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= 0003.0056.p (953 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312861|ref|YP_003776953.1| multidrug ABC transporter ATPas... 804 0.0 gi|300312862|ref|YP_003776954.1| ADP-heptose:LPS heptosyltransfe... 592 e-170 gi|300312733|ref|YP_003776825.1| multidrug ABC transporter ATPas... 193 7e-50 gi|300311488|ref|YP_003775580.1| multidrug ABC transporter ATPas... 170 5e-43 gi|300313154|ref|YP_003777246.1| Fe-S cluster assembly ABC trans... 164 4e-41 >gi|300312861|ref|YP_003776953.1| multidrug ABC transporter ATPase/permease [Herbaspirillum seropedicae SmR1] Length = 578 Score = 804 bits (2076), Expect = 0.0, Method: Compositional matrix adjust. Identities = 422/483 (87%), Positives = 455/483 (94%) Query: 1 LSHNMKRLAALHWPHKKRLAIAFLAMIVTAATEPVVPYIFQVLLDKGFVGKPAFSLWLVP 60 LS+NMKRLAALHWP+KKRLA+AF+AMIVTAATEPVVPYIFQVLLDKGFVGKPAFSLWLVP Sbjct: 2 LSNNMKRLAALHWPYKKRLAVAFIAMIVTAATEPVVPYIFQVLLDKGFVGKPAFSLWLVP 61 Query: 61 VAVIGIFFIRGIATFTSSYMMTWVSTRILNELRRQMFARMLDLPINFYATNTVGKVINSM 120 VAVIGIFFIRGIATFTSSYMMTWVSTRILNELRRQMFARMLDLP++FYATNTVGKVINSM Sbjct: 62 VAVIGIFFIRGIATFTSSYMMTWVSTRILNELRRQMFARMLDLPLHFYATNTVGKVINSM 121 Query: 121 MFEVQQIIDMVTKVFTSIVRSALTVLGLLAWLLYLNWMLTIVTLVLLPLVSIVVRTTGKR 180 MFEVQQIIDMVTKVFTSI+RSALTVLGLLAWLLYLNW+LTIVTLVLLPLV++VVRTTGKR Sbjct: 122 MFEVQQIIDMVTKVFTSILRSALTVLGLLAWLLYLNWVLTIVTLVLLPLVTLVVRTTGKR 181 Query: 181 LKKLNRDSLAVNAELTQVIEETTRAQQVIKVFGGHEYEKGRFHDRAENLRRYTMRMTTAF 240 LKKLNRDSLAVNAE+TQVIEETTRAQQVIK+FGG +YEK RF+ RAENLR YTMRMT AF Sbjct: 182 LKKLNRDSLAVNAEMTQVIEETTRAQQVIKIFGGQDYEKERFNRRAENLRSYTMRMTAAF 241 Query: 241 SATVPITQLMTACAVAVVIVMALIQSGNGQITVGGFVSFLTAMLMLLAPLKQLAEINGPL 300 S+TVPITQLMTA AVAVVIVMALIQSGNGQITVGGFVSF+TAMLMLL PLKQLAEINGPL Sbjct: 242 SSTVPITQLMTATAVAVVIVMALIQSGNGQITVGGFVSFITAMLMLLTPLKQLAEINGPL 301 Query: 301 QRGMAAAEEVYNLIDKTTERTGGETLSARSTGKLDLVDVEFSYPGHTQLALQKINLNVQP 360 QRGMAAAEEVY LIDKTTER GE L+ R+TG+LD V+V F+YPGH QLAL+ INL+V+ Sbjct: 302 QRGMAAAEEVYKLIDKTTERITGEALAGRATGQLDFVEVGFAYPGHEQLALKNINLHVEA 361 Query: 361 GETIAFVGMSGGGKSTLVSLIPGFYSATGGQILLDGKPIESISLTSLRSQIAMVSQNTVL 420 GETIAFVGMSGGGKSTLVSLIPGFYS + G+I LDG+ IE+ISL SLR QIAMV+QNTVL Sbjct: 362 GETIAFVGMSGGGKSTLVSLIPGFYSCSSGEIRLDGRDIETISLPSLRQQIAMVNQNTVL 421 Query: 421 FDDTLAANIAYGDAQPDPQRIRAAVVAAHLTDVVEGMPEGLETRIGDNGSRLSGGQRQRV 480 FDDTLAANIAYGDA PDP R+ AAV AAHLTDVV G+PEGL+TR+GDNGSRLSGGQRQRV Sbjct: 422 FDDTLAANIAYGDANPDPARVEAAVEAAHLTDVVAGLPEGLQTRLGDNGSRLSGGQRQRV 481 Query: 481 AIA 483 AIA Sbjct: 482 AIA 484 >gi|300312862|ref|YP_003776954.1| ADP-heptose:LPS heptosyltransferase [Herbaspirillum seropedicae SmR1] Length = 367 Score = 592 bits (1525), Expect = e-170, Method: Compositional matrix adjust. Identities = 283/366 (77%), Positives = 314/366 (85%), Gaps = 4/366 (1%) Query: 587 TLIPPALLKKSDKILFIAHLALGDFTYLQNFFQAFARANPHLKVHLWVDEVRRTSDPAQW 646 TLIP LLKKSDKILFIAHLALGDFTYLQNFF+AFA +PHLKVHLWVDEVRRT+D +QW Sbjct: 6 TLIPADLLKKSDKILFIAHLALGDFTYLQNFFKAFAAQHPHLKVHLWVDEVRRTADSSQW 65 Query: 647 KHLEKYSLYDWVAACPFFDKIYTRTYSPALYQESIEEAQREHYPIVVSLATLRPHLYAGL 706 HL+KY+LYDW AACPFF K+YTRTYSPALY++SIEEA+ EHYPIVVSLATLRPHLYAGL Sbjct: 66 PHLQKYALYDWTAACPFFAKVYTRTYSPALYRDSIEEARAEHYPIVVSLATLRPHLYAGL 125 Query: 707 ARSISPDGLVIGMKKRVKFYQPHHQLAYRKLNASIPPYSVDRANPQHISDVYAHWFNQLS 766 AR ISP+G V+GMKK+V QPHH LAYRKL+A +PPY + HISDVYAHWF QLS Sbjct: 126 AREISPEGWVVGMKKKVSLLQPHHLLAYRKLDAVMPPYRSSQPE-HHISDVYAHWFRQLS 184 Query: 767 GLEVATAERFPFVDIPQQWRDYAQEKLTSWGFKTADGNTGKLVFINPYAKTKKRCWPLEH 826 GLEV RFPFVDIP QWR YAQ++L +W F TGKLVFINPYAKT+KRCWPLEH Sbjct: 185 GLEVTGQARFPFVDIPPQWRQYAQDQLAAWQFAP---RTGKLVFINPYAKTRKRCWPLEH 241 Query: 827 VAELIIAMKKLEAWRDSSFIVNAVPQELEHARAVISGYQLEHTELFSAEENFFQLPAILE 886 VA+LI AM++ E W+D+ IVNAVPQEL HAR VI Y L+ TELFSAEENFFQLPA+L Sbjct: 242 VADLIQAMQQREGWQDARVIVNAVPQELAHAREVIGRYGLQGTELFSAEENFFQLPAMLA 301 Query: 887 RCDLIISVETAVMHLANAVHVPVIALMRQKNPEWVPIDRANSTVITAPNRRDWVKAVTVE 946 CDLIISVETAVMHLANAVHVPVIALMRQKNPEWVP+DRA+STVITAP RRDWVKAV+VE Sbjct: 302 ACDLIISVETAVMHLANAVHVPVIALMRQKNPEWVPVDRAHSTVITAPGRRDWVKAVSVE 361 Query: 947 QVLKAI 952 QV+KAI Sbjct: 362 QVMKAI 367 >gi|300312733|ref|YP_003776825.1| multidrug ABC transporter ATPase/permease [Herbaspirillum seropedicae SmR1] Length = 614 Score = 193 bits (490), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 150/481 (31%), Positives = 241/481 (50%), Gaps = 13/481 (2%) Query: 14 PHKKRLAIAFLAMIVTAATEPVVPYIFQVLLDKGFVG---KPAFSLWLVPVAVIGIFFIR 70 P+KK+ +A LA++V AA VPY F+ ++D GF K A + L +A+ G+ I Sbjct: 45 PYKKQFLLAGLALVVAAAATLAVPYAFKQMIDLGFGAAGSKSASHINLYFLALFGVACIL 104 Query: 71 GIATFTSSYMMTWVSTRILNELRRQMFARMLDLPINFYATNTVGKVINSMMFEVQQIIDM 130 G+AT YM++W+ R+ +LR ++A ++ F+ T G+V++ + + I + Sbjct: 105 GVATALRFYMVSWLGERVTADLRSAVYAHVVTQSPEFFETTKTGEVLSRLTTDTTLIQTL 164 Query: 131 VTKVFTSIVRSALTVLGLLAWLLYLNWMLTIVTLVLLPLVSIVVRTTGKRLKKLNRDSLA 190 V + +R+AL +G ++ L + + LT + +V+L V + + G+R++KL+R S Sbjct: 165 VGTSISMALRNALLFIGGMSMLFFTSARLTSIIIVMLAAVVLPIVFYGRRVRKLSRASQD 224 Query: 191 VNAELTQVIEETTRAQQVIKVFGGHEYEKGRFHDRAENLRRYTMRMTTAFSATVPITQLM 250 A+ + + E A ++ F E E RF E M A S + L+ Sbjct: 225 RVADASAMAGEILNAMPTVQAFTHEEIEARRFAQSVERAFGTAMERVRARSLLTVVAILL 284 Query: 251 TACAVAVVIVMALIQSGNGQITVGGFVSFLTAMLMLLAPLKQLAEINGPLQRGMAAAEEV 310 A+ V+ + G ++ G F+ ++ L L+E+ G QR A E + Sbjct: 285 VFGAIVFVLWLGAHAVMEGSMSGGELGQFILYASLVAGSLGALSEVMGDTQRAAGATERL 344 Query: 311 YNLIDKTTERTG---GETLSARST--GKLDLVDVEFSYP---GHTQLALQKINLNVQPGE 362 +L+ + E L R+ L + V+F YP GH +L +++L VQPGE Sbjct: 345 LDLLAAHSPVQSVLLPEKLPPRTANGAALTVQGVDFHYPSRPGHP--SLTQLSLTVQPGE 402 Query: 363 TIAFVGMSGGGKSTLVSLIPGFYSATGGQILLDGKPIESISLTSLRSQIAMVSQNTVLFD 422 T+A VG SG GK+TL L+ FY GQILLDG I + L +LR I +V Q+TV+F Sbjct: 403 TVAIVGPSGAGKTTLFQLLLRFYDPQQGQILLDGVDIRYLDLQALRGAIGIVPQDTVIFS 462 Query: 423 DTLAANIAYGDAQPDPQRIRAAVVAAHLTDVVEGMPEGLETRIGDNGSRLSGGQRQRVAI 482 NI +G + + AA A + +E +P +G+ G RLSGGQRQR+AI Sbjct: 463 ANAMENIRFGRPEASDAEVIAAAQMAAAHEFIERLPGSYACFLGERGVRLSGGQRQRIAI 522 Query: 483 A 483 A Sbjct: 523 A 523 >gi|300311488|ref|YP_003775580.1| multidrug ABC transporter ATPase/permease [Herbaspirillum seropedicae SmR1] Length = 758 Score = 170 bits (431), Expect = 5e-43, Method: Compositional matrix adjust. Identities = 134/491 (27%), Positives = 239/491 (48%), Gaps = 22/491 (4%) Query: 7 RLAALHWPHKKRLAIAFLAMIVTAATEPVVPYIFQVLLDKGFV----GKPA----FSLWL 58 RL+ P+K L + FL + + A V PY+ L+D + G P +L+L Sbjct: 170 RLSRFAKPYKGSLLLGFLLTLASTAATLVPPYMTMPLMDNVLIPFQNGAPIDTHLATLYL 229 Query: 59 VPVAVIGIFFIRGIATFTSSYMMTWVSTRILNELRRQMFARMLDLPINFYATNTVGKVIN 118 ++G + + +Y++ VS RI +LR ++ +L L ++ G ++ Sbjct: 230 S--GLLGAAVLAWGLGWARTYILALVSERIGADLRTTTYSHLLRLSQEYFGGKRTGDLMA 287 Query: 119 SMMFEVQQIIDMVTKVFTSIVRSALTVLGLLAWLLYLNWMLTIVTLVLLPLVSIVVRTTG 178 + E +I ++ L ++ A L+ +N L +VTL+ LP ++ ++ Sbjct: 288 RIGSETDRICVFLSLHLLDFAIDVLMIIMTAAILISINPWLALVTLLPLPFIAWMIHVVR 347 Query: 179 KRLK----KLNRDSLAVNAELTQVIEETTRAQQVIKVFGGHEYEKGRFHDRAENLRRYTM 234 RL+ K++R + +E+T V+ +T +V+K F + E RF + + Sbjct: 348 DRLRHGFEKIDR----IWSEVTNVLADTIPGIRVVKAFAQEKREVARFREANRHNLMVND 403 Query: 235 RMTTAFSATVPITQLMTACAVAVVIVMALIQSGNGQITVGGFVSFLTAMLMLLAPLKQLA 294 R+ +S P +T + VV V + Q + QITVG +FL + L ++ Sbjct: 404 RVNKIWSLFTPTVTFLTEVGLLVVWVFGIWQVSSNQITVGVLTAFLAYISRFYTRLDSMS 463 Query: 295 EINGPLQRGMAAAEEVYNLIDKTTE--RTGGETLSARSTGKLDLVDVEFSYPGHTQLALQ 352 I Q+ A A+ +++++D + + G +++ ++ F Y + ++ Sbjct: 464 RIVSVTQKAAAGAKRIFDILDHVSSVPEPANPVHLEKVQGAIEVRNIGFRY--GNRAVIR 521 Query: 353 KINLNVQPGETIAFVGMSGGGKSTLVSLIPGFYSATGGQILLDGKPIESISLTSLRSQIA 412 ++L++ PGE I VG SG GKST+V+LI FY + G I +DG I S+ ++ R I Sbjct: 522 NMSLSIAPGEMIGLVGHSGSGKSTMVNLICRFYDVSEGAIRIDGVDIRSLPISEYRRNIG 581 Query: 413 MVSQNTVLFDDTLAANIAYGDAQPDPQRIRAAVVAAHLTDVVEGMPEGLETRIGDNGSRL 472 +V Q LF T+A NIAYG + + I AA AAH + + +P+G ++ +G+ G L Sbjct: 582 LVLQEPFLFFGTIAENIAYGKPEATREEIIAAARAAHAHEFILRLPQGYDSLVGERGQAL 641 Query: 473 SGGQRQRVAIA 483 SGG+RQR++IA Sbjct: 642 SGGERQRISIA 652 >gi|300313154|ref|YP_003777246.1| Fe-S cluster assembly ABC transporter permease/ATPase [Herbaspirillum seropedicae SmR1] Length = 634 Score = 164 bits (414), Expect = 4e-41, Method: Compositional matrix adjust. Identities = 141/486 (29%), Positives = 237/486 (48%), Gaps = 23/486 (4%) Query: 13 WPHKKRLAIAFLAMIVTAATEPV-VPYIFQVLLDKGFVG--KPAFSLWLVPVAVIGIFFI 69 W +K R+ +A LA +V A V VP + + L+D + P L L ++ + Sbjct: 33 WTYKWRVLLA-LAFLVGAKLANVGVPLVLKRLVDAMTITPTHPQALLVLPLGLLVAYGAL 91 Query: 70 R-GIATFTS--SYMMTWVSTRILNELRRQMFARMLDLPINFYATNTVGKVINSMMFEVQQ 126 R A FT M V+ R + + Q+F + L + F+ G + + + Sbjct: 92 RLATALFTELRELMFARVTQRAVRTIALQVFRHLHALSLRFHLNRQTGGMTRDIERGTRG 151 Query: 127 IIDMVTKVFTSIVRSALTVLGLLAWLL--YLNW--MLTIVTLVLLPLVSIVV---RTTGK 179 + +V+ SI+ + + + +LA+L+ Y W ++T LV L +I V RT + Sbjct: 152 VSSLVSYTLFSILPTLIEIALVLAYLITHYDVWFSVITAGALVCYILFTITVTEWRTHFR 211 Query: 180 RLKKLNRDSLAVNAELTQVIEETTRAQQVIKVFGGHEYEKGRFHDRAENLRRYTMRMTTA 239 R DS A + ++ T +K FG E+E R+ + + R ++ ++ Sbjct: 212 RTMN-ELDSHANTRAIDSLLNYET-----VKYFGNEEFEARRYDEGLQRYERAAVKSQSS 265 Query: 240 FSATVPITQLMTACAVAVVIVMALIQSGNGQITVGGFVSFLTAMLMLLAPLKQLAEINGP 299 S + A AV +++ A + +G +T+G V M+ L PL L + Sbjct: 266 LSLLNTGQSAIIAIAVTLILWRATVGVIDGSMTLGDMVLVNAFMIQLYIPLNFLGVLYRE 325 Query: 300 LQRGMAAAEEVYNLIDKTTERTGGETLSARST--GKLDLVDVEFSYPGHTQLALQKINLN 357 +++ +A E +++L+++ E T L V+FSY + Q+ L ++ Sbjct: 326 IKQSLADMERLFSLLEEHREVADSADAKPLKTQGANLHFDHVDFSYERNRQI-LFDVDFT 384 Query: 358 VQPGETIAFVGMSGGGKSTLVSLIPGFYSATGGQILLDGKPIESISLTSLRSQIAMVSQN 417 VQ G T A VG SG GKSTL L+ FY G I +DG+ + +++ SLR I +V Q+ Sbjct: 385 VQAGTTTAVVGHSGSGKSTLSRLLYRFYDVDAGAIRIDGQDLRTVTQASLRQAIGIVPQD 444 Query: 418 TVLFDDTLAANIAYGDAQPDPQRIRAAVVAAHLTDVVEGMPEGLETRIGDNGSRLSGGQR 477 TVLF+DT+ NIAYG ++I AA AA++ D +E +P+G + +G+ G +LSGG++ Sbjct: 445 TVLFNDTIEYNIAYGKPGATREQIVAAAKAAYIHDFIESLPDGYASMVGERGLKLSGGEK 504 Query: 478 QRVAIA 483 QRVAIA Sbjct: 505 QRVAIA 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 0.322 0.135 0.402 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: 2,795,343 Number of extensions: 115085 Number of successful extensions: 631 Number of sequences better than 1.0e-08: 44 Number of HSP's gapped: 624 Number of HSP's successfully gapped: 44 Length of query: 953 Length of database: 1,619,870 Length adjustment: 94 Effective length of query: 859 Effective length of database: 1,174,780 Effective search space: 1009136020 Effective search space used: 1009136020 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 135 (56.6 bits)