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= 0012.0039.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... 610 e-176 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 429 e-121 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 413 e-116 gi|300312843|ref|YP_003776935.1| response regulator containing a... 172 7e-44 gi|300310865|ref|YP_003774957.1| response regulator containing a... 166 3e-42 >gi|300313782|ref|YP_003777874.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 475 Score = 610 bits (1574), Expect = e-176, Method: Compositional matrix adjust. Identities = 295/472 (62%), Positives = 364/472 (77%), Gaps = 3/472 (0%) Query: 11 MAGVITSVVLYQSYKQVEHISVNHTLNVARIAQRSISRNMELLSLALDSLAWRYRHTQLH 70 M ++ VLYQS++QVE ++ H N+ARIAQRSISRN+ELL+LALDSL WRYRHTQLH Sbjct: 1 MTATVSCAVLYQSHRQVERAAIEHGANIARIAQRSISRNVELLTLALDSLTWRYRHTQLH 60 Query: 71 RMPAQQQLEFLLGEKIEAGYIAAQGIIDADGERVVGSPVLDEIMPGNFSGRDFFDGPR-Q 129 MP QQ++EFLLGE IEA Y+AA GI+D DGE VVGS L +I+PG ++ DFF + Sbjct: 61 EMPLQQKMEFLLGENIEARYVAALGIVDTDGELVVGSAALSQILPGPYAQSDFFTAHQTH 120 Query: 130 DARGT--LFISSPQAVRLERRAQVIVLSKRLVHVDGSFGGVVFMVLYLDYFRQLFEAMSL 187 A+G L+IS+P VRLERR QV+VLSKRL DGSF G+ MVLYLDYFR LF+ ++L Sbjct: 121 HAQGDTGLYISAPLTVRLERRMQVVVLSKRLAQPDGSFAGISLMVLYLDYFRDLFQGLTL 180 Query: 188 EKNAVMSLYSVEGVAYMRLPYDEAFIGSRVENAPQLQKLLAASAPAEGSYFTRSQQDGVQ 247 E + V+SLYS +G+AYMR+PY+EAFIGSR+ + L+++ + S PA+GSYF R+QQDG + Sbjct: 181 ENDGVISLYSADGLAYMRIPYNEAFIGSRLNISEDLERIFSPSGPAQGSYFARAQQDGPR 240 Query: 248 RLYTYVRVPQTRWVVFIGHTKAALFREWMRMFYAVVFLMALFSTAAFYLISRVREELFRR 307 LYT+ RVP T W VFIG T A +FREW M YAV+FLMA F A+ YLI RVR EL RR Sbjct: 241 WLYTFARVPGTGWTVFIGRTGARIFREWYNMLYAVLFLMASFCIASIYLIRRVRVELQRR 300 Query: 308 SKLDQQLEEQARTDKLTTLLNRRALDEVLQEAWHKCQRNDSARFAVLFADVDFFKLYNDT 367 S LDQQLEE ARTDKLT+LLNRRALDE L AW + + N A F++LF DVDFFKLYNDT Sbjct: 301 SALDQQLEELARTDKLTSLLNRRALDEALARAWKRAEENPDAIFSLLFVDVDFFKLYNDT 360 Query: 368 YGHKAGDYALVAVARCIKGAVSRHCDRAGRYGGEEFVVLLDEADAEGAMHVGKLILAALQ 427 YGHKAGDYAL+AV+RCI AVSR D++GRYGGEEFVVLL+ D GA HV K I++A+Q Sbjct: 361 YGHKAGDYALMAVSRCIVAAVSRLSDQSGRYGGEEFVVLLNGTDTVGATHVAKRIISAIQ 420 Query: 428 AQKIPHERSPFGRLTISIGVACLERGVHRSVDEIIKAADEALYQAKREGRNR 479 + KIPHERSPF LT+SIGV L R H S+++++K AD ALY+AK++GRN+ Sbjct: 421 SLKIPHERSPFDILTVSIGVTSLLREHHSSIEDVVKDADAALYRAKQDGRNK 472 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 429 bits (1104), Expect = e-121, Method: Compositional matrix adjust. Identities = 219/483 (45%), Positives = 308/483 (63%), Gaps = 1/483 (0%) Query: 1 MTLLVGSLTLMAGVITSVVLYQSYKQVEHISVNHTLNVARIAQRSISRNMELLSLALDSL 60 + +++ LM I++ LYQSY+Q +V++ NV ++QR+ISRN+E+LSL+LD+L Sbjct: 29 LVVILAIAVLMVMAISASTLYQSYQQTRQSAVSNASNVTLVSQRAISRNLEMLSLSLDTL 88 Query: 61 AWRYRHT-QLHRMPAQQQLEFLLGEKIEAGYIAAQGIIDADGERVVGSPVLDEIMPGNFS 119 A+R++H R+ Q+ +L G +IA ++DADG V S + +++ Sbjct: 89 AYRFQHPLSARRLNDAQRYAYLFGSTTNVSHIAVMAVLDADGRVQVSSRLGRGNGAPHYA 148 Query: 120 GRDFFDGPRQDARGTLFISSPQAVRLERRAQVIVLSKRLVHVDGSFGGVVFMVLYLDYFR 179 R +F R L++S P L QV+VLSKRL + DGSF GVV M L L YFR Sbjct: 149 DRAYFIAHRDSPTVGLYVSRPMQASLGNELQVVVLSKRLSNEDGSFAGVVVMALDLAYFR 208 Query: 180 QLFEAMSLEKNAVMSLYSVEGVAYMRLPYDEAFIGSRVENAPQLQKLLAASAPAEGSYFT 239 +LFE ++L ++SLYS EG+AYMR+PY E IG + Q+L A + EGS+F Sbjct: 209 ELFEGLALGDEGIISLYSDEGIAYMRVPYRETIIGRDISQTGNFQRLRAMLSEEEGSFFA 268 Query: 240 RSQQDGVQRLYTYVRVPQTRWVVFIGHTKAALFREWMRMFYAVVFLMALFSTAAFYLISR 299 + DGV+RLYT+ R+P + +VF+G+ + A+F+ W + FYAV+ +A+F +L+ Sbjct: 269 HATNDGVRRLYTFRRIPGSPLIVFVGYAEEAIFKTWRKTFYAVLVSLAIFGLLTAWLLLH 328 Query: 300 VREELFRRSKLDQQLEEQARTDKLTTLLNRRALDEVLQEAWHKCQRNDSARFAVLFADVD 359 VR+EL RR ++QLE ARTD LT LLNRRALDE LQ W +CQRN A F+VLF DVD Sbjct: 329 VRQELRRRVTAERQLEALARTDGLTDLLNRRALDEALQATWERCQRNLGASFSVLFIDVD 388 Query: 360 FFKLYNDTYGHKAGDYALVAVARCIKGAVSRHCDRAGRYGGEEFVVLLDEADAEGAMHVG 419 +FK YNDTYGHK GD L VA + + RH D AGRYGGEEFVVLL++ D +GA + Sbjct: 389 YFKAYNDTYGHKLGDTVLKEVAATLTARLPRHTDCAGRYGGEEFVVLLEQTDLQGAQMMA 448 Query: 420 KLILAALQAQKIPHERSPFGRLTISIGVACLERGVHRSVDEIIKAADEALYQAKREGRNR 479 + + A++ + I H SP +TIS+GVA LER HR V++++ AAD ALY+AK+ GR+R Sbjct: 449 QRLCDAVRERHIAHTSSPLAVVTISVGVATLERDHHRRVEDVLNAADAALYRAKQAGRDR 508 Query: 480 VRL 482 V L Sbjct: 509 VHL 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 = 212/482 (43%), Positives = 299/482 (62%), Gaps = 2/482 (0%) Query: 1 MTLLVGSLTLMAGVITSVVLYQSYKQVEHISVNHTLNVARIAQRSISRNMELLSLALDSL 60 + L++G + +M I LY+ Y+Q ++ NV I QR+ISRNME+LSLA+D+L Sbjct: 8 LALILGLIIMMVLSICGASLYEGYRQTRISAITEANNVTLIVQRAISRNMEILSLAMDTL 67 Query: 61 AWRYRHT-QLHRMPAQQQLEFLLGEKIEAGYIAAQGIIDADGE-RVVGSPVLDEIMPGNF 118 A+RY+H L +++ +L G A +I A I+DADG RV + N+ Sbjct: 68 AYRYQHPLDLTHASDEERYNYLFGSTAAAHHITALAILDADGYVRVTSRRSASPSVVVNY 127 Query: 119 SGRDFFDGPRQDARGTLFISSPQAVRLERRAQVIVLSKRLVHVDGSFGGVVFMVLYLDYF 178 S R +F R A LFIS P L V+VLSKRL DGSF GVV M L + YF Sbjct: 128 SERTYFTVHRDSADAGLFISRPIKANLGNELPVVVLSKRLSRKDGSFDGVVLMALDMSYF 187 Query: 179 RQLFEAMSLEKNAVMSLYSVEGVAYMRLPYDEAFIGSRVENAPQLQKLLAASAPAEGSYF 238 R LF ++L ++ +MSLYS +GV YMR+PY + IG + N P Q+L A +G++F Sbjct: 188 RDLFTGLTLGEDGIMSLYSDDGVTYMRVPYHPSSIGREITNNPNFQRLRAMLVDNDGNFF 247 Query: 239 TRSQQDGVQRLYTYVRVPQTRWVVFIGHTKAALFREWMRMFYAVVFLMALFSTAAFYLIS 298 R+ DGV+RLYT+ R+P +V +G ++ +F+ W Y+V+ L+ +F+ A L+ Sbjct: 248 ARAHTDGVERLYTFRRIPDAPLIVLLGRSERFIFKTWYDTLYSVLLLLIIFTALAGVLLM 307 Query: 299 RVREELFRRSKLDQQLEEQARTDKLTTLLNRRALDEVLQEAWHKCQRNDSARFAVLFADV 358 VR EL +R ++QLE+ ARTD LT LLNRR+LDE L W + QR+ +A F+ LF DV Sbjct: 308 LVRRELLKRVAAEKQLEDLARTDGLTGLLNRRSLDEALLAVWQRSQRSPTAGFSTLFIDV 367 Query: 359 DFFKLYNDTYGHKAGDYALVAVARCIKGAVSRHCDRAGRYGGEEFVVLLDEADAEGAMHV 418 D+FK YNDTYGH+ GD L AVA ++ + R D AGRYGGEEFVVLL++ D GA+ + Sbjct: 368 DYFKRYNDTYGHEMGDTVLQAVAAVLREHLQRQNDLAGRYGGEEFVVLLEQTDEHGALRM 427 Query: 419 GKLILAALQAQKIPHERSPFGRLTISIGVACLERGVHRSVDEIIKAADEALYQAKREGRN 478 + + A+ + IPH SP G +++SIGVA + R H+ +++++ AAD ALY AKREGRN Sbjct: 428 AQQLCEAIYNRGIPHSGSPLGVISVSIGVATMNRAPHQRMEDVLNAADHALYIAKREGRN 487 Query: 479 RV 480 RV Sbjct: 488 RV 489 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 172 bits (435), Expect = 7e-44, Method: Compositional matrix adjust. Identities = 138/415 (33%), Positives = 206/415 (49%), Gaps = 26/415 (6%) Query: 96 IIDADGERVVGSPVLDEIMPGNFSGRDFFDGPRQDARGTLFISSPQAVRLERRAQVIVLS 155 + D G+R++ S + P N S RD+F R + R R +I +S Sbjct: 115 VFDEHGKRLLTSSA-PPLAPANNSDRDYFIWHRDHDDVGPHVGKALLSRSTGR-WIIPMS 172 Query: 156 KRLVHVDGSFGGVVFMVLYLDYFRQLFEAMSLEKNAVMSLYSVEGVAYMRLPYDEAFIGS 215 +RL H DGSF GV+ L +++F QL+ + + K ++L +G R+P+D +I Sbjct: 173 RRLNHPDGSFAGVLLATLDINHFNQLYRTVEIGKGGSIALLLRDGTLLTRMPFDPGYINR 232 Query: 216 RVENAPQLQKLLAASAPAE--GSYFTRSQQDGVQRLYTYVRVPQTRWVVFIGHTKAALFR 273 +L P G S D QR +Y V + V+ + + Sbjct: 233 DFSQG----RLFLEGLPHSPFGYLEVVSPLDARQRFLSYQAVDKYPLVLVVTLAREEALA 288 Query: 274 EWMRMFY----AVVFLMALFSTAAFYLISRVREELFRRSKL----------DQQLEEQAR 319 +W + + AV+ L+A+ + L+ ++ L + + +LE A Sbjct: 289 DWKQQTFVYGAAVLLLLAIIGVFGWRLVGQIELRLRAEDRALQAMGELQMANHRLEMLAH 348 Query: 320 TDKLTTLLNRRALDEVLQEAWHKCQRNDSARFAVLFADVDFFKLYNDTYGHKAGDYALVA 379 D LT L NRR LD +L+ + + +R+ +A A++ DVDFFK YND YGH+AGD L Sbjct: 349 QDGLTGLANRRHLDTMLETEFKRAERSGAA-LALIMIDVDFFKQYNDLYGHQAGDECLRR 407 Query: 380 VARCIKGAVSRHCDRAGRYGGEEFVVLLDEADAEGAMHVGKLILAALQAQKIPHERSPFG 439 VA +K R D A RYGGEE +LL DAEGA V + + A +QA ++PH +P G Sbjct: 408 VAGVLKERQRRPGDLAARYGGEEMAMLLPGTDAEGACAVAEKLRAGIQALELPHRGNPVG 467 Query: 440 RLTISIGVACLE--RGVHRSVDEIIKAADEALYQAKREGRNRVRLYQATAKVVPA 492 +T+S+GV LE RSV ++ AAD ALY+AK EGRN+VRL A K P+ Sbjct: 468 VVTVSVGVCALELLPSAARSVQALLGAADAALYEAKHEGRNQVRL-AAPMKTAPS 521 >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 = 166 bits (421), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 123/402 (30%), Positives = 193/402 (48%), Gaps = 25/402 (6%) Query: 96 IIDADGERVVGSPVLDEIMPGNFSGRDFFDGPRQDARGTLFISSPQAVRLERRAQVIVLS 155 ++D G R V S + G+ D+F + FI P + + + + +S Sbjct: 121 VVDEQG-RTVASSQQRMVQTGSPVQDDYFQYHQHRRSDRPFIGQPMRSHVTGQ-RTLTVS 178 Query: 156 KRLVHVDGSFGGVVFMVLYLDYFRQLFEAMSLEKNAVMSLYSVEGVAYMRLPYDEAFIGS 215 +R+ HVDGSF GV+ + L YF++ +E ++ + V+ G +R P + Sbjct: 179 RRINHVDGSFAGVIVAEIDLAYFQRYYEQFNIGPHGVILFGLTGGSLILRRP----LLAD 234 Query: 216 RVENAPQLQKLLAA--SAPAEGSYFTRSQQDGVQRLYTYVRVPQTRWVVFIGHTKAALFR 273 + +P + + L GS+ RS++DGV+R+ + + + K + Sbjct: 235 MTDRSPAMSEALRKHMEQARRGSFAMRSERDGVERISCFQQGEAYPIFTVVALAKDDILE 294 Query: 274 EWMRMFY----AVVFLMALFSTAAFYLI----SRVREE---LFRRSKLD---QQLEEQAR 319 +W R + VV L+A+ L+ R R E + R +L+ + LE Q++ Sbjct: 295 DWSRHVWVRGIGVVLLLAVICFGGKRLVVLVAGRERAEAQAIAARQELESLYRTLEAQSQ 354 Query: 320 TDKLTTLLNRRALDEVLQEAWHKCQRNDSARFAVLFADVDFFKLYNDTYGHKAGDYALVA 379 D LT + NRR D L + R + +++ DVD FK +NDTYGH AGD L Sbjct: 355 KDGLTDVFNRRYFDAALAAELARLNRTGES-LSLMMIDVDHFKQFNDTYGHAAGDVCLRQ 413 Query: 380 VARCIKGAVSRHCDRAGRYGGEEFVVLLDEADAEGAMHVGKLILAALQAQKIPHERSPFG 439 VA I R D RYGGEEF V+L A + ++ A++ +I HERSP G Sbjct: 414 VAAAISTVARRQGDIVARYGGEEFAVILPNCHPGSAQGLAHRVVQAVRGLEIAHERSPMG 473 Query: 440 RLTISIGVACLERGVHRSVD--EIIKAADEALYQAKREGRNR 479 +TIS+GVA L G ++ E+I +AD ALY+AK EGR+R Sbjct: 474 VVTISVGVASLASGKSLLIEPRELIDSADGALYRAKEEGRDR 515 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 0.324 0.136 0.393 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: 1,503,806 Number of extensions: 63026 Number of successful extensions: 333 Number of sequences better than 1.0e-08: 40 Number of HSP's gapped: 252 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: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 133 (55.8 bits)