWLQGIGNWNLVIFFGLLLGMSVLLGIPIAFCFGLATVAFMLTVTSSPLAV 240 + AMYLG+AWLQ IGNWNLV+FFGL+L +SVLLGIPIAFCFGLATVAFMLTVT+SPLAV Sbjct: 181 VAGAMYLGAAWLQAIGNWNLVVFFGLVLAVSVLLGIPIAFCFGLATVAFMLTVTTSPLAV 240 Query: 241 VAGRFDEGMSSLILLAVPLFILLGHLVEMTGMAKAMVDFLASLVGHVRGGLNYVLLGAML 300 VAGRFDEGMSSLILLAVPLFILLGHLVEMTGMAKAMVDFLASL+GHVRGGLNYVLLGAML Sbjct: 241 VAGRFDEGMSSLILLAVPLFILLGHLVEMTGMAKAMVDFLASLLGHVRGGLNYVLLGAML 300 Query: 301 LVSGISGAKTADMAAVAPVLLPEMKRRGNHEGELISLLAASGAMAETIPPSLVLITIGSV 360 LVSGISGAKTADMAAVAPVLLPEMKRRGNHEGELISLLAASGAMAETIPPSLVLITIGSV Sbjct: 301 LVSGISGAKTADMAAVAPVLLPEMKRRGNHEGELISLLAASGAMAETIPPSLVLITIGSV 360 Query: 361 AGVSIAALFTGGIMPGIVLAVLLAILARFRSAEIMDGYQRAPGKVVLRTLAIALPALLLP 420 AGVSIAALFTGGIMPGIVLAVLLAILAR+RSAEIM+G QRAPG+VVLRTL IALPALLLP Sbjct: 361 AGVSIAALFTGGIMPGIVLAVLLAILARWRSAEIMEGIQRAPGRVVLRTLIIALPALLLP 420 Query: 421 ILIRTAVVEGVATATEVSTIGIAYAVVAGLLIYRRFDWKRIYPMLVDTAALSGAILFIIG 480 ILIRTAVVEGVATATEVSTIGIAY+VVAGLL+YR+FDWKR+YPMLVDTAALSGAILFIIG Sbjct: 421 ILIRTAVVEGVATATEVSTIGIAYSVVAGLLVYRKFDWKRLYPMLVDTAALSGAILFIIG 480 Query: 481 TATGMSWALTQSGFSHSLAEAMTSVPGGKYGFLLVSIAAFIVLGSVLEGIPAMVLFAPLL 540 TATGMSWALTQSGFSH+LAEAMTSVPGGKYGFLLVSIAAFIVLGSVLEGIPAMVLFAPLL Sbjct: 481 TATGMSWALTQSGFSHALAEAMTSVPGGKYGFLLVSIAAFIVLGSVLEGIPAMVLFAPLL 540 Query: 541 FPVAKAIGVHEVHYAMVIILSMGVGLFAPPFGLGYYAACTIGRVHPDVAVRRIWPYLGIL 600 FPVAKAIGVHEVHYAMVIILSMGVGLFAPPFGLGYYAACTIGRVHPDVAV+RIWPYLG L Sbjct: 541 FPVAKAIGVHEVHYAMVIILSMGVGLFAPPFGLGYYAACTIGRVHPDVAVKRIWPYLGAL 600 Query: 601 VIGLLIVAFVPWFSIGFL 618 V+GLLIVAFVPWFSIGFL Sbjct: 601 VVGLLIVAFVPWFSIGFL 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 = 600 bits (1547), Expect = e-172, Method: Compositional matrix adjust. Identities = 335/587 (57%), Positives = 448/587 (76%), Gaps = 9/587 (1%) Query: 39 EVAVLLAGVVMRFIFNNPIPWADELASILFLWLANLGAAVALRRGTHMRTTVLVGFLSER 98 E VLL GV+ R+ ++P+ W+DELASILF+WL+ LGA +AL RG HMR T ++ SE+ Sbjct: 43 ETVVLLTGVIYRYALHDPLVWSDELASILFIWLSMLGAVLALDRGEHMRLTAIINKCSEK 102 Query: 99 GKAWAEALAIIAPCLMLLILMGPMWEYAEDEMFIQTPALGWPNTVRAAAVAVGAAFMIVI 158 G+ W E +A + C+ +L+++ P ++A ++M I TPAL P+ +RAAA+ VGA M++ Sbjct: 103 GRIWLETVAALVVCIFVLMVIHPAVDHAVEQMPITTPALEIPDGLRAAALPVGAILMLLA 162 Query: 159 CLLRI---SRHRLADFIGVVVAIAILGAAMYLGSAWLQGIGNWNLVIFFGLLLGMSVLLG 215 + R+ + RL + + +A++G A++L L G+GN+NL++FF LL+G+ V G Sbjct: 163 AVSRMAAMTTMRL--LLSALAVVAVIGGALWLAKPMLLGMGNYNLIVFFVLLIGVCVAGG 220 Query: 216 IPIAFCFGLATVAFMLTVTSSPLAVVAGRFDEGMSSLILLAVPLFILLGHLVEMTGMAKA 275 IPIAF FG AT+A++ T++PL +V R DEGMSSLILL+VPLF+LLG L+EM+G+AK Sbjct: 221 IPIAFAFGTATMAYLALATTAPLMIVVSRMDEGMSSLILLSVPLFVLLGSLLEMSGLAKT 280 Query: 276 MVDFLASLVGHVRGGLNYVLLGAMLLVSGISGAKTADMAAVAPVLLPEMKRRGNHEGELI 335 ++DF+A+L+GHVRGGL YVLLGAM LVSGISG+K ADMAA+AP L PEMK+RG+ EL+ Sbjct: 281 LIDFMAALLGHVRGGLQYVLLGAMFLVSGISGSKAADMAAIAPALFPEMKKRGSKPEELV 340 Query: 336 SLLAASGAMAETIPPSLVLITIGSVAGVSIAALFTGGIMPGIVLAVLLAILARFRS-AEI 394 +LL++SGAM ETIPPSLVLITIG+V VSI ALF GG+MP + + +A++ R+ E Sbjct: 341 ALLSSSGAMTETIPPSLVLITIGAVCSVSITALFIGGLMPAAIATIAIAVVCWMRARREP 400 Query: 395 MDGYQRAPGKVVLRTLAIALPALLLPILIRTAVVEGVATATEVSTIGIAYAVVAGLLIY- 453 M +RAP ++++ L A+PAL LP+LIR AV+EGVATATEV+TIG+AY VV GL+++ Sbjct: 401 MPDVKRAPLSLIVKALIAAIPALALPMLIRVAVIEGVATATEVATIGVAYTVVVGLIMHL 460 Query: 454 --RRFDWKRIYPMLVDTAALSGAILFIIGTATGMSWALTQSGFSHSLAEAMTSVPGGKYG 511 R +KR+YPML+++AALSGAIL IIG AT M+WALTQSGFS L M VPGG G Sbjct: 461 FMRHLSFKRLYPMLIESAALSGAILLIIGMATAMAWALTQSGFSAKLVALMQGVPGGGVG 520 Query: 512 FLLVSIAAFIVLGSVLEGIPAMVLFAPLLFPVAKAIGVHEVHYAMVIILSMGVGLFAPPF 571 FLL++I FIVLGS+LEGIPA+VLF PLLFPVA+++GVH+VHYAMV+IL+MG+GLFAPPF Sbjct: 521 FLLITIVIFIVLGSLLEGIPAIVLFGPLLFPVARSLGVHDVHYAMVVILAMGIGLFAPPF 580 Query: 572 GLGYYAACTIGRVHPDVAVRRIWPYLGILVIGLLIVAFVPWFSIGFL 618 G+G+YAAC IG+V PD R+W YL LV+ LL+VAFVPW SIGFL Sbjct: 581 GVGFYAACAIGKVSPDGVFNRVWGYLAALVVALLVVAFVPWISIGFL 627 >gi|300310180|ref|YP_003774272.1| TRAP-type C4-dicarboxylate transport system large permease [Herbaspirillum seropedicae SmR1] Length = 426 Score = 172 bits (437), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 121/390 (31%), Positives = 209/390 (53%), Gaps = 8/390 (2%) Query: 199 NLVIFFGLLLGMSVLLGIPIAFCFGLATVAFMLTVTSSPLAVVAGRFDEGMSSLILLAVP 258 N +I F LL + +L G+PI+ GL + F+ T+T P+ VA + G+ ++A+P Sbjct: 2 NALIIFVLLFAL-MLTGMPISISLGLTVLTFLFTMTEVPIQSVALKLFTGIEKFEIMAIP 60 Query: 259 LFILLGHLVEMTGMAKAMVDFLASLVGHVRGGLNYVLLGAMLLVSGISGAKTADMAAVAP 318 FIL G+ + G+A+ M++F S+VGH GGL + A L + +SG+ A + A+ Sbjct: 61 FFILAGNFLTHGGVARRMINFATSMVGHWHGGLALAGVLACALFAAVSGSSPATVVAIGS 120 Query: 319 VLLPEMKRRGNHEGELISLLAASGAMAETIPPSLVLITIGSVAGVSIAALFTGGIMPGIV 378 ++LP M ++G ++ SGA+ IPPS+V++ S+ LF G++PG++ Sbjct: 121 IILPAMVKQGFPNRFGAGVITTSGALGILIPPSIVMVMYSVSTNTSVGKLFMAGVVPGLL 180 Query: 379 LAVLLAILARFRSAEIMDGYQRAPGKVVLRTLAIALPA----LLLPILIRTAVVEGVATA 434 LA LL + F + + + Y R K A A L L +++ + GV T Sbjct: 181 LAFLLGVTTWFLARK--NNYPRLK-KATWAERAAAFRKSGWGLFLIVIVMGGIYTGVFTP 237 Query: 435 TEVSTIGIAYAVVAGLLIYRRFDWKRIYPMLVDTAALSGAILFIIGTATGMSWALTQSGF 494 TE + + YA + +Y+ K++ +L+D+A++S +L+II A S+ +T Sbjct: 238 TEAAAMAAVYAFFIAVFVYKDLTLKQVPKVLLDSASMSAMLLYIITNAVLFSFLVTSENI 297 Query: 495 SHSLAEAMTSVPGGKYGFLLVSIAAFIVLGSVLEGIPAMVLFAPLLFPVAKAIGVHEVHY 554 ++A +T G FLLV ++ G+V+E +++ AP+LFPVA +G+ VH+ Sbjct: 298 PQAMAAWITDSGLGPITFLLVVNILLLLAGNVMEPSSIVLILAPILFPVAMKLGIDPVHF 357 Query: 555 AMVIILSMGVGLFAPPFGLGYYAACTIGRV 584 ++I+++M VG+ PP GL Y A I ++ Sbjct: 358 GILIVVNMEVGMCHPPVGLNLYVASGITKM 387 >gi|300311996|ref|YP_003776088.1| TRAP-type C4-dicarboxylate transport system large permease [Herbaspirillum seropedicae SmR1] Length = 449 Score = 137 bits (345), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 122/420 (29%), Positives = 205/420 (48%), Gaps = 28/420 (6%) Query: 215 GIPIAFCFGLATVAFM-LTVTSSPLAVVAGRFDEGMSSLILLAVPLFILLGHLVEMTGMA 273 G+PIAF G+ FM + S L + E ++S+ LL++PLFIL G + + Sbjct: 21 GMPIAFALGVVATGFMYFFMPESSLDTITQNVYEEIASITLLSIPLFILKGAAIGKSPAG 80 Query: 274 KAMVDFLASLVGHVRGGLNYVLLGAMLLVSGISGAKTADMAAVAPVLLPEMKRRGNHEGE 333 K + + + + V GGL + A L + ++G+ A +A+ +PEM+RRG G Sbjct: 81 KDLYSAIHAWLNKVPGGLGIANVFACALFAAMAGSSPATCSAIGSAGIPEMRRRGYSPGF 140 Query: 334 LISLLAASGAMAETIPPSLVLITIGSVAGVSIAALFTGGIMPGIVLAVLLAILARFR--- 390 ++AA G + +PPS+ +I A S+ LF GI PG++L +L A A +R Sbjct: 141 AAGIIAAGGTLGILLPPSITMILYAVAAEQSLGRLFLAGIGPGVLLVLLFAGYAVYRARK 200 Query: 391 ---------------SAEIMDGYQRAPGKVVLRTLAIALPALLLPILIRTAVVEGVATAT 435 SA + D + KV L LP L+L I + A+ G+AT + Sbjct: 201 EYRLAHAVYSAGGAKSAYLDDEHFTLAQKV--EMLPRVLPFLILLIGVMVALYGGLATPS 258 Query: 436 EVSTIGIAYAVVAGLLIYRRFDWKRIYPMLVDTAALSGAILFIIGTATGMSWALTQSGFS 495 E + +G A+V ++YR + + I P L T SG +L IIG + S+ ++ S Sbjct: 259 ETAGLGALLALVLIAVVYRIYKPREIAPFLSSTIKESGMLLLIIGMSLLYSYVMSYLHIS 318 Query: 496 HSLAEAMTSVPGGKYGFLLVSIAAFIVLGSVLEGIPAMVLFAPLLFPVAKAIGVHEVHYA 555 S A+ + + K+ L V + IVLG L + +++ AP++ P KA G + + Sbjct: 319 QSAAQWVVDLHLSKWLLLAVILGMVIVLGFFLPPVSIILMTAPIILPPLKAAGFDLIWFG 378 Query: 556 MVIILSMGVGLFAPPFGLGYYAACTIGRVHPDVA----VRRIWPYLGILVIGLLIVAFVP 611 +V+ + M +GL PP GL + I + PD+A ++ P+L ++ + +L++ P Sbjct: 379 IVMTVVMEMGLIHPPVGLNLF---VIKNIAPDIALGDVIKGTIPFLALMFLAVLLLCMFP 435 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 0.427 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: 1,651,029 Number of extensions: 63718 Number of successful extensions: 455 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 442 Number of HSP's successfully gapped: 4 Length of query: 618 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 527 Effective length of database: 1,188,985 Effective search space: 626595095 Effective search space used: 626595095 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)