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= 0001.1042.p (723 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310566|ref|YP_003774658.1| Hpt sensor hybrid histidine kin... 999 0.0 gi|300313023|ref|YP_003777115.1| hypothetical protein Hsero_3729... 202 7e-53 gi|300313029|ref|YP_003777121.1| two component hybrid sensor his... 180 4e-46 gi|300312677|ref|YP_003776769.1| two component hybrid sensor his... 178 1e-45 gi|300311948|ref|YP_003776040.1| sensor histidine kinase/respons... 154 2e-38 >gi|300310566|ref|YP_003774658.1| Hpt sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 723 Score = 999 bits (2582), Expect = 0.0, Method: Compositional matrix adjust. Identities = 524/715 (73%), Positives = 588/715 (82%), Gaps = 13/715 (1%) Query: 10 RCASAVPG-----HGRLLLALAEAGFAVLILVALWHTNLPSWLALGLLALWAVRALVLLR 64 RC S PG GR+LL ++E FAVL VAL LP+W L L A+W + AL LLR Sbjct: 2 RCTSGSPGGRAARQGRMLLIVSETCFAVLAAVALAQGALPAWQKLVLAAIWGIHALTLLR 61 Query: 65 LLRDNQRSARHLVLAKEAADQAMLTRGAFLSTMSHEIRTPMNAVLGMAGLLRSTRLDTQQ 124 LLR+N R+A LV AKEAAD AMLTRGAFLSTMSHEIRTPMNAVLGMAGLLRSTRLDTQQ Sbjct: 62 LLRENARTAEKLVQAKEAADHAMLTRGAFLSTMSHEIRTPMNAVLGMAGLLRSTRLDTQQ 121 Query: 125 AEFAKAIEDSAHALLGIVNDVLDFSKIDVGKMDIAVVEFDLLEVVEASTEALSFKAHEKQ 184 AEFAKAIEDSAHALLGIVNDVLDFSKIDVGKMDIAVVEFDL +VVEAS EALSFKA EK+ Sbjct: 122 AEFAKAIEDSAHALLGIVNDVLDFSKIDVGKMDIAVVEFDLAKVVEASAEALSFKAREKR 181 Query: 185 VRLLAHVDSRLPERLLGDPGRIRQILLNLLGNALKFTHVGEVLLRVQALHVAGDHCRVRF 244 VRLLAH+DSRLP RL+GDPGRIRQILLNLLGNALKFTH GEVLLRVQAL V DHCRVRF Sbjct: 182 VRLLAHLDSRLPPRLVGDPGRIRQILLNLLGNALKFTHAGEVLLRVQALQVTSDHCRVRF 241 Query: 245 EVRDSGIGMDEDTLRRLFSPFTQADNSVTRQYGGTGLGLSICKRLVELMGGKIGVDSSPG 304 EVRDSGIGMDEDTLRRLFSPF QAD+SVTRQYGGTGLGLSICKRLVELMGG IGV+S+ G Sbjct: 242 EVRDSGIGMDEDTLRRLFSPFAQADSSVTRQYGGTGLGLSICKRLVELMGGSIGVESALG 301 Query: 305 AGSCFWFELGIPVAQ-PPRFASHIDAAKK-RQVALLETHDASAAMLHEYLRGAGLESLRY 362 GSCFWFELGIPV P S AA + R++AL+E HDASAAMLHEYLR A LE+LR+ Sbjct: 302 TGSCFWFELGIPVTTGPGMIRSEPPAADRPRRIALVEPHDASAAMLHEYLRSAALETLRF 361 Query: 363 GSATDALAALTGPAASANGIDTVIVSSELRDLPANAVLTRLQAERPDLTCILLDHGVHGL 422 GSA+DALAALTGP ASA+GID VIVS++++DL A +V+ RLQAERP L +LLDHGVHGL Sbjct: 362 GSASDALAALTGPGASASGIDAVIVSTQVQDLDAVSVMARLQAERPALRRVLLDHGVHGL 421 Query: 423 NIDGKSTSTSLQLPLRKQQLLRAVMKLSGGRDQVES----LAAQARPFR-QAGQQELLLV 477 + K LQLPLRKQQLLRA+ + S +AA A P + +GQ+++LLV Sbjct: 422 DTGSKPHHEVLQLPLRKQQLLRALGVTDSAAEAQTSPHARMAAPATPRQGHSGQRDILLV 481 Query: 478 EDNVMNQKVAVYQLNAMGYAVDIASNGAEALEKLGQRKYALILMDCQMPILDGYETTRRI 537 EDNVMNQKVAVYQLNAMGYA DIA+NG EALE+L + +YAL+LMDCQMP+LDGYETTRRI Sbjct: 482 EDNVMNQKVAVYQLNAMGYAADIAANGLEALERLARHRYALVLMDCQMPLLDGYETTRRI 541 Query: 538 RRLQGELAHTPIVAMTANAMAGDREQCLEAGMDDYLTKPLLRSQLAAMLAHYL-PAVQEA 596 RR+QGELAHT IVAMTANAMAGDRE+CLEAGMDDYLTKPLLRSQL+AMLAHYL P+ A Sbjct: 542 RRMQGELAHTTIVAMTANAMAGDRERCLEAGMDDYLTKPLLRSQLSAMLAHYLPPSAASA 601 Query: 597 DSEQSTAPMLDQARLQELFGQDSALTNEMLAMFIEHTTPVMQELARHCQDSDPLLGEIQA 656 S + ++D+ RLQELFGQD AL +EMLAMF+EHT+P+MQEL HCQD +P L E+QA Sbjct: 602 GSAPAAPQLIDEDRLQELFGQDRALAHEMLAMFVEHTSPLMQELQAHCQDQEPALDEVQA 661 Query: 657 LGHRLAGSCLNLGIQALGQLGRQMEMAARQGDPEQVRRLAVECANAFATLGEHIQ 711 LGHRLAGSC+NLG+ ALGQLGR+MEMAARQGD Q R A CA FA L +H+Q Sbjct: 662 LGHRLAGSCMNLGLDALGQLGREMEMAARQGDLAQTRTRAQACAATFAQLCQHLQ 716 >gi|300313023|ref|YP_003777115.1| hypothetical protein Hsero_3729 [Herbaspirillum seropedicae SmR1] Length = 765 Score = 202 bits (514), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 108/246 (43%), Positives = 155/246 (63%), Gaps = 6/246 (2%) Query: 80 KEAADQAMLTRGAFLSTMSHEIRTPMNAVLGMAGLLRSTRLDTQQAEFAKAIEDSAHALL 139 KE AD A + FL+ +SHEIRTPMN +LG++ LL + L ++Q ++A +I + L+ Sbjct: 338 KEEADHANEAKSHFLAMVSHEIRTPMNGILGLSELLMESGLSSKQRDYADSIHGATGGLV 397 Query: 140 GIVNDVLDFSKIDVGKMDIAVVEFDLLEVVEASTEALSFKAHEKQVRLLAHVDSRLPERL 199 I+ND+LDFSKI+ GK+D+ +V F + +V+ ++ K V+ H+D PE L Sbjct: 398 RIINDILDFSKIESGKLDLEMVAFHPVRLVQELSDLYRPSLQRKDVQFDLHLDC--PENL 455 Query: 200 --LGDPGRIRQILLNLLGNALKFTHVGEVLLRVQALHVAGDHCRVR--FEVRDSGIGMDE 255 +GDP R++Q+L NLL NA+KFT G V L + A R R F + D+GIG+ Sbjct: 456 SVVGDPARLKQVLGNLLSNAIKFTQAGHVQLSMSARQDESGPSRWRLFFAITDTGIGISP 515 Query: 256 DTLRRLFSPFTQADNSVTRQYGGTGLGLSICKRLVELMGGKIGVDSSPGAGSCFWFELGI 315 + L++LF PF QAD+S++R++GGTGLGL+I K LVELMGG I S PG + F FE+ Sbjct: 516 EALQQLFRPFAQADSSISRRFGGTGLGLAISKNLVELMGGTIACQSIPGESTRFSFEILC 575 Query: 316 PVAQPP 321 P A P Sbjct: 576 PEASTP 581 Score = 98.2 bits (243), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 49/119 (41%), Positives = 74/119 (62%), Gaps = 2/119 (1%) Query: 474 LLLVEDNVMNQKVAVYQLNAMGYAVDIASNGAEALEKLGQRKYALILMDCQMPILDGYET 533 +L+ ED +N+++ L G + NG +A+E + Y L+LMDC MPI+DGY+ Sbjct: 644 ILMAEDTEINRQLLRILLARKGCILQEVENGLQAVEAIRTGHYDLVLMDCMMPIMDGYQA 703 Query: 534 TRRIRRLQGE--LAHTPIVAMTANAMAGDREQCLEAGMDDYLTKPLLRSQLAAMLAHYL 590 T IR + L TPI+A+TA+A+ GDR++CL+AGMDDYL+KP + L + +L Sbjct: 704 TAEIRAHEAARGLPRTPIIALTASAIEGDRQRCLDAGMDDYLSKPFTQVGLMQTVEKWL 762 >gi|300313029|ref|YP_003777121.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1524 Score = 180 bits (456), Expect = 4e-46, Method: Compositional matrix adjust. Identities = 110/244 (45%), Positives = 154/244 (63%), Gaps = 1/244 (0%) Query: 75 HLVLAKEAADQAMLTRGAFLSTMSHEIRTPMNAVLGMAGLLRSTRLDTQQAEFAKAIEDS 134 +LV A+ A+QA + FL+++SHEIRTPMN VLGM LL+ T+ Q ++ E S Sbjct: 882 NLVDARLKAEQANSAKSLFLASVSHEIRTPMNGVLGMIQLLQRTQPLPAQQDYLDKAEIS 941 Query: 135 AHALLGIVNDVLDFSKIDVGKMDIAVVEFDLLEVVEASTEALSFKAHEKQVRLLAHVDSR 194 A +LL ++ND+LDFSK+D ++ + + F+L L+ + V L +D + Sbjct: 942 AKSLLNLLNDLLDFSKMDAKQLQLDLQAFELERFGHNLAAVLAGSPPQAGVSLHIALDPQ 1001 Query: 195 LPERLLGDPGRIRQILLNLLGNALKFTHVGEVLLRVQALH-VAGDHCRVRFEVRDSGIGM 253 LP RL+GD R++Q+L+NL GNALKFTH G + + L + G +R EV D+GIG+ Sbjct: 1002 LPRRLVGDAHRLQQVLVNLTGNALKFTHQGHIDVHFTRLDPLPGRTVALRVEVSDTGIGI 1061 Query: 254 DEDTLRRLFSPFTQADNSVTRQYGGTGLGLSICKRLVELMGGKIGVDSSPGAGSCFWFEL 313 D L +F FTQA+ S TR+YGGTGLGL+I K LV LMGG++ V S PG GS FWF+L Sbjct: 1062 AADRLDDIFDAFTQAEASTTRRYGGTGLGLAISKHLVGLMGGQLQVSSEPGRGSRFWFDL 1121 Query: 314 GIPV 317 + V Sbjct: 1122 QLAV 1125 Score = 86.3 bits (212), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 53/119 (44%), Positives = 76/119 (63%), Gaps = 4/119 (3%) Query: 473 ELLLVEDNVMNQKVAVYQLNAMGYAVDIASNGAE--ALEKLGQRKYALILMDCQMPILDG 530 ++LLVEDN +N++VA L G V A +G+ A+ R + L+LMD QMP +DG Sbjct: 1173 QILLVEDNPVNRQVASELLALSGAQVTCADSGSMGVAMACDPARHFDLVLMDLQMPGMDG 1232 Query: 531 YETTRRIRRLQGELAHTPIVAMTANAMAGDREQCLEAGMDDYLTKPL-LRSQLAAMLAH 588 E TRRIR Q EL PI+AMTANA D+++C+EAGM ++ KP+ + + + +LAH Sbjct: 1233 IEATRRIRG-QYELRGLPILAMTANASPEDKQRCIEAGMAGHIAKPIDIATLIPVLLAH 1290 >gi|300312677|ref|YP_003776769.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1160 Score = 178 bits (452), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 108/270 (40%), Positives = 158/270 (58%), Gaps = 16/270 (5%) Query: 62 LLRLLRDNQRSARHLVLAKEAAD--QAMLTRGAFLSTMSHEIRTPMNAVLGMAGLLRSTR 119 LL L +D+ + +VL ++A + +A + FL+ MSHE+RTP+N+ L +A LL + Sbjct: 446 LLELQKDD-LAKTQVVLVEKATELERANQYKSEFLANMSHELRTPLNSTLILAKLLADNK 504 Query: 120 ---LDTQQAEFAKAIEDSAHALLGIVNDVLDFSKIDVGKMDIAVVEFDLLEVVEASTEAL 176 L +Q FA+ I + + LL ++ND+LD SK++ GK+DI F L ++ + + + Sbjct: 505 QGNLSDEQVRFAQTISSAGNDLLALINDILDLSKMEAGKLDIVPESFPLTKLADELSASF 564 Query: 177 SFKAHEKQVRLLAHVDSRLPERLLGDPGRIRQILLNLLGNALKFTHVGEVLLRVQALHVA 236 + A +K + V+ +P+R+ D R+ QIL NLL NA+KFT GEV LR+ A Sbjct: 565 AITAQQKGLGFKVEVEPGVPQRMETDIQRLGQILKNLLSNAIKFTEKGEVSLRI--YPDA 622 Query: 237 GDHCRVRFEVRDSGIGMDEDTLRRLFSPFTQADNSVTRQYGGTGLGLSICKRLVELMGGK 296 G R+ F VRD+GIG+ ED + +F F QAD S R+YGGTGLGLSI + L L+GG Sbjct: 623 G--GRIAFAVRDTGIGIGEDQHQFIFEAFRQADGSTHRKYGGTGLGLSISRDLAHLLGGD 680 Query: 297 IGVDSSPGAGSCFWFELGIPVAQPPRFASH 326 I V S G GS F L PP ++S Sbjct: 681 IRVTSRLGEGSIFTLSL------PPLYSSE 704 Score = 84.3 bits (207), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 49/124 (39%), Positives = 71/124 (57%), Gaps = 7/124 (5%) Query: 474 LLLVEDNVMNQKVAVYQLNAMGYAVDIASNGAEALEKLGQRK------YALILMDCQMPI 527 +L+VED+V N L G V+IA NG EAL+ L + + L+LMD MP Sbjct: 1037 ILVVEDDVRNIFALSSVLEPKGMKVEIARNGREALQALQRSQDKPDAPIDLVLMDIMMPE 1096 Query: 528 LDGYETTRRIRRLQGELAHTPIVAMTANAMAGDREQCLEAGMDDYLTKPLLRSQLAAMLA 587 +DG R IR+ Q PI+A+TA AM D+E+CL AG +DY+ KPL +L +++ Sbjct: 1097 MDGLTAMREIRK-QAVWKRLPIIALTAKAMKDDQEKCLAAGANDYIAKPLDVEKLLSLVR 1155 Query: 588 HYLP 591 ++P Sbjct: 1156 VWMP 1159 >gi|300311948|ref|YP_003776040.1| sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1145 Score = 154 bits (390), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 97/264 (36%), Positives = 153/264 (57%), Gaps = 8/264 (3%) Query: 61 VLLRLLRDNQRSARHLVLAKEAADQAMLTRGAFLSTMSHEIRTPMNAVLGMAGLLR-STR 119 +LL+ + ++++ L AKEAA+ A L + F++ MSHE+RTP+N++LG A +L Sbjct: 659 LLLQEIEAHKQTDAELQRAKEAAESANLAKSRFVAGMSHELRTPLNSILGYAQILHVDAT 718 Query: 120 LDTQQAEFAKAIEDSAHALLGIVNDVLDFSKIDVGKMDIAVVEFDLLEVVEASTEALSFK 179 + + + I S LL +++ +LD +KI+ GKM +A E L +E + + Sbjct: 719 IPPARKDAIGVIRRSGEHLLSLIDGLLDIAKIEAGKMRLASDELALEAFLEQIVGMFAPQ 778 Query: 180 AHEKQVRLLAHVDSRLPERLLGDPGRIRQILLNLLGNALKFTHVGEVLLRVQ-ALHVAGD 238 A +K + RLP+ + D R+RQIL+NLLGNA+KFT G V LR++ A +A Sbjct: 779 AEQKGLHFRFDKSGRLPQIVHADQKRLRQILINLLGNAVKFTDHGGVTLRLRYAREIA-- 836 Query: 239 HCRVRFEVRDSGIGMDEDTLRRLFSPFTQADNSVTRQYGGTGLGLSICKRLVELMGGKIG 298 F+V D+GIG+ +D R+F PF ++ + R+ GTGLGL+I + LV +MGG++ Sbjct: 837 ----YFDVIDTGIGIADDDRERIFLPFERSSAANLREDIGTGLGLAISRMLVHIMGGELS 892 Query: 299 VDSSPGAGSCFWFELGIPVAQPPR 322 V S G GS F ++ +P PR Sbjct: 893 VQSQVGQGSSFHLKIYLPEVHVPR 916 Score = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 46/165 (27%), Positives = 82/165 (49%), Gaps = 13/165 (7%) Query: 426 GKSTSTSLQLPLRKQQLLRAVMKLSGGRDQVESLAAQARPFRQAGQQELLLVEDNVMNQK 485 G+ +S L++ L + + R +KL DQ+ A +R +L+V+D ++ Sbjct: 898 GQGSSFHLKIYLPEVHVPRPRIKL---EDQMSGYAGPSR--------HILVVDDQASQRR 946 Query: 486 VAVYQLNAMGYAVDIASNGAEALEKLGQRKYALILMDCQMPILDGYETTRRIRRLQGELA 545 + L +G+ V A +G +E LG L+L+D MP +DG+ R IR +G LA Sbjct: 947 LLKDMLMPLGFTVSEADSGLACMETLGHALPDLVLLDIAMPQMDGWSVARAIRA-RG-LA 1004 Query: 546 HTPIVAMTANAMAGDREQCLEAGMDDYLTKPLLRSQLAAMLAHYL 590 PI+ ++ANA E+ ++D++ KP+ +L + +L Sbjct: 1005 QLPILLVSANAFENLHERNEPPLVNDFVVKPVSYHELLGKIRQHL 1049 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 0.321 0.135 0.387 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: 2,098,154 Number of extensions: 85269 Number of successful extensions: 644 Number of sequences better than 1.0e-08: 63 Number of HSP's gapped: 572 Number of HSP's successfully gapped: 67 Length of query: 723 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 631 Effective length of database: 1,184,250 Effective search space: 747261750 Effective search space used: 747261750 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 (21.9 bits) S2: 134 (56.2 bits)