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= 0001.2162.p (546 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine... 981 0.0 gi|300311805|ref|YP_003775897.1| two component hybrid sensor his... 322 5e-89 gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine... 282 5e-77 gi|300309882|ref|YP_003773974.1| multi-sensor hybrid histidine k... 280 2e-76 gi|300313027|ref|YP_003777119.1| two component transmembrane sen... 105 1e-23 >gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 552 Score = 981 bits (2536), Expect = 0.0, Method: Compositional matrix adjust. Identities = 475/540 (87%), Positives = 507/540 (93%) Query: 7 HPPVHWPADDYNDAGIRNDHAKVAVGDDANDIFFAAVEMTRMPMIVSDPRKPDNPIIFVN 66 P +D Y DAG+RND AKVAVG+D NDIFFAAVEMTRMPMIVSDP +PDNPI+FVN Sbjct: 13 QAPAQGASDRYTDAGVRNDLAKVAVGNDINDIFFAAVEMTRMPMIVSDPNRPDNPIVFVN 72 Query: 67 NAFINMTGYSSAEVVGKNCRFLQGPETDRSVVAQVRQAVAERREIATELLNYRKNGSTFW 126 NAFINMTGYSSAEVVGKNCRFLQGPETDRSVVA+VR+AVAERREIATELLNYRKNGSTFW Sbjct: 73 NAFINMTGYSSAEVVGKNCRFLQGPETDRSVVAEVRRAVAERREIATELLNYRKNGSTFW 132 Query: 127 NALFISPVYDQQGELKYFFSSQLDISRRRDAEQALGQARKMEALGQLTGGIAHDFNNLLQ 186 NALFISPVYDQQG LKYFFSSQLDISRRRDAEQALGQARKMEALGQLTGGIAHDFNNLLQ Sbjct: 133 NALFISPVYDQQGNLKYFFSSQLDISRRRDAEQALGQARKMEALGQLTGGIAHDFNNLLQ 192 Query: 187 VITGYLDIIHLALRSEVPDLGRVARSADSIRKASGKAAMLTQQLLAFARKQRLEGRTINL 246 VITGYLD+I+LALRS+ PDL RVARSADSIRKASGKAAMLTQQLLAFARKQRLEGRTINL Sbjct: 193 VITGYLDMINLALRSDKPDLARVARSADSIRKASGKAAMLTQQLLAFARKQRLEGRTINL 252 Query: 247 NSLTEGFTDLVQRTLGGDIQVRTELAPGLWNCRLDPTQMEVALLNVLINARDAMSGKGTV 306 NSLTEGFTDLV RTLGGDI V+TELA GLWNCRLDPTQMEVALLNVLINARDAM+G+G V Sbjct: 253 NSLTEGFTDLVSRTLGGDITVQTELARGLWNCRLDPTQMEVALLNVLINARDAMNGRGRV 312 Query: 307 RIRTSNEDLSSEERALQAGLKPGLYVCIAVIDNGPGIPPEILPRVMDPFFTTKDEGKGTG 366 RIRT+NEDL+ +RA+Q GLK GLYV IAV D+GPGI P+ILPRVMDPFFTTKDEGKGTG Sbjct: 313 RIRTANEDLADPDRAVQLGLKEGLYVSIAVTDDGPGIAPDILPRVMDPFFTTKDEGKGTG 372 Query: 367 LGLSMVYGFVKQSGGSVRISSGREGGTTVAIYFPATHDQVGGGFEYDNRTHSQGGNEHIL 426 LGLSMVYGFVKQSGGSVRI+SG EGGTTV IYFPAT DQVGGGFEYDNR+ SQGG EHIL Sbjct: 373 LGLSMVYGFVKQSGGSVRITSGAEGGTTVTIYFPATQDQVGGGFEYDNRSQSQGGQEHIL 432 Query: 427 VVDDRIEVAELAQAMLESLGYRVSMVNSPAEALQVIRTGPTVDLLFTDLIMPGNMNGVVL 486 VVDDR+EVAELAQ MLESLGYRVSMVNSPAEALQ+IR+G VDLLFTDLIMPG+MNGVVL Sbjct: 433 VVDDRLEVAELAQTMLESLGYRVSMVNSPAEALQLIRSGRPVDLLFTDLIMPGSMNGVVL 492 Query: 487 AREARRVLPSLKILLTTGYASESIERHGADGEFPVIDKPYRHDELARKIRIVLDGATGVS 546 AREA+R+LP++K+LLTTGYASES+ERHGADGEFPV+DKPYRHDELARKIRIVLDGATGVS Sbjct: 493 AREAKRMLPTIKVLLTTGYASESLERHGADGEFPVLDKPYRHDELARKIRIVLDGATGVS 552 >gi|300311805|ref|YP_003775897.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1278 Score = 322 bits (825), Expect = 5e-89, Method: Compositional matrix adjust. Identities = 196/504 (38%), Positives = 284/504 (56%), Gaps = 37/504 (7%) Query: 65 VNNAFINMTGYSSAEVVGKNCRFLQGPETDRSVVAQVRQAVAERREIATELLNYRKNGST 124 VN A M G S E++G + P+ ++ + + + R E R +GST Sbjct: 596 VNQALCRMLGRSEEEMLGMTLADVTHPDDVPMNMSLFNRCIEDGRSFTLEKRYLRPDGST 655 Query: 125 FWNALFISPVYDQQGELKYFFSSQLDISRRRDAEQALG---------------------- 162 FW + IS + D +G + + DI+ RR AE+AL Sbjct: 656 FWVSSDISRIVDGEGRPQAMIAVSTDITERRRAEEALRELNDTLEQRVVEEILERSRAEA 715 Query: 163 ---QARKMEALGQLTGGIAHDFNNLLQVITGYLDIIHLALRSEVPDLGRVARSADSIRKA 219 Q +KMEA+GQLTGG+AHDFNN+LQ+I G L ++ R + RS +R A Sbjct: 716 ALRQMQKMEAVGQLTGGVAHDFNNVLQIIGGNLQLLQSDPRLD-------ERSRQRVRIA 768 Query: 220 SG---KAAMLTQQLLAFARKQRLEGRTINLNSLTEGFTDLVQRTLGGDIQVRTELAPGLW 276 G + A L+ QLLAFAR+Q L+ R+INL + + DL++R +G +I + T +A LW Sbjct: 769 IGAVDRGAKLSSQLLAFARRQPLQPRSINLERVVQNMDDLLRRAVGENIDISTRVAHDLW 828 Query: 277 NCRLDPTQMEVALLNVLINARDAMSGKGTVRIRTSNEDLSSEERALQAGLKPGLYVCIAV 336 N LDP Q+E ++N INARDAM G + ++ N L QA L PG YV + + Sbjct: 829 NTMLDPNQVENLIINTAINARDAMPSGGRLTVQIDNVRLEDPVFLSQADLAPGEYVELQI 888 Query: 337 IDNGPGIPPEILPRVMDPFFTTKDEGKGTGLGLSMVYGFVKQSGGSVRISSGREGGTTVA 396 DNG G+ PE+ R +PFFTTK EG+GTGLGLSM YGFVKQS G + I S + GTT+ Sbjct: 889 SDNGAGMSPEVRDRAFEPFFTTKLEGEGTGLGLSMAYGFVKQSKGHISIHSEQGKGTTIR 948 Query: 397 IYFPATHDQVGGGFEYDNRTHSQGGNEHILVVDDRIEVAELAQAMLESLGYRVSMVNSPA 456 IYFP D+ E + T GG+E ILVV+D + L SLGYRV ++ Sbjct: 949 IYFPRCLDEEVRIDEVRDLT-VHGGDETILVVEDDPNLQLTVIDTLSSLGYRVLKADNGE 1007 Query: 457 EALQVIRTGPTVDLLFTDLIMPGNMNGVVLAREARRVLPSLKILLTTGYASESIERHG-A 515 AL+++++G +DL+FTD++MPG++ LA++AR ++P ++IL T+GY ++I G Sbjct: 1008 RALEILQSGVAIDLVFTDVVMPGSVPVTELAQQARLLVPDIEILFTSGYPRDTIVHEGRL 1067 Query: 516 DGEFPVIDKPYRHDELARKIRIVL 539 D ++ KPYR ++LA++IR +L Sbjct: 1068 DAGVELLSKPYRINQLAQRIRQML 1091 Score = 58.5 bits (140), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 40/112 (35%), Positives = 60/112 (53%), Gaps = 4/112 (3%) Query: 420 GGNEHILVVDDRIEVAELAQAMLESLGYRVSMVNSPAEALQVIRTGPTVDLLFTDLIMPG 479 G +LVV+D I+ +L +LE+LG++ V S EALQ + D+LFTD+ +PG Sbjct: 1161 AGGLRLLVVEDNIDSQQLVCELLETLGHQARGVISGEEALQALEE-QGFDVLFTDVNLPG 1219 Query: 480 NMNGVVLAREARRVLPSLKILLTTGYASESIERHGADGEFPVIDKPYRHDEL 531 M+GV LA+ A P L ++ +GY + G + KPY D+L Sbjct: 1220 -MSGVELAKAALGRFPDLAVIFASGYGTMVARNVGFAAH--ALPKPYDIDQL 1268 >gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine kinase response regulator protein [Herbaspirillum seropedicae SmR1] Length = 688 Score = 282 bits (721), Expect = 5e-77, Method: Compositional matrix adjust. Identities = 170/386 (44%), Positives = 232/386 (60%), Gaps = 9/386 (2%) Query: 156 DAEQALGQARKMEALGQLTGGIAHDFNNLLQVITGYLDIIHLALRSEVPDLGRVARSADS 215 +AE+AL QA+KMEA+GQLTGG+AHDFNN+L I+G L+++ + L +G + R + Sbjct: 296 NAEEALRQAQKMEAVGQLTGGLAHDFNNILAGISGSLELMKVRLAQG--RIGDIERHLNG 353 Query: 216 IRKASGKAAMLTQQLLAFARKQRLEGRTINLNSLTEGFTDLVQRTLGGDIQVRTELAPGL 275 + A +AA LTQ+LLAF+R+Q L+ + +LN + G +L+ R++G I V T A GL Sbjct: 354 AQSAVKRAAALTQRLLAFSRRQTLDPKPADLNRIVAGMHELIGRSVGPAIAVETIAAGGL 413 Query: 276 WNCRLDPTQMEVALLNVLINARDAMSGKGTVRIRTSNEDLSSEERALQAGLKPGLYVCIA 335 W+ +D QME ALLN+ INARDAM G + I T+N L + ALQ G+ PG YV ++ Sbjct: 414 WHTFVDIGQMENALLNLCINARDAMPHGGRLTIETANRWLD-DIGALQRGVPPGQYVSLS 472 Query: 336 VIDNGPGIPPEILPRVMDPFFTTKDEGKGTGLGLSMVYGFVKQSGGSVRISSGREGGTTV 395 V D G G+ PE++ R DPFFTTK G+GTGLGLSMVYGF QSGG+VRI S G V Sbjct: 473 VSDTGAGMSPEVVARAFDPFFTTKPTGQGTGLGLSMVYGFAGQSGGTVRIYSELGQGAMV 532 Query: 396 AIYFPATHDQVGG----GFEYDNRTHSQGGNEHILVVDDRIEVAELAQAMLESLGYRVSM 451 IY P H GG ++ + G++ ILVVDD V + +L LGY V Sbjct: 533 CIYLP-RHVGEGGVDDLALPEESHVPAAPGSKTILVVDDEPLVRMVTVEVLRDLGYSVLE 591 Query: 452 VNSPAEALQVIRTGPTVDLLFTDLIMPGNMNGVVLAREARRVLPSLKILLTTGYASESIE 511 AL+V+ +DLL TD+ +P MNG LA R P L +L TGYA ++ Sbjct: 592 AEDGPSALRVVEACQEIDLLLTDVGLPNGMNGRQLADAIRAPRPDLPVLFVTGYAENAVL 651 Query: 512 RHGA-DGEFPVIDKPYRHDELARKIR 536 HG + V+ KP+ D LAR+++ Sbjct: 652 NHGHLERGMQVLTKPFAADVLARRVK 677 >gi|300309882|ref|YP_003773974.1| multi-sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 845 Score = 280 bits (717), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 164/390 (42%), Positives = 234/390 (60%), Gaps = 13/390 (3%) Query: 158 EQALGQARKMEALGQLTGGIAHDFNNLLQVITGYLDIIHLAL---RSEVPDLGRVARSAD 214 E+AL ++K+EA+GQLTGG+AHDFNNLL I+G LD++ + L R E + R + Sbjct: 456 EEALRHSQKIEAIGQLTGGLAHDFNNLLGGISGSLDLMRVRLVQGRGE-----ELLRYVE 510 Query: 215 SIRKASGKAAMLTQQLLAFARKQRLEGRTINLNSLTEGFTDLVQRTLGGDIQVRTELAPG 274 +++ +AA LTQ+LLAFAR+Q L + +N+L G +L++RT+G I + A G Sbjct: 511 LAARSTQRAASLTQRLLAFARRQTLAPKPTRVNALISGMEELIRRTIGPAIVLEVVGAGG 570 Query: 275 LWNCRLDPTQMEVALLNVLINARDAMSGKGTVRIRTSNEDLSSEERALQAGLKPGLYVCI 334 LW +D Q+E ALLN+ INARDAM G G + I T+N+ L + A + L PG YVCI Sbjct: 571 LWPTFVDGPQLESALLNLCINARDAMPGGGRLTIETANKWLD-DRWAHERDLPPGQYVCI 629 Query: 335 AVIDNGPGIPPEILPRVMDPFFTTKDEGKGTGLGLSMVYGFVKQSGGSVRISSGREGGTT 394 +V D+G G+PP++L R DPFFTTK G GTGLGLSMVYGF +QSGG VR+ S GTT Sbjct: 630 SVTDSGVGMPPDVLARAFDPFFTTKPIGAGTGLGLSMVYGFARQSGGQVRLYSEVGQGTT 689 Query: 395 VAIYFPATH---DQVGGGFEYDNRTHSQGGNEHILVVDDRIEVAELAQAMLESLGYRVSM 451 V+IY P D+ D G E +LVVDD + L +L GY V Sbjct: 690 VSIYLPRHQHDGDEQDEADALDETAAGDGNGEVVLVVDDEASIRMLVAEILSDAGYDVLQ 749 Query: 452 VNSPAEALQVIRTGPTVDLLFTDLIMPGNMNGVVLAREARRVLPSLKILLTTGYASESIE 511 AL+++++ +DLL TD+ +PG +NG +A R P L +L TGYA + Sbjct: 750 AEDGPGALRILQSKQRIDLLITDVGLPGGLNGRQVADAGRAARPDLHVLFITGYAENAAF 809 Query: 512 RHGA-DGEFPVIDKPYRHDELARKIRIVLD 540 +G + ++ KP++ + LAR+++ +L+ Sbjct: 810 DNGHLERGMQLMTKPFKMEALARRVQSILE 839 >gi|300313027|ref|YP_003777119.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 454 Score = 105 bits (261), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 108/418 (25%), Positives = 172/418 (41%), Gaps = 95/418 (22%) Query: 50 MIVSDPRKPDNPIIFVNNAFINMTGYSSAEVVGKNCRFLQGPETDRSVVAQVRQAVAERR 109 +I S D + FV+ + GY E++ + D + AQ+ ++A Sbjct: 45 IIYSSVPSGDFRLTFVSENASRVLGYEPCEMLDDPNFWFNHIHPDDT--AQIFSSLAMLF 102 Query: 110 EIATELLNYR---KNGSTFWNALFISPVYDQQGELKYFFSSQLDISRRRDAEQALG---- 162 ++ YR NGS W + + D G + DI+ R++ E L Sbjct: 103 VEDQKIYEYRFRTSNGSYLWMHDTLRLIRDPDGTPQEVIGLMTDITGRKEMEDTLQRQAE 162 Query: 163 -----------------QARKMEALGQLTGGIAHDFNNLLQVITGYLDIIHLALRSEVPD 205 Q+ K+ ++GQL G+AH+ NN + ++ L+ L + V Sbjct: 163 EQRKLIEQLKMAQAQLMQSEKLASIGQLAAGVAHEINNPIGFVSANLN----TLGNYVAT 218 Query: 206 LGRVARSADSIRKASGKAAMLTQQLLAFARKQRLEGRTINLNSLTEGFTDLVQRTLGGDI 265 L + ++ + AAM +QL +F E R +L L+E T+L+ + G Sbjct: 219 LLEGIQLHQCLQGGALPAAMAQEQLRSF------EARA-DLAFLSEDVTELLAESNEGLQ 271 Query: 266 QVR-------------------TELAPGLWN------------------------CRLDP 282 +VR T+L GL + + Sbjct: 272 RVRNIVQSLKDFSRIGESNWQMTDLHRGLDSTLNIANNELKYKVSIVKQYGELPLVKCLA 331 Query: 283 TQMEVALLNVLINARDAMSGKGTVRIRTSNEDLSSEERALQAGLKPGLYVCIAVIDNGPG 342 +++ +N+L+NA A+S +GTV I T+ + G V +++ D G G Sbjct: 332 SELNQVFMNLLVNAAQAISERGTVTICTA---------------RAGDKVSVSISDTGHG 376 Query: 343 IPPEILPRVMDPFFTTKDEGKGTGLGLSMVYGFVKQSGGSVRISSGREGGTTVAIYFP 400 I PE L R+ +PFFTTK G GTGLGLS+ YG VK+ GG +R+SS GTT I P Sbjct: 377 IAPENLNRIFEPFFTTKPVGSGTGLGLSLSYGIVKKHGGDIRVSSAPGCGTTFTIELP 434 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 0.319 0.136 0.394 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: 1,721,403 Number of extensions: 72795 Number of successful extensions: 423 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 417 Number of HSP's successfully gapped: 19 Length of query: 546 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 456 Effective length of database: 1,193,720 Effective search space: 544336320 Effective search space used: 544336320 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 (21.7 bits) S2: 133 (55.8 bits)