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= 0001.1038.p (602 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310562|ref|YP_003774654.1| composite two-component transcr... 794 0.0 gi|300311948|ref|YP_003776040.1| sensor histidine kinase/respons... 142 9e-35 gi|300313023|ref|YP_003777115.1| hypothetical protein Hsero_3729... 123 5e-29 gi|300312677|ref|YP_003776769.1| two component hybrid sensor his... 122 1e-28 gi|300313022|ref|YP_003777114.1| two component sensor histidine ... 120 4e-28 >gi|300310562|ref|YP_003774654.1| composite two-component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 604 Score = 794 bits (2050), Expect = 0.0, Method: Compositional matrix adjust. Identities = 429/591 (72%), Positives = 483/591 (81%), Gaps = 15/591 (2%) Query: 16 DDTRHRIRVEQVRLLCGNLGSSVWPGILVALLVVYALHQSAGLWPLLAWAAGVIASKLFD 75 D H+I+VEQ+RLLCGNLGSSV PGILVALL+VYAL + AGLWPLLAWA GVI SKL D Sbjct: 15 DAVAHQIQVEQIRLLCGNLGSSVVPGILVALLIVYALGERAGLWPLLAWAGGVIVSKLID 74 Query: 76 YADARRLLATEITPANLTAITRRLVLLHGIDGAAWGLVAPLALDTASPGGSILLIGVLAG 135 +ADARR+LA ITP + A+ RRL+LLHG+DGAAWG +A +ALDT SPGGSIL IGVLAG Sbjct: 75 FADARRILAMSITPQQIGAVRRRLMLLHGLDGAAWGALAAVALDTGSPGGSILAIGVLAG 134 Query: 136 VAGNSMSILSPVLPAFVSFCLVELGMLASSAWHTQEASLQVLGIAAVLYVVSLLVQARNS 195 VAGNSMSILSPVLP F+SFC+VELGMLA W + SLQVL AA+LYV SLLVQARNS Sbjct: 135 VAGNSMSILSPVLPVFISFCIVELGMLAGWVWIMHDPSLQVLSAAALLYVASLLVQARNS 194 Query: 196 ARAAKAAIMLRFENNALIERLQRESEKTQQALQQAEQANAAKSRFLAGASHDLRQPIHAQ 255 ARAA+AAI LR+EN LI RLQ ESE+TQQAL QAEQANAAKS+FLA ASHDLRQPIHAQ Sbjct: 195 ARAAQAAITLRYENTELIRRLQHESERTQQALAQAEQANAAKSKFLAAASHDLRQPIHAQ 254 Query: 256 GLFLEVLANTPLDTMQREVVSRLRSAADNCAEMLHTLLDYSRIEAGVVKPQVAPFRPQAL 315 GLFLEVL TPLD MQR+VV++LR AADNCA+MLHTLLDYSRIEAGVV+PQV FR QAL Sbjct: 255 GLFLEVLNTTPLDPMQRDVVAKLRRAADNCADMLHTLLDYSRIEAGVVEPQVTRFRVQAL 314 Query: 316 IHRISREMATQAETKGLVFRTRESEVLASADAALTEPILRNLVSNAIRYTERGGVLVACR 375 + RIS+EMA QAE KGLVFR RES + SADA+LTE ILRNLVSNAIRYT+RGG+LVACR Sbjct: 315 VGRISQEMAAQAEAKGLVFRCRESRAVVSADASLTELILRNLVSNAIRYTDRGGILVACR 374 Query: 376 RRGAEVWLEVWDTGIGIAPPQQQEIFQEFHQLGNPERDHNKGMGLGLSIAQGLAKMQGLS 435 +RG + WLEVWDTG GI+ QQQEIF+EF QLGNPERDH KG+GLGL+IAQGLA++QGL+ Sbjct: 375 QRGGQAWLEVWDTGAGISAAQQQEIFEEFRQLGNPERDHRKGLGLGLAIAQGLARLQGLT 434 Query: 436 LTVQSRPGHGSVFRLKLPVAAPSAPPQQTKPAEAATAVR--------DLQGLRILLIDDD 487 L+VQS PG GSVFRL LP+A + A A A+R DL GLR+LLIDDD Sbjct: 435 LSVQSVPGRGSVFRLTLPLA-------RQDDASLAAALRPLPPPVRHDLHGLRVLLIDDD 487 Query: 488 QRVRDSMVQLLMQWGCRCSGVEGLEQAEALARQQDFDLVISDYRLRAHRNGTEAITAVRQ 547 QRVR+SM QLL WGCRC E LEQAEALA+Q +LVISDYRLR H NGT+AI VR+ Sbjct: 488 QRVRESMAQLLEHWGCRCHCAESLEQAEALAQQHLPELVISDYRLRQHSNGTDAIAVVRR 547 Query: 548 ASGLAIGALLITGDTAPARLREASASGIPVLHKPVAPAQLWEALVRLSATA 598 G + ALLITGDTAPARLREA+ SGIP+LHKPVAPAQLWE L RLS A Sbjct: 548 VLGKPVSALLITGDTAPARLREAAESGIPMLHKPVAPAQLWEQLQRLSGQA 598 >gi|300311948|ref|YP_003776040.1| sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1145 Score = 142 bits (358), Expect = 9e-35, Method: Compositional matrix adjust. Identities = 114/362 (31%), Positives = 181/362 (50%), Gaps = 9/362 (2%) Query: 213 IERLQRESEKTQQALQQAEQANAAKSRFLAGASHDLRQPIHAQGLFLEVL-ANTPLDTMQ 271 IE ++ + Q+A + AE AN AKSRF+AG SH+LR P+++ + ++L + + + Sbjct: 664 IEAHKQTDAELQRAKEAAESANLAKSRFVAGMSHELRTPLNSILGYAQILHVDATIPPAR 723 Query: 272 REVVSRLRSAADNCAEMLHTLLDYSRIEAGVVKPQVAPFRPQALIHRISREMATQAETKG 331 ++ + +R + ++ ++ LLD ++IEAG ++ +A + +I A QAE KG Sbjct: 724 KDAIGVIRRSGEHLLSLIDGLLDIAKIEAGKMRLASDELALEAFLEQIVGMFAPQAEQKG 783 Query: 332 LVFRTRESEVL---ASADAALTEPILRNLVSNAIRYTERGGVLVACRRRGAEVWLEVWDT 388 L FR +S L AD IL NL+ NA+++T+ GGV + R + +V DT Sbjct: 784 LHFRFDKSGRLPQIVHADQKRLRQILINLLGNAVKFTDHGGVTLRLRYAREIAYFDVIDT 843 Query: 389 GIGIAPPQQQEIFQEFHQLGNPERDHNKGMGLGLSIAQGLAKMQGLSLTVQSRPGHGSVF 448 GIGIA ++ IF F + + G GLGL+I++ L + G L+VQS+ G GS F Sbjct: 844 GIGIADDDRERIFLPFERSSAANLREDIGTGLGLAISRMLVHIMGGELSVQSQVGQGSSF 903 Query: 449 RLKLPVAAPSAPPQQTKPAEAATAVRDLQGLRILLIDDDQRVRDSMVQLLMQWGCRCSGV 508 LK+ + P + K + + IL++DD R + +LM G S Sbjct: 904 HLKIYLPEVHVPRPRIKLEDQMSGYAG-PSRHILVVDDQASQRRLLKDMLMPLGFTVSEA 962 Query: 509 E-GLEQAEALARQQDFDLVISDYRLRAHRNGTEAITAVRQASGLAIGALLITGDTAPARL 567 + GL E L DLV+ D + +G A+R A GLA +L+ A L Sbjct: 963 DSGLACMETLGHALP-DLVLLDIAM-PQMDGWSVARAIR-ARGLAQLPILLVSANAFENL 1019 Query: 568 RE 569 E Sbjct: 1020 HE 1021 >gi|300313023|ref|YP_003777115.1| hypothetical protein Hsero_3729 [Herbaspirillum seropedicae SmR1] Length = 765 Score = 123 bits (308), Expect = 5e-29, Method: Compositional matrix adjust. Identities = 115/427 (26%), Positives = 188/427 (44%), Gaps = 66/427 (15%) Query: 228 QQAEQANAAKSRFLAGASHDLRQPIHAQGLFLEVLANTPLDTMQREVVSRLRSAADNCAE 287 ++A+ AN AKS FLA SH++R P++ E+L + L + QR+ + A Sbjct: 339 EEADHANEAKSHFLAMVSHEIRTPMNGILGLSELLMESGLSSKQRDYADSIHGATGGLVR 398 Query: 288 MLHTLLDYSRIEAGVVKPQVAPFRPQALIHRISREMATQAETKGLVFRTR---ESEVLAS 344 +++ +LD+S+IE+G + ++ F P L+ +S + K + F + Sbjct: 399 IINDILDFSKIESGKLDLEMVAFHPVRLVQELSDLYRPSLQRKDVQFDLHLDCPENLSVV 458 Query: 345 ADAALTEPILRNLVSNAIRYTERGGVLVACRRRGAE-------VWLEVWDTGIGIAPPQQ 397 D A + +L NL+SNAI++T+ G V ++ R E ++ + DTGIGI+P Sbjct: 459 GDPARLKQVLGNLLSNAIKFTQAGHVQLSMSARQDESGPSRWRLFFAITDTGIGISPEAL 518 Query: 398 QEIFQEFHQLGNPERDHNKGMGLGLSIAQGLAKMQGLSLTVQSRPGHGSVFRLKL--PVA 455 Q++F+ F Q + G GLGL+I++ L ++ G ++ QS PG + F ++ P A Sbjct: 519 QQLFRPFAQADSSISRRFGGTGLGLAISKNLVELMGGTIACQSIPGESTRFSFEILCPEA 578 Query: 456 APSAP--------------------------------------PQQTKPAEAATAVRD-- 475 + AP PQ +A+ V Sbjct: 579 STPAPEPVSEAAAPAPATALATTAPALPPAAEAPGTLMPPDNAPQPPSNVDASATVLPSL 638 Query: 476 LQGLRILLIDDDQRVRDSMVQLLMQWGCRCSGVE-GLEQAEALARQQDFDLVISD----- 529 L G RIL+ +D + R + LL + GC VE GL+ EA+ R +DLV+ D Sbjct: 639 LAGARILMAEDTEINRQLLRILLARKGCILQEVENGLQAVEAI-RTGHYDLVLMDCMMPI 697 Query: 530 ---YRLRAHRNGTEAITAVRQASGLAIGALLITGDTAPARLREASASGIPVLHKPVAPAQ 586 Y+ A EA + + +A+ A I GD R R A L KP Sbjct: 698 MDGYQATAEIRAHEAARGLPRTPIIALTASAIEGD----RQRCLDAGMDDYLSKPFTQVG 753 Query: 587 LWEALVR 593 L + + + Sbjct: 754 LMQTVEK 760 >gi|300312677|ref|YP_003776769.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1160 Score = 122 bits (305), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 89/257 (34%), Positives = 129/257 (50%), Gaps = 11/257 (4%) Query: 208 ENNALIERLQRESEKTQQAL----QQAEQANAAKSRFLAGASHDLRQPIHAQGLFLEVLA 263 E L+E + + KTQ L + E+AN KS FLA SH+LR P+++ + ++LA Sbjct: 442 EQTQLLELQKDDLAKTQVVLVEKATELERANQYKSEFLANMSHELRTPLNSTLILAKLLA 501 Query: 264 NTPLDTMQREVV---SRLRSAADNCAEMLHTLLDYSRIEAGVVKPQVAPFRPQALIHRIS 320 + + E V + SA ++ +++ +LD S++EAG + F L +S Sbjct: 502 DNKQGNLSDEQVRFAQTISSAGNDLLALINDILDLSKMEAGKLDIVPESFPLTKLADELS 561 Query: 321 REMATQAETKGLVFRTRESEVL---ASADAALTEPILRNLVSNAIRYTERGGV-LVACRR 376 A A+ KGL F+ + D IL+NL+SNAI++TE+G V L Sbjct: 562 ASFAITAQQKGLGFKVEVEPGVPQRMETDIQRLGQILKNLLSNAIKFTEKGEVSLRIYPD 621 Query: 377 RGAEVWLEVWDTGIGIAPPQQQEIFQEFHQLGNPERDHNKGMGLGLSIAQGLAKMQGLSL 436 G + V DTGIGI Q Q IF+ F Q G GLGLSI++ LA + G + Sbjct: 622 AGGRIAFAVRDTGIGIGEDQHQFIFEAFRQADGSTHRKYGGTGLGLSISRDLAHLLGGDI 681 Query: 437 TVQSRPGHGSVFRLKLP 453 V SR G GS+F L LP Sbjct: 682 RVTSRLGEGSIFTLSLP 698 >gi|300313022|ref|YP_003777114.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 120 bits (300), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 78/239 (32%), Positives = 122/239 (51%), Gaps = 12/239 (5%) Query: 228 QQAEQANAAKSRFLAGASHDLRQPIHA----QGLFLEVLANTPLDTMQREVVSRLRSAAD 283 ++A QAN AKSRFL+ SH+ R P++ E L +PL + + + + Sbjct: 322 REALQANQAKSRFLSNMSHEFRTPLNGVLGYSDALREELGESPL----AQYAVAIHDSGN 377 Query: 284 NCAEMLHTLLDYSRIEAGVVKPQVAPFRPQALIHRISREMATQAETKGLVFRTRESEVLA 343 ++++ +L+ + +E V + P + L+ + QA+ KGL R E + Sbjct: 378 RLLDLVNAILEVTELEDRRVAVHLDPANIRELVGQAIARHYPQAQAKGLPLECRIGEDVP 437 Query: 344 S---ADAALTEPILRNLVSNAIRYTERGGVLVACRRRG-AEVWLEVWDTGIGIAPPQQQE 399 D + +L NL+SNA+RYT+ G V+V R G ++ + + DTGIGIA QQ + Sbjct: 438 QILVCDERKIQRVLDNLISNAVRYTDHGRVMVEVERSGPQQLTMRIKDTGIGIAASQQND 497 Query: 400 IFQEFHQLGNPERDHNKGMGLGLSIAQGLAKMQGLSLTVQSRPGHGSVFRLKLPVAAPS 458 IF++F Q + R +G GLGL+IAQ L + G L +QS GS F LP+ P Sbjct: 498 IFEKFTQADDSPRRSQEGAGLGLTIAQRLVMLMGGQLVLQSEQHQGSTFSFTLPLQEPK 556 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 0.320 0.133 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: 1,790,674 Number of extensions: 75463 Number of successful extensions: 543 Number of sequences better than 1.0e-08: 36 Number of HSP's gapped: 489 Number of HSP's successfully gapped: 36 Length of query: 602 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 511 Effective length of database: 1,188,985 Effective search space: 607571335 Effective search space used: 607571335 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: 133 (55.8 bits)