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= 0004.0152.p (465 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312564|ref|YP_003776656.1| outer membrane multidrug resist... 624 e-180 gi|300312015|ref|YP_003776107.1| NodT family protein [Herbaspiri... 230 2e-61 gi|300311423|ref|YP_003775515.1| NodT family protein [Herbaspiri... 216 3e-57 gi|300313898|ref|YP_003777990.1| outer membrane drug efflux lipo... 146 4e-36 gi|300309656|ref|YP_003773748.1| outer membrane drug efflux prot... 124 1e-29 >gi|300312564|ref|YP_003776656.1| outer membrane multidrug resistance lipoprotein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 624 bits (1608), Expect = e-180, Method: Compositional matrix adjust. Identities = 332/482 (68%), Positives = 375/482 (77%), Gaps = 34/482 (7%) Query: 16 PQPRLPGLPRLATLSALAVAALTLAGCAQFSDLGPRAEPKDINAYQSSQSLNATNAQAVA 75 PQ PR ++ A +AA +AGCA FSDLG RA+PK I+ YQS QSL A+ QA A Sbjct: 15 PQRSGRAWPRAVSVLAAVLAATLMAGCASFSDLGERAQPKSIDRYQSQQSLAASAVQA-A 73 Query: 76 WPDDNWWTAYGDKQLNTLMAEALRGAPSMAVASARLLKAEGAAQQQGAALLPQVTGNASL 135 WP D WW YGD QLN L+ EAL+ APSMAVA ARL+KAEGAAQQQGAAL PQV+ NASL Sbjct: 74 WPSDQWWRVYGDAQLNALIDEALQSAPSMAVAKARLMKAEGAAQQQGAALYPQVSANASL 133 Query: 136 DRMKQSYNNGVPADFVPRGYNNX---------------------------------DAAQ 162 DRMKQSYNNGVP DFVP+ YNN DAAQ Sbjct: 134 DRMKQSYNNGVPPDFVPKDYNNATRATLDFSYEIDFWGKNRAALAAATSELEASRADAAQ 193 Query: 163 ARITLATSIAAGYAELERLFSQRDTSQAALQVRQETENLFAQRRLNGLETEGSVKQVVAR 222 ARITLATSIA+ YAEL +L++QRDT++AAL+VR E+ +LF QR NGLET GSVKQ+ AR Sbjct: 194 ARITLATSIASAYAELAQLYAQRDTNEAALKVRVESLDLFNQRFTNGLETRGSVKQMEAR 253 Query: 223 RAMAEADLMAVDESIALQRNKLAALAGAGPDRGLQLARPVIDMSKPFNLPQELPANLLGR 282 RA+A+ADL A DESI LQRNKLAAL GAGPDRGLQL RP ID+S+PF LP +LP LLGR Sbjct: 254 RAIAQADLKATDESIGLQRNKLAALLGAGPDRGLQLTRPQIDLSRPFALPAQLPVELLGR 313 Query: 283 RPDIVAARLRAEAAAKQIKVARAQFYPNVNLSAYFGFQSLGTNLLTQSGSSIGSFGPAIS 342 RPDIVAARLRAEAA KQIKVARA FYPNVNL+AYFGFQSLG ++LT++GS IGS GPAIS Sbjct: 314 RPDIVAARLRAEAAGKQIKVARAAFYPNVNLTAYFGFQSLGIDMLTRAGSDIGSIGPAIS 373 Query: 343 LPIFEGGRLRGQFRSASASYDEAVANYDSAVTQALQDVADVAVSERALSGRLNRTEAAAD 402 LPIF GGRLRGQFRSASASYDEAVANYD AVTQALQDVADV VSE+AL+GRL +AAAD Sbjct: 374 LPIFNGGRLRGQFRSASASYDEAVANYDQAVTQALQDVADVGVSEKALAGRLADVQAAAD 433 Query: 403 AARDAYRIVRNRYEGGLTNYLDVLNAQDTLLTNLRELSTLRSRLFALDVSMVRALGGGYQ 462 AA +AYRIV NRY GGL YLDVLNAQDTL++NLR+LS LRSR+F LDV++VRALGGGY+ Sbjct: 434 AAEEAYRIVSNRYNGGLATYLDVLNAQDTLISNLRQLSDLRSRMFTLDVALVRALGGGYR 493 Query: 463 HA 464 A Sbjct: 494 AA 495 >gi|300312015|ref|YP_003776107.1| NodT family protein [Herbaspirillum seropedicae SmR1] Length = 495 Score = 230 bits (586), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 163/457 (35%), Positives = 233/457 (50%), Gaps = 36/457 (7%) Query: 40 AGCAQFSDLGPRAEPKDINAYQSSQSLNATNAQAV--AWPDDNWWTAYGDKQLNTLMAEA 97 +GCA F+ +G + + + +SL+ N A WP +W +GD QL L+ +A Sbjct: 27 SGCASFAGIGSDRQVAQAGDFATQRSLSDPNPGAPNGQWPGSDWVRQFGDAQLVALVEQA 86 Query: 98 LRGAPSMAVASARLLKAEGAAQQQGAALLPQVTGNASLDRMKQSYNNGVPADFVPRGYNN 157 L +PS+ A AR+ A A+ +GA LLP V AS+ R + S P + YN Sbjct: 87 LTSSPSLQQARARIAAASALAESRGAPLLPSVNAEASVTRNQFSSTTIYPPPYGGNWYNE 146 Query: 158 XDAA--------------------------------QARITLATSIAAGYAELERLFSQR 185 A +AR+ L SI Y++L ++ Sbjct: 147 KKAGLNVGYELDLWNKNQAALAQAISSEKAAQASEQEARLALTASIVTVYSQLAAQYALH 206 Query: 186 DTSQAALQVRQETENLFAQRRLNGLETEGSVKQVVARRAMAEADLMAVDESIALQRNKLA 245 D Q+ + R E + A+R GL+++ Q A A A L + I L R +L Sbjct: 207 DILQSTVDQRTSLEKITAERLRTGLDSQIERDQSRTSSADARAQLAQSEGQIVLLRQQLG 266 Query: 246 ALAGAGPDRGLQLARPVIDMSKPFNLPQELPANLLGRRPDIVAARLRAEAAAKQIKVARA 305 ALAG GPD GLQLA P + LP ELP NL+GRRPDIVAAR + EAA++ + VA+A Sbjct: 267 ALAGKGPDYGLQLAPPALQGLATPGLPAELPLNLMGRRPDIVAARWQVEAASRGVDVAKA 326 Query: 306 QFYPNVNLSAYFGFQSL-GTNLLTQSGSSIGSFGPAISLPIFEGGRLRGQFRSASASYDE 364 +FYP++NLSA GF +L +N T + SI +FGPAI+LPIFEGG LR + ASY+ Sbjct: 327 RFYPDINLSAMIGFDTLLDSNPFTAASKSI-AFGPAITLPIFEGGALRAGLKGEYASYEL 385 Query: 365 AVANYDSAVTQALQDVADVAVSERALSGRLNRTEAAADAARDAYRIVRNRYEGGLTNYLD 424 AVA Y+ + A DVA + A +L A AA AY + R RY GL + L Sbjct: 386 AVATYNKTLNDAYADVARQIAAIHATERQLPIRSEALQAAERAYALARERYRLGLVSQLT 445 Query: 425 VLNAQDTLLTNLRELSTLRSRLFALDVSMVRALGGGY 461 +L+AQ +L + + L+++ V++ +ALGGG+ Sbjct: 446 LLSAQTGVLAQRQAMVALQAQRRDQQVALYKALGGGF 482 >gi|300311423|ref|YP_003775515.1| NodT family protein [Herbaspirillum seropedicae SmR1] Length = 487 Score = 216 bits (551), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 169/483 (34%), Positives = 256/483 (53%), Gaps = 52/483 (10%) Query: 25 RLATLSALAVAALTLAGCAQFSDLGPRAEPKDINAYQSSQSLNATNAQAVAWPDDNWWTA 84 +L L+ +A++ LT+AGCA + P+A+ +D+ + Q++ ++A WP WW A Sbjct: 8 KLPVLTVIALS-LTMAGCADQGGIQPQAQVRDVAVLDAGQAIRQAASEA-GWPQRAWWQA 65 Query: 85 YGDKQLNTLMAEALRGAPSMAVASARLLKAEGAAQQQGAALLPQVTGNASLDRM------ 138 YGD QL+ L+ A+ G PSMAVA+AR+ +A+ A A LP + S+ R Sbjct: 66 YGDAQLDQLVTRAVAGNPSMAVAAARVRQAQSMAVVAHAGELPSAQLDVSVGRKDWSDNV 125 Query: 139 --------KQSYNNGVP------ADFVPRGYNNXDAAQ------------ARITLATSIA 172 K ++NN D R N AQ A++ L ++ Sbjct: 126 YYGAAFRNKLTWNNTATLGLSYNVDLWDRNKNATLRAQDEMHAVAADARAAQLDLEGNVV 185 Query: 173 AGYAELERLFSQRDTSQAALQVRQETENLFAQRRLNGLETEGSVKQVVARRAMAEADLMA 232 Y +L + D ++A L+ Q+ +L +R GL T+ + Q + + A Sbjct: 186 RTYVQLALQYGLLDNTEALLKEEQKILDLAHRRFKGGLGTQLEITQAESPLPETRRQIEA 245 Query: 233 VDESIALQRNKLAALAGAGPDRGLQLARPVIDMSKPFNLPQELPANLLGRRPDIVAARLR 292 + E+IAL RN+LAAL GAGP + RP + + LP LPA+L+GRRPDI AAR R Sbjct: 246 LHENIALIRNQLAALLGAGPGAADGVTRPGMQLQTSLGLPSALPADLVGRRPDISAARWR 305 Query: 293 AEAAAKQIKVARAQFYPNVNL----------SAYFGFQSLGTNLLTQSGSSIGSFGPAIS 342 EAAAK I VA+A FYPN+NL F F S NL T ++GPAIS Sbjct: 306 VEAAAKGISVAKAAFYPNINLLAGIGPAAAGGGLFSFLS-APNLQT-------TYGPAIS 357 Query: 343 LPIFEGGRLRGQFRSASASYDEAVANYDSAVTQALQDVADVAVSERALSGRLNRTEAAAD 402 LPIFEGGRLRGQ +ASA YD V +Y++ ++QAL+ ++D V+ ++++ + + + + Sbjct: 358 LPIFEGGRLRGQLGAASAGYDIEVEHYNALLSQALKGISDQVVTLQSVARQQEQAQQSVQ 417 Query: 403 AARDAYRIVRNRYEGGLTNYLDVLNAQDTLLTNLRELSTLRSRLFALDVSMVRALGGGYQ 462 AA+ I Y+ GLT+YL+VL+AQ L + + L+++ A ++ ALGGG + Sbjct: 418 AAQKNVDIATRAYQRGLTDYLNVLHAQTQWLRQQQIVQQLQAQRLAAYAALQTALGGGIE 477 Query: 463 HAS 465 A+ Sbjct: 478 EAA 480 >gi|300313898|ref|YP_003777990.1| outer membrane drug efflux lipoprotein [Herbaspirillum seropedicae SmR1] Length = 486 Score = 146 bits (368), Expect = 4e-36, Method: Compositional matrix adjust. Identities = 137/461 (29%), Positives = 209/461 (45%), Gaps = 47/461 (10%) Query: 41 GCAQFSDLGPRAEPK-DINAYQSSQSLNATNAQAVAWPDDNWWTAYGDKQLNTLMAEALR 99 GCA D P+ D+ A +S++ + A A P WW +GD QLN L +AL Sbjct: 18 GCASGPDY---TRPQVDMPAAWTSEAPWRSMQPADATPRGPWWERFGDAQLNALQQQALA 74 Query: 100 GAPSMAVASARLLKAEGAAQQQGAALLPQVTGNA-------SLDRMKQSYNN-------- 144 G ++A+A+ARL +A GAA PQV NA S +R +YN+ Sbjct: 75 GNQTLAIATARLAQARAQLNVTGAAQTPQVNLNARAARSRISANRPLTNYNSPNFSTVQN 134 Query: 145 --------GVPADFVPRGYNNX------------DAAQARITLATSIAAGYAELERLFSQ 184 DF R + D R+ L +A Y L L + Sbjct: 135 DFALGASVSYEVDFFGRVQRSVEAAGAAAEQSAADLENTRLLLTAELATNYFNLRELDVE 194 Query: 185 RDTSQAALQVRQETENLFAQRRLNGLETEGSVKQVVARRAMAEADLMAVD---ESIALQR 241 D + A+ ++++ L R G + + Q ++A+ ++ L +D A Sbjct: 195 LDVVRRAIALQRQALELATARHDLGATSGLDMAQ---QQALLDSTLTQIDLLGRQRAQYE 251 Query: 242 NKLAALAGAGPDRGLQLARPVIDMSKPFNLPQELPANLLGRRPDIVAARLRAEAAAKQIK 301 + +A L G P + P + P +P +P+++L RRPDI AA AA QI Sbjct: 252 HAIATLTGT-PAPAFSIT-PSLTPITPPAIPVGVPSDVLERRPDIAAAERAMAAANAQIG 309 Query: 302 VARAQFYPNVNLSAYFGFQSLGTNLLTQSGSSIGSFGPAISLPIFEGGRLRGQFRSASAS 361 VA A +YP+ L +G S L + S + S G + S +F+GGRLR + A Sbjct: 310 VASAAYYPSFMLQPSYGVDSRNWATLFNAPSLLWSLGVSASQSLFDGGRLRAGVDFSQAG 369 Query: 362 YDEAVANYDSAVTQALQDVADVAVSERALSGRLNRTEAAADAARDAYRIVRNRYEGGLTN 421 Y+ VA+Y V A+Q+V D AL +++ A +AR I +RYEGG T Sbjct: 370 YEATVASYRRTVLTAMQEVEDGITGLAALERAYAQSQLAIASARRVLEIASSRYEGGATP 429 Query: 422 YLDVLNAQDTLLTNLRELSTLRSRLFALDVSMVRALGGGYQ 462 YLDV+ AQ +LL + R+ + L + + V +++ALGG +Q Sbjct: 430 YLDVITAQQSLLNSERQAAQLMGQRLLVSVFLIKALGGDWQ 470 >gi|300309656|ref|YP_003773748.1| outer membrane drug efflux protein [Herbaspirillum seropedicae SmR1] Length = 504 Score = 124 bits (312), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 121/420 (28%), Positives = 193/420 (45%), Gaps = 41/420 (9%) Query: 80 NWWTAYGDKQLNTLMAEALRGAPSMAVASARLLKAEGAAQQQGAALLPQVTGNASLDRMK 139 WW +GD++LN L A + + A+ARL +A + A PQV R + Sbjct: 77 EWWKIFGDEKLNALEDTAQQANQDLKAAAARLGQARALTRDARAGYFPQVDAGVGATRQR 136 Query: 140 QS-YNNGVPADFVPRGYNNXDAAQARIT--------LATSIAAGYAELER---LFS---- 183 S + G+PAD R N AQ ++ +A+++ A A+ +R LF Sbjct: 137 PSPASQGLPADADTRP-NTLYRAQVNVSYEVDLFGRVASTVDAATADAQRSEALFHSVLL 195 Query: 184 --QRDTSQ----------------AALQVRQETENLFAQRRLNGLETEGSVKQVVARRAM 225 Q D +Q + +RQE+ L +R G +E V + A A Sbjct: 196 ALQADVAQQYFLVRELDAAAALYRGTVDLRQESLRLVQRRFDEGDISEVDVARARAELAS 255 Query: 226 AEADLMAVDESIALQRNKLAALAGAGPDRGLQLARPVIDMSKPFNLPQELPANLLGRRPD 285 A+++ + + A + LA L G P +P+ ++ +P LP+ LL RRPD Sbjct: 256 AQSEALGIARQRATAEHALAILLGRTPAEFSLPPQPLTRLA--VTVPPGLPSALLERRPD 313 Query: 286 IVAARLRAEAAAKQIKVARAQFYPNVNLSAYFGFQSLGTNLLTQSGSSIGSFGP----AI 341 I AA AA ++ VA++ F+P++NL+ G++S L S GP A+ Sbjct: 314 IAAAERAMAAANARVGVAKSAFFPSLNLTGGLGYESAQLGDLFNWSSRTFLLGPLVGTAL 373 Query: 342 SLPIFEGGRLRGQFRSASASYDEAVANYDSAVTQALQDVADVAVSERALSGRLNRTEAAA 401 S+P+F+GGR + A ASY+E VA+Y V A ++V D + R L + + A Sbjct: 374 SMPLFDGGRRQAGVDRARASYEEQVASYRGTVLNAFREVEDNLANLRILDQQNRAQDEAV 433 Query: 402 DAARDAYRIVRNRYEGGLTNYLDVLNAQDTLLTNLRELSTLRSRLFALDVSMVRALGGGY 461 A+ A ++ +Y G +Y V++A T+L R TL V+++RALGGG+ Sbjct: 434 AASARAAKLSHTQYREGAVSYFSVIDADRTVLQQQRASVTLDGERARSTVNLIRALGGGW 493 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 0.315 0.129 0.356 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: 1,211,419 Number of extensions: 42819 Number of successful extensions: 221 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 190 Number of HSP's successfully gapped: 18 Length of query: 465 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 376 Effective length of database: 1,198,455 Effective search space: 450619080 Effective search space used: 450619080 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 132 (55.5 bits)