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= 0004.0007.p (439 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311751|ref|YP_003775843.1| signal transduction histidine k... 273 2e-74 gi|300313679|ref|YP_003777771.1| transmembrane sensor histidine ... 169 3e-43 gi|300309980|ref|YP_003774072.1| two component transmembrane sen... 157 2e-39 gi|300312689|ref|YP_003776781.1| transmembrane sensor kinase tra... 148 7e-37 gi|300312679|ref|YP_003776771.1| periplasmic sensor signal trans... 140 2e-34 >gi|300311751|ref|YP_003775843.1| signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 446 Score = 273 bits (699), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 166/438 (37%), Positives = 251/438 (57%), Gaps = 5/438 (1%) Query: 1 LQAQLLFWVSLVIVVAALGGGYFSFQGAFAEAYEFQDDQLRQIAGLMEQQRPAPGFVITE 60 LQAQL ++ I+V ALG G F F A+ ++ QDD L Q+ L++ A Sbjct: 12 LQAQLSLALTAAILVVALGAGGFGFVTAYRDSIRSQDDLLMQVGALLKHSGAALSLEGAG 71 Query: 61 ITEETADPESQVIVQVMGKHGSEISVRHNEKLSLPPNLPEGIQTFQSSHHAWRLFIRDLS 120 + + +S+V VQ + G + L LP +L EG T H +R++++ L Sbjct: 72 MAAAGDEHDSRVTVQWLPDPGDPPA--DAAPLPLPADLAEGFHTLLLHHEYFRVYVQALP 129 Query: 121 TGDRLVIGQRTEVRDEIAHGSGLRTVLPFLILMPVLLIVVNVLIRQMLKPVARLSSELDR 180 G RL + Q T++R IA S R + PF++L P+LL+ V +I+++ P+ L E+D Sbjct: 130 NGKRLALAQETDLRQHIAQRSAWRALWPFVVLAPLLLLAVQRIIKRLFAPLQALRQEIDS 189 Query: 181 RSEADLSAMDDEKVPAEIKPFTASINALLLRVEKSMEMQKRFVADAAHELRSPLTALSLQ 240 R E DL + + +P E++ F A+IN LL RVE M Q+RFVADAAHELR+PLTALSLQ Sbjct: 190 RGEDDLQPIAERLLPREVQAFVAAINGLLARVEAGMAAQRRFVADAAHELRTPLTALSLQ 249 Query: 241 AENLAKIELPPAASERLATLRGGMQRMRTLLEQLLLMARAQATSRQVVSTVKMQDMFREV 300 AE L + + A ERL L G+QR R L+ QLL +ARAQ + + + + REV Sbjct: 250 AERLGRAPMSETARERLTRLETGLQRARQLVTQLLALARAQTPAGAALQPCSLHQVLREV 309 Query: 301 LEDLMPMAEAKKLEVEVSSADDVYFHGHHFDCIVVIKNLVDNAIRYTPEYGRLILSAHKS 360 +E+L+P+A+ K++++ + D + +++NL+DNAI YTP G + L + Sbjct: 310 IEELLPLAQCKQIDLGLDGERDACVLTQPQELAQLLRNLIDNAIAYTPAGGAVSLRMERH 369 Query: 361 DRRLIIDIEDSGPGISDDDVGRIFDPFYRVLGSGESGSGLGLAIVKAILDRSAAKATVTN 420 + + ++I D+GPGI+ + R+F PFYR+ SG+ GSGLGLAIV++I R T+ Sbjct: 370 AQWVALEICDTGPGIAASERERVFQPFYRIDPSGQ-GSGLGLAIVQSIARRLG--VTLRL 426 Query: 421 IRNEDGTKGGLRVRVTFP 438 + + GLRVR+ P Sbjct: 427 EAADPAQQSGLRVRLLIP 444 >gi|300313679|ref|YP_003777771.1| transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 444 Score = 169 bits (429), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 145/442 (32%), Positives = 226/442 (51%), Gaps = 36/442 (8%) Query: 13 IVVAALGGGYFSFQGAFAEAYEFQDDQLRQIAGLMEQQRPAPGFVITEITEETADPESQV 72 I+V A YF +G EA + D Q+RQIA + +Q F ++ + E ++ Sbjct: 19 IIVLAGVALYFQARG---EANQIFDYQMRQIAASLPRQ----AFSPISPGQQFPELEDEI 71 Query: 73 IVQVMGKHGSEISVRHNEKLSLPPNLPEGIQTFQSSHHAWRLFIRDLSTGDRLV-IGQRT 131 ++Q+ G+ I H + ++P G + WR++ + G +V + Q Sbjct: 72 MMQIWDSRGAVIYHSH-ARGAMPRQAELGFANVSGPNGMWRVYSAQI--GSTVVQVAQPQ 128 Query: 132 EVRDEIAHGSGLRTVLPFLILMPVLLIVVNVLIRQMLKPVARLSSELDRRSEADLSAMDD 191 RDEIA ++TV+P L+L P++ ++ V + + L PV + ++E+ R L + D Sbjct: 129 SARDEIAAQMAVKTVVPLLLLFPLIGVLSWVAVSRGLAPVRKAAAEVAARDMNSLQPLAD 188 Query: 192 EKVPAEIKPFTASINALLLRVEKSMEMQKRFVADAAHELRSPLTALSLQ---AENLAKIE 248 +P EI+P T ++N LL R++ + E Q+ FVADAAHELR+PLTAL LQ AE E Sbjct: 189 VGMPQEIQPLTHALNDLLARLKHATETQRAFVADAAHELRTPLTALRLQTQLAERAVDEE 248 Query: 249 LPPAASERLATLRGGMQRMRTLLEQLLLMARAQATSRQVVSTVKMQDMFREVLEDLMPMA 308 AA A L+ G++R L+ QLL +AR Q + V ++ + V+ DL +A Sbjct: 249 ERRAA---FADLKNGLERTTHLVHQLLTLAR-QEPDAMSFTQVDLRALLGSVVGDLSSVA 304 Query: 309 EAKKLEVEVSSADD----VYFHGHHFDCIVVIKNLVDNAIRYTPEYGRLILSAHKSDR-R 363 E +++ +S D + G+ ++ NLVDNA+RYTP G + + S Sbjct: 305 EHGGIDLGLSDQGDDGRPLRVTGNADALRILFNNLVDNALRYTPAGGVVDVGVDLSTAGY 364 Query: 364 LIIDIEDSGPGISDDDVGRIFDPFYRVLGSGES-------GSGLGLAIVKAILDRSAAKA 416 + ++DSGPGI++ ++ R+FD FYR S E GSGLGLAIV+ I D Sbjct: 365 CTVVVQDSGPGIAESELPRVFDRFYRAQHSQEGSGSRAAFGSGLGLAIVRQIADLHRVPV 424 Query: 417 TVTNIRNEDGTKGGLRVRVTFP 438 + N T GL+ RV FP Sbjct: 425 ELRN------TGHGLQARVVFP 440 >gi|300309980|ref|YP_003774072.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 390 Score = 157 bits (396), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 102/321 (31%), Positives = 177/321 (55%), Gaps = 10/321 (3%) Query: 127 IGQRTEVRDEIAHGSGLRTVLPFLILMPVLLIVVNVLIRQMLKPVARLSSELDRRSEADL 186 +G+ E R ++A+ +LP I++PV L +V + + L P++ L + R DL Sbjct: 57 VGETLEKRAQLANEIIKGVILPQFIILPVALALVWFALSRGLSPLSELQQRIRARRPDDL 116 Query: 187 SAMDDEKVPAEIKPFTASINALLLRVEKSMEMQKRFVADAAHELRSPLTALSLQAENLAK 246 S +D +VP EI P S+N +L R+ +++ +QKRF+ADAAH++++PL + +Q+E + Sbjct: 117 SPIDSGQVPEEISPLVRSLNDMLARLSQTIAIQKRFIADAAHQMKTPLAGMRMQSELALR 176 Query: 247 IELPPAASERLATLRGGMQRMRTLLEQLLLMARAQATSRQV--VSTVKMQDMFREVLEDL 304 + L L + L+ QLL +ARA+ Q + V++ ++ R V++D Sbjct: 177 QDDQVDVRRSLEQLAKSSETATRLVNQLLSLARAENQQSQSGGMIPVELNELARSVVQDW 236 Query: 305 MPMAEAKKLEVEVSSADD-VYFHGHHFDCIVVIKNLVDNAIRYTPE--YGRLILSAHKSD 361 +PM+ +++++ D + G+ ++ NL+DNA+ YTP GR+ + A + Sbjct: 237 VPMSFTQRIDLGFEQPDHPILITGNPVMLRELLSNLLDNALHYTPHDGNGRVTVRARTDE 296 Query: 362 RR--LIIDIEDSGPGISDDDVGRIFDPFYRVLGSGESGS--GLGLAIVKAILDRSAAKAT 417 I+++ED+GPGI + +F+ FYR+LG+ +GS GLGLAIV+ I + A Sbjct: 297 GGGLAILEVEDNGPGIPVAERANVFERFYRILGTPSTGSGLGLGLAIVREIAQQHEAALE 356 Query: 418 VT-NIRNEDGTKGGLRVRVTF 437 +T N R+ D G RV+F Sbjct: 357 ITSNPRSTDPKYPGCVFRVSF 377 >gi|300312689|ref|YP_003776781.1| transmembrane sensor kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 459 Score = 148 bits (374), Expect = 7e-37, Method: Compositional matrix adjust. Identities = 99/313 (31%), Positives = 178/313 (56%), Gaps = 13/313 (4%) Query: 130 RTEVRDEIAHGSGLRTVLPFLILMPVLLIVVNVLIRQMLKPVARLSSELDRRSEADLSAM 189 R E+ D+ H S R ++ L+L+ + L+V+ + + L+P+ L EL R L+ + Sbjct: 152 RQEMIDDQWHASLRRQIV--LLLLAISLVVLGLTME--LRPLLALKDELATRRPDSLTPL 207 Query: 190 DDEKVPAEIKPFTASINALLLRVEKSMEMQKRFVADAAHELRSPLTALSLQAENLAKIEL 249 + E++P +IN + R+ + +QKRFVADAAH+LR+PL + Q + +++ Sbjct: 208 RAGGLQQELRPIVEAINQYIFRLNAQVTVQKRFVADAAHQLRTPLAVIDSQIQFARQLDD 267 Query: 250 PPAASERLATLRGGMQRMRTLLEQLLLMARAQATSRQVV--STVKMQDMFREVLEDLMPM 307 P ++ LA+L+ G + M L +LLL+++A+A+ + V + + VLE+L + Sbjct: 268 PARVAQVLASLQEGSRSMTDLTNKLLLLSQAEASDSSAFPRAPVDLLAVSAMVLEELSGL 327 Query: 308 AEAKKLEVEV-SSADDVYFHGHHFDCIVVIKNLVDNAIRYTPEYGRLILSAHKSDRRLII 366 A K +++ + ++ + +G+ + ++ NL+DNA+RYTPE G++ + K ++II Sbjct: 328 ALKKGIDLGLETTLESAMVNGNEAQLMGMLMNLIDNALRYTPEGGKVTVGLEKKRSQMII 387 Query: 367 DIEDSGPGISDDDVGRIFDPFYRVLGSGESGSGLGLAIVKAILDRSAAKATVTNIRNEDG 426 + D+GPGI + R+F+ FYR + GSGLGLAIV+ I+ +A+ +IR + Sbjct: 388 TVSDNGPGIPAEVRERVFERFYRNAAPDQPGSGLGLAIVREIV-----QASQGSIRLDAP 442 Query: 427 TKG-GLRVRVTFP 438 +G GL V+ P Sbjct: 443 AQGSGLVATVSLP 455 >gi|300312679|ref|YP_003776771.1| periplasmic sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 459 Score = 140 bits (353), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 91/271 (33%), Positives = 148/271 (54%), Gaps = 11/271 (4%) Query: 146 VLPFLILMPVL----LIVVNVLIRQMLKPVARLSSELDRRSEADLSAMDDEKVPAEIKPF 201 +L FL+L L + VV V +R+ L+P+ L L++R L A+D P E++P Sbjct: 160 LLSFLVLDGALTFASIFVVLVAVRRGLRPLKSLQRNLEQRDHGKLGAIDGRGAPVELQPL 219 Query: 202 TASINALLLRVEKSMEMQKRFVADAAHELRSPLTALSLQAENLA-KIELPPAASERLATL 260 ++N L+ R+ K + Q+ F+AD AH+LR+PLT L LQ E L K + P + LA + Sbjct: 220 IVAMNELMARINKGEQAQQNFMADVAHQLRTPLTGLKLQLELLHDKHQDQPDTARSLAMM 279 Query: 261 RGGMQRMRTLLEQLLLMARAQA---TSRQVVSTVKMQDMFREVLEDLMPMAEAKKLEVEV 317 ++RM QLL +AR++ SR+ + + + + E ++ + A+ K++++ Sbjct: 280 NSSVERMIRQSRQLLALARSEPGLFESRK-LEELSLDKLVEESVQHFIEEADKKRIDLGF 338 Query: 318 SSADDVYFHGHHFDCIVVIKNLVDNAIRYTPEYGRLILSAHKSDRRLIIDIEDSGPGISD 377 G F +I NL+DNA+RY+P +G + + + ++ +EDSGPGI+ Sbjct: 339 -DLRPARLRGDRFLLSDLIDNLIDNAVRYSPPHGTVTVRCLEEQDATVLSVEDSGPGIAP 397 Query: 378 DDVGRIFDPFYRVLGSGESGSGLGLAIVKAI 408 + IFD FYR +GSGLGLAIV+ I Sbjct: 398 EHRELIFDRFYRA-NDKVAGSGLGLAIVREI 427 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 0.136 0.379 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: 1,223,097 Number of extensions: 46375 Number of successful extensions: 276 Number of sequences better than 1.0e-08: 32 Number of HSP's gapped: 248 Number of HSP's successfully gapped: 32 Length of query: 439 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 351 Effective length of database: 1,203,190 Effective search space: 422319690 Effective search space used: 422319690 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 (21.8 bits) S2: 132 (55.5 bits)