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= 0001.4381.p (501 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313782|ref|YP_003777874.1| transmembrane protein [Herbaspi... 622 e-179 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 418 e-118 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 413 e-116 gi|300310865|ref|YP_003774957.1| response regulator containing a... 171 2e-43 gi|300312843|ref|YP_003776935.1| response regulator containing a... 160 3e-40 >gi|300313782|ref|YP_003777874.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 475 Score = 622 bits (1604), Expect = e-179, Method: Compositional matrix adjust. Identities = 297/475 (62%), Positives = 371/475 (78%), Gaps = 3/475 (0%) Query: 11 MAVIITSIVLYQSYRQIERTSINHALNVTRIAQRSISRNVELLSLALDSLVWRYRHTQLH 70 M ++ VLYQS+RQ+ER +I H N+ RIAQRSISRNVELL+LALDSL WRYRHTQLH Sbjct: 1 MTATVSCAVLYQSHRQVERAAIEHGANIARIAQRSISRNVELLTLALDSLTWRYRHTQLH 60 Query: 71 QMPPAQQLDFLLGEKVEASYIAALGIVNAEGELIVGSPSLAEIMPGNFAGRDFFEQQRHE 130 +MP Q+++FLLGE +EA Y+AALGIV+ +GEL+VGS +L++I+PG +A DFF + Sbjct: 61 EMPLQQKMEFLLGENIEARYVAALGIVDTDGELVVGSAALSQILPGPYAQSDFFTAHQTH 120 Query: 131 LA---SGLYISSPLSVRMERRLHVLVLSKRLVNADGRFAGIAFMVLYLDYFRQLFEGLSL 187 A +GLYIS+PL+VR+ERR+ V+VLSKRL DG FAGI+ MVLYLDYFR LF+GL+L Sbjct: 121 HAQGDTGLYISAPLTVRLERRMQVVVLSKRLAQPDGSFAGISLMVLYLDYFRDLFQGLTL 180 Query: 188 EKNAVMSLYTTSGVAYMRLPYDEAFIGSRLDNVPDLQRMTSPQAPQQGSYFARSRQDGVK 247 E + V+SLY+ G+AYMR+PY+EAFIGSRL+ DL+R+ SP P QGSYFAR++QDG + Sbjct: 181 ENDGVISLYSADGLAYMRIPYNEAFIGSRLNISEDLERIFSPSGPAQGSYFARAQQDGPR 240 Query: 248 RLYAYVRVPHTNWVVFIGRTKAELFRDWTRMFYAVLLLTAAFSTASIYLISRLREEFFRR 307 LY + RVP T W VFIGRT A +FR+W M YAVL L A+F ASIYLI R+R E RR Sbjct: 241 WLYTFARVPGTGWTVFIGRTGARIFREWYNMLYAVLFLMASFCIASIYLIRRVRVELQRR 300 Query: 308 GKLDLQLEQQARTDKLTSLLNRRALDEALQEAWHKSQRNSTTRFAVLFADVDFFKLYNDT 367 LD QLE+ ARTDKLTSLLNRRALDEAL AW +++ N F++LF DVDFFKLYNDT Sbjct: 301 SALDQQLEELARTDKLTSLLNRRALDEALARAWKRAEENPDAIFSLLFVDVDFFKLYNDT 360 Query: 368 YGHKAGDYALVAVARCIQGAVARQCDKTGRFGGEEFVALLDEADAQGALHVASNILTSLQ 427 YGHKAGDYAL+AV+RCI AV+R D++GR+GGEEFV LL+ D GA HVA I++++Q Sbjct: 361 YGHKAGDYALMAVSRCIVAAVSRLSDQSGRYGGEEFVVLLNGTDTVGATHVAKRIISAIQ 420 Query: 428 ALKIPHERSPFGRLSLSIGVACLDRDLHQSMEEVVKAADEALYQAKRAGRNRVQL 482 +LKIPHERSPF L++SIGV L R+ H S+E+VVK AD ALY+AK+ GRN+ L Sbjct: 421 SLKIPHERSPFDILTVSIGVTSLLREHHSSIEDVVKDADAALYRAKQDGRNKHSL 475 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 418 bits (1075), Expect = e-118, Method: Compositional matrix adjust. Identities = 210/474 (44%), Positives = 307/474 (64%), Gaps = 1/474 (0%) Query: 10 LMAVIITSIVLYQSYRQIERTSINHALNVTRIAQRSISRNVELLSLALDSLVWRYRHT-Q 68 LM + I++ LYQSY+Q ++++++A NVT ++QR+ISRN+E+LSL+LD+L +R++H Sbjct: 38 LMVMAISASTLYQSYQQTRQSAVSNASNVTLVSQRAISRNLEMLSLSLDTLAYRFQHPLS 97 Query: 69 LHQMPPAQQLDFLLGEKVEASYIAALGIVNAEGELIVGSPSLAEIMPGNFAGRDFFEQQR 128 ++ AQ+ +L G S+IA + +++A+G + V S ++A R +F R Sbjct: 98 ARRLNDAQRYAYLFGSTTNVSHIAVMAVLDADGRVQVSSRLGRGNGAPHYADRAYFIAHR 157 Query: 129 HELASGLYISSPLSVRMERRLHVLVLSKRLVNADGRFAGIAFMVLYLDYFRQLFEGLSLE 188 GLY+S P+ + L V+VLSKRL N DG FAG+ M L L YFR+LFEGL+L Sbjct: 158 DSPTVGLYVSRPMQASLGNELQVVVLSKRLSNEDGSFAGVVVMALDLAYFRELFEGLALG 217 Query: 189 KNAVMSLYTTSGVAYMRLPYDEAFIGSRLDNVPDLQRMTSPQAPQQGSYFARSRQDGVKR 248 ++SLY+ G+AYMR+PY E IG + + QR+ + + ++GS+FA + DGV+R Sbjct: 218 DEGIISLYSDEGIAYMRVPYRETIIGRDISQTGNFQRLRAMLSEEEGSFFAHATNDGVRR 277 Query: 249 LYAYVRVPHTNWVVFIGRTKAELFRDWTRMFYAVLLLTAAFSTASIYLISRLREEFFRRG 308 LY + R+P + +VF+G + +F+ W + FYAVL+ A F + +L+ +R+E RR Sbjct: 278 LYTFRRIPGSPLIVFVGYAEEAIFKTWRKTFYAVLVSLAIFGLLTAWLLLHVRQELRRRV 337 Query: 309 KLDLQLEQQARTDKLTSLLNRRALDEALQEAWHKSQRNSTTRFAVLFADVDFFKLYNDTY 368 + QLE ARTD LT LLNRRALDEALQ W + QRN F+VLF DVD+FK YNDTY Sbjct: 338 TAERQLEALARTDGLTDLLNRRALDEALQATWERCQRNLGASFSVLFIDVDYFKAYNDTY 397 Query: 369 GHKAGDYALVAVARCIQGAVARQCDKTGRFGGEEFVALLDEADAQGALHVASNILTSLQA 428 GHK GD L VA + + R D GR+GGEEFV LL++ D QGA +A + +++ Sbjct: 398 GHKLGDTVLKEVAATLTARLPRHTDCAGRYGGEEFVVLLEQTDLQGAQMMAQRLCDAVRE 457 Query: 429 LKIPHERSPFGRLSLSIGVACLDRDLHQSMEEVVKAADEALYQAKRAGRNRVQL 482 I H SP +++S+GVA L+RD H+ +E+V+ AAD ALY+AK+AGR+RV L Sbjct: 458 RHIAHTSSPLAVVTISVGVATLERDHHRRVEDVLNAADAALYRAKQAGRDRVHL 511 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 413 bits (1062), Expect = e-116, Method: Compositional matrix adjust. Identities = 215/495 (43%), Positives = 305/495 (61%), Gaps = 10/495 (2%) Query: 1 MTLTISSLALMAVIITSIVLYQSYRQIERTSINHALNVTRIAQRSISRNVELLSLALDSL 60 + L + + +M + I LY+ YRQ ++I A NVT I QR+ISRN+E+LSLA+D+L Sbjct: 8 LALILGLIIMMVLSICGASLYEGYRQTRISAITEANNVTLIVQRAISRNMEILSLAMDTL 67 Query: 61 VWRYRHT-QLHQMPPAQQLDFLLGEKVEASYIAALGIVNAEGELIV-----GSPSLAEIM 114 +RY+H L ++ ++L G A +I AL I++A+G + V SPS+ Sbjct: 68 AYRYQHPLDLTHASDEERYNYLFGSTAAAHHITALAILDADGYVRVTSRRSASPSVVV-- 125 Query: 115 PGNFAGRDFFEQQRHELASGLYISSPLSVRMERRLHVLVLSKRLVNADGRFAGIAFMVLY 174 N++ R +F R +GL+IS P+ + L V+VLSKRL DG F G+ M L Sbjct: 126 --NYSERTYFTVHRDSADAGLFISRPIKANLGNELPVVVLSKRLSRKDGSFDGVVLMALD 183 Query: 175 LDYFRQLFEGLSLEKNAVMSLYTTSGVAYMRLPYDEAFIGSRLDNVPDLQRMTSPQAPQQ 234 + YFR LF GL+L ++ +MSLY+ GV YMR+PY + IG + N P+ QR+ + Sbjct: 184 MSYFRDLFTGLTLGEDGIMSLYSDDGVTYMRVPYHPSSIGREITNNPNFQRLRAMLVDND 243 Query: 235 GSYFARSRQDGVKRLYAYVRVPHTNWVVFIGRTKAELFRDWTRMFYAVLLLTAAFSTASI 294 G++FAR+ DGV+RLY + R+P +V +GR++ +F+ W Y+VLLL F+ + Sbjct: 244 GNFFARAHTDGVERLYTFRRIPDAPLIVLLGRSERFIFKTWYDTLYSVLLLLIIFTALAG 303 Query: 295 YLISRLREEFFRRGKLDLQLEQQARTDKLTSLLNRRALDEALQEAWHKSQRNSTTRFAVL 354 L+ +R E +R + QLE ARTD LT LLNRR+LDEAL W +SQR+ T F+ L Sbjct: 304 VLLMLVRRELLKRVAAEKQLEDLARTDGLTGLLNRRSLDEALLAVWQRSQRSPTAGFSTL 363 Query: 355 FADVDFFKLYNDTYGHKAGDYALVAVARCIQGAVARQCDKTGRFGGEEFVALLDEADAQG 414 F DVD+FK YNDTYGH+ GD L AVA ++ + RQ D GR+GGEEFV LL++ D G Sbjct: 364 FIDVDYFKRYNDTYGHEMGDTVLQAVAAVLREHLQRQNDLAGRYGGEEFVVLLEQTDEHG 423 Query: 415 ALHVASNILTSLQALKIPHERSPFGRLSLSIGVACLDRDLHQSMEEVVKAADEALYQAKR 474 AL +A + ++ IPH SP G +S+SIGVA ++R HQ ME+V+ AAD ALY AKR Sbjct: 424 ALRMAQQLCEAIYNRGIPHSGSPLGVISVSIGVATMNRAPHQRMEDVLNAADHALYIAKR 483 Query: 475 AGRNRVQLYRPARAE 489 GRNRV + P + + Sbjct: 484 EGRNRVCVAHPGQND 498 >gi|300310865|ref|YP_003774957.1| response regulator containing a CheY-like receiver domain and a GGDEF domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 554 Score = 171 bits (432), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 128/430 (29%), Positives = 204/430 (47%), Gaps = 36/430 (8%) Query: 79 DFLLGEKVEASYIAALGIVNAEGELIVGSPSLAEIMPGNFAGRDFFEQQRHELASGLYIS 138 DF++ +A L +V+ +G + S + G+ D+F+ +H + +I Sbjct: 104 DFMIRSVASLPQLAQLTVVDEQGRTVASSQQRM-VQTGSPVQDDYFQYHQHRRSDRPFIG 162 Query: 139 SPLSVRMERRLHV-----LVLSKRLVNADGRFAGIAFMVLYLDYFRQLFEGLSLEKNAVM 193 P+ R HV L +S+R+ + DG FAG+ + L YF++ +E ++ + V+ Sbjct: 163 QPM------RSHVTGQRTLTVSRRINHVDGSFAGVIVAEIDLAYFQRYYEQFNIGPHGVI 216 Query: 194 SLYTTSGVAYMRLPYDEAFIGSRLDNVPDLQRMTSPQAPQ--QGSYFARSRQDGVKRLYA 251 T G +R P + D P + Q +GS+ RS +DGV+R+ Sbjct: 217 LFGLTGGSLILRRP----LLADMTDRSPAMSEALRKHMEQARRGSFAMRSERDGVERISC 272 Query: 252 YVRVPHTNWVVFIGRTKAELFRDWTRMFY----AVLLLTAAFSTASIYLI----SRLREE 303 + + + K ++ DW+R + V+LL A L+ R R E Sbjct: 273 FQQGEAYPIFTVVALAKDDILEDWSRHVWVRGIGVVLLLAVICFGGKRLVVLVAGRERAE 332 Query: 304 ---FFRRGKLD---LQLEQQARTDKLTSLLNRRALDEALQEAWHKSQRNSTTRFAVLFAD 357 R +L+ LE Q++ D LT + NRR D AL + R + +++ D Sbjct: 333 AQAIAARQELESLYRTLEAQSQKDGLTDVFNRRYFDAALAAELARLNRTGES-LSLMMID 391 Query: 358 VDFFKLYNDTYGHKAGDYALVAVARCIQGAVARQCDKTGRFGGEEFVALLDEADAQGALH 417 VD FK +NDTYGH AGD L VA I RQ D R+GGEEF +L A Sbjct: 392 VDHFKQFNDTYGHAAGDVCLRQVAAAISTVARRQGDIVARYGGEEFAVILPNCHPGSAQG 451 Query: 418 VASNILTSLQALKIPHERSPFGRLSLSIGVACL--DRDLHQSMEEVVKAADEALYQAKRA 475 +A ++ +++ L+I HERSP G +++S+GVA L + L E++ +AD ALY+AK Sbjct: 452 LAHRVVQAVRGLEIAHERSPMGVVTISVGVASLASGKSLLIEPRELIDSADGALYRAKEE 511 Query: 476 GRNRVQLYRP 485 GR+R + RP Sbjct: 512 GRDRA-VQRP 520 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 160 bits (404), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 136/417 (32%), Positives = 209/417 (50%), Gaps = 21/417 (5%) Query: 87 EASYIAALGIVNAEGELIVGSPSLAEIMPGNFAGRDFFEQQRHELASGLYISSPLSVRME 146 E + L + + G+ ++ S S + P N + RD+F R G ++ L R Sbjct: 106 EMPQLDGLYVFDEHGKRLLTS-SAPPLAPANNSDRDYFIWHRDHDDVGPHVGKALLSRST 164 Query: 147 RRLHVLVLSKRLVNADGRFAGIAFMVLYLDYFRQLFEGLSLEKNAVMSLYTTSGVAYMRL 206 R ++ +S+RL + DG FAG+ L +++F QL+ + + K ++L G R+ Sbjct: 165 GRW-IIPMSRRLNHPDGSFAGVLLATLDINHFNQLYRTVEIGKGGSIALLLRDGTLLTRM 223 Query: 207 PYDEAFIGSRLDNVPDLQRMTSPQAPQQGSYFARSRQDGVKRLYAYVRVPHTNWVVFIGR 266 P+D +I +R + L P +P G S D +R +Y V V+ + Sbjct: 224 PFDPGYI-NRDFSQGRLFLEGLPHSPF-GYLEVVSPLDARQRFLSYQAVDKYPLVLVVTL 281 Query: 267 TKAELFRDWTRMFY----AVLLLTAAFSTASIYLIS----RLREE---FFRRGKLDL--- 312 + E DW + + AVLLL A L+ RLR E G+L + Sbjct: 282 AREEALADWKQQTFVYGAAVLLLLAIIGVFGWRLVGQIELRLRAEDRALQAMGELQMANH 341 Query: 313 QLEQQARTDKLTSLLNRRALDEALQEAWHKSQRNSTTRFAVLFADVDFFKLYNDTYGHKA 372 +LE A D LT L NRR LD L+ + +++R S A++ DVDFFK YND YGH+A Sbjct: 342 RLEMLAHQDGLTGLANRRHLDTMLETEFKRAER-SGAALALIMIDVDFFKQYNDLYGHQA 400 Query: 373 GDYALVAVARCIQGAVARQCDKTGRFGGEEFVALLDEADAQGALHVASNILTSLQALKIP 432 GD L VA ++ R D R+GGEE LL DA+GA VA + +QAL++P Sbjct: 401 GDECLRRVAGVLKERQRRPGDLAARYGGEEMAMLLPGTDAEGACAVAEKLRAGIQALELP 460 Query: 433 HERSPFGRLSLSIGVACLD--RDLHQSMEEVVKAADEALYQAKRAGRNRVQLYRPAR 487 H +P G +++S+GV L+ +S++ ++ AAD ALY+AK GRN+V+L P + Sbjct: 461 HRGNPVGVVTVSVGVCALELLPSAARSVQALLGAADAALYEAKHEGRNQVRLAAPMK 517 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 0.323 0.135 0.383 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: 1,428,460 Number of extensions: 58743 Number of successful extensions: 264 Number of sequences better than 1.0e-08: 40 Number of HSP's gapped: 186 Number of HSP's successfully gapped: 40 Length of query: 501 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 412 Effective length of database: 1,198,455 Effective search space: 493763460 Effective search space used: 493763460 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 133 (55.8 bits)