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= 0001.1817.p (299 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311282|ref|YP_003775374.1| transmembrane sensor histidine ... 444 e-126 gi|300311886|ref|YP_003775978.1| multi-sensor signal transductio... 100 1e-22 gi|300310534|ref|YP_003774626.1| transmembrane sensor histidine ... 80 1e-16 gi|300312076|ref|YP_003776168.1| signal transduction histidine k... 75 9e-15 gi|300312939|ref|YP_003777031.1| transmembrane nitrate/nitrite s... 72 4e-14 >gi|300311282|ref|YP_003775374.1| transmembrane sensor histidine kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 464 Score = 444 bits (1142), Expect = e-126, Method: Compositional matrix adjust. Identities = 247/293 (84%), Positives = 267/293 (91%), Gaps = 7/293 (2%) Query: 1 VIGTGIYLDDVEAALAQVDHQNSGYLHQTMLLIAAIALASALAVGLAGLLLNLSEHRVAD 60 VIGTGIYLDDVEAALAQ+D QNSGYLHQT+LLIA+IALASALAVGLAGLLLNLSEHRVAD Sbjct: 173 VIGTGIYLDDVEAALAQIDRQNSGYLHQTLLLIASIALASALAVGLAGLLLNLSEHRVAD 232 Query: 61 AKLRQLAQRVVHSQEEERARLSRDLHDGISQWLVSIKLQIEAALERLRGTPEQAAQARSG 120 AKLRQLAQRVV SQEEERARLSRDLHDGISQWLVSIKLQIEAAL RL GTPEQAA AR+G Sbjct: 233 AKLRQLAQRVVRSQEEERARLSRDLHDGISQWLVSIKLQIEAALVRLNGTPEQAATARAG 292 Query: 121 FEKTATQINGVLAEVRRISHDLRPALLDDLGLAAALEHLCSEWRDSAGSGAGNTAAATQI 180 FEKTATQINGVLAEVRRISHDLRPA+LDDLGLAAALEHLC EWRD+AG+G +I Sbjct: 293 FEKTATQINGVLAEVRRISHDLRPAILDDLGLAAALEHLCGEWRDAAGAG-------VEI 345 Query: 181 VFESEGKLGDGTPLPEVVNTVLFRVAQEALTNIARHAGASQIRMRLYGGSTLLMLQVQDN 240 VFE++ + DG LP+VVNTVLFR+AQEALTNIARHAGAS+I++RLY G LLMLQVQDN Sbjct: 346 VFENQAQADDGATLPDVVNTVLFRIAQEALTNIARHAGASRIKVRLYQGHNLLMLQVQDN 405 Query: 241 GCGFDLGRVDDHSRHGIGLRNMRERMEAVGGELAIDSSAAGTRISAIIARSSL 293 G GFDLG+VDDHSRHGIGLRNMRER+EAVGGEL IDSS AGT ISA+IAR+SL Sbjct: 406 GHGFDLGQVDDHSRHGIGLRNMRERIEAVGGELGIDSSPAGTSISAVIARASL 458 >gi|300311886|ref|YP_003775978.1| multi-sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 475 Score = 100 bits (249), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 86/249 (34%), Positives = 126/249 (50%), Gaps = 29/249 (11%) Query: 46 LAGLLLNLSEHRVADAKL-----RQ--LAQRVVHSQEEERARLSRDLHDGISQWLVSIKL 98 +AGL ++++E + L RQ L+ RV+ QE ER L+R LHD + Q L ++K+ Sbjct: 233 VAGLAIDVTEREQSRRDLELAIQRQQLLSSRVIEVQERERQHLARGLHDDVGQSLTALKI 292 Query: 99 QIEAALERLRGTPEQAAQARSGFEKTATQINGVLAEVRRISHDLRPALLDDLGLAAALEH 158 +E + G+ E + + + VLA+VR +S DLRP LD+LGL AAL Sbjct: 293 NLETI--KKMGSLEGPS-----LQNGIDIVTAVLAQVRSLSLDLRPPQLDNLGLIAALRS 345 Query: 159 LCSEWRDSAGSGAGNTAAATQIVFESEGKLGDGTPLPEVVNTVLFRVAQEALTNIARHAG 218 + + A FES G D ++ NT FR+ QEA+TNI RHA Sbjct: 346 YVEQ---------KSKLANVNGWFESSGH--DEQLHHDIENTA-FRIVQEAVTNILRHAR 393 Query: 219 ASQIRMRLYGGSTLLMLQVQDNGCGFDLGRVDDHSRHG--IGLRNMRERMEAVGGELAID 276 I +++ + L ++D+G GFD+ R ++ G GL NM ER VGG + I Sbjct: 394 CQNIWVKIDRQHDQVYLSIRDDGRGFDIERARSNAISGTSFGLLNMEERAVLVGGSMEIT 453 Query: 277 SSA-AGTRI 284 S+ AGT I Sbjct: 454 SAPGAGTEI 462 >gi|300310534|ref|YP_003774626.1| transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 677 Score = 80.5 bits (197), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 63/221 (28%), Positives = 104/221 (47%), Gaps = 22/221 (9%) Query: 61 AKLRQLAQRVVHSQEEERARLSRDLHDGISQWLVSIKLQIEAALERLRGTPEQAAQARSG 120 A LR+L + +EEE+ ++R+LHD + L ++ + +E + L P++ R Sbjct: 456 ALLRELTNHLETVREEEKRAIARELHDNMGASLTALSMHLEGVYQIL--PPDEKWADR-- 511 Query: 121 FEKTATQ--INGVLAEVRRISHDLRPALLDDLGLAAALEHLCSEWRDSAGSGAGNTAAAT 178 K Q + ++A RRI +LRP LD GL AA+ E + G + Sbjct: 512 --KVRMQGLMKSLVATTRRIQTELRPNTLDLFGLKAAISEQLDELHERTGIACHASLPDE 569 Query: 179 QIVFESEGKLGDGTPLPEVVNTVLFRVAQEALTNIARHAGASQIRMRLYGGSTLLMLQVQ 238 + E ++ ++R+ QE L N+ +HA AS++ + L + L V+ Sbjct: 570 DVEVGHEMEIA------------IYRMLQEMLNNVTKHAKASKVDVILDIDEDHVALTVR 617 Query: 239 DNGCGFDLGRVDDHSRHGIGLRNMRERMEAVGGELAIDSSA 279 D+G G R D+H + GLR +RER GGE+ I S+ Sbjct: 618 DDGVGIPEERRDNHKTY--GLRGLRERATFFGGEVDIRSTP 656 >gi|300312076|ref|YP_003776168.1| signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 356 Score = 74.7 bits (182), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 66/217 (30%), Positives = 105/217 (48%), Gaps = 26/217 (11%) Query: 71 VHSQEEERARLSRDLHDGISQWLVSI-----KLQIEAALERLRGTPEQAAQARSGFEKTA 125 +H +E+ER R++RDLHD + L + +LQ + A + L +A +AR ++ Sbjct: 148 IHIREQERERIARDLHDDLGGVLAGVGMALGRLQEQLAAQGLAAPLAEADEARQLLQQAM 207 Query: 126 TQINGVLAEVRRISHDLRPALLDDLGLAAALEHLCSEWRDSAGSGAGNTAAATQIVFESE 185 ++ ++ E L P +++ GL AL+ C + + T E E Sbjct: 208 ASMHSIIDE-------LHPPIVE-FGLVDALQWQCRQIQREYRLHCQLDCPPT---LEQE 256 Query: 186 GKLGDGTPLPEVVNTVLFRVAQEALTNIARHAGASQIRMRLYGGSTLLMLQVQDNGCGF- 244 + + L R+ +EA +N ARH AS +R+ L L +Q+ D+GCG Sbjct: 257 DRF---------LILGLLRILREAASNAARHGRASALRVDLRMRQARLEMQIADDGCGIA 307 Query: 245 DLGRVDDHSRHGIGLRNMRERMEAVGGELAIDSSAAG 281 L + RHG GLRNMRER +A+GGEL I++ G Sbjct: 308 PLHAKEVAPRHGHGLRNMRERAQALGGELFIEAGQDG 344 >gi|300312939|ref|YP_003777031.1| transmembrane nitrate/nitrite sensor histidine kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 650 Score = 72.4 bits (176), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 76/239 (31%), Positives = 110/239 (46%), Gaps = 34/239 (14%) Query: 68 QRVVHSQEE-----ERARLSRDLHDGISQWLVSIKLQIEA-----ALERLRGTPEQAAQA 117 QR++ ++E ER L++ LHD I+Q L + LQ++ A +RL + A Sbjct: 432 QRLIAREKEFAIANERNLLAQGLHDSIAQGLNFLNLQVQMLEDSLARDRLDEIRDIAPLL 491 Query: 118 RSGFEKTATQINGVLAEVRRISHDLRPALLDDLGLAAALEHLCSEWRDSAGSGAGNTAAA 177 R+G ++ +VR + + R L D +L SE R + + Sbjct: 492 RTGVQEN-------YEDVRELLLNFRTRLQDS--------NLDSEMRKALDKLQRQSGLQ 536 Query: 178 TQIVFESEGKLGDGTPL-PEVVNTVLFRVAQEALTNIARHAGASQIRMRLYGGSTLLMLQ 236 QI GDG PL PE VLF + QEAL+NI +HA A Q+++ + M Sbjct: 537 GQITLT-----GDGPPLAPEQQLQVLF-ILQEALSNIRKHARAQQVQISVDNRQDFRM-T 589 Query: 237 VQDNGCGFDLGRVDDHSRHGIGLRNMRERMEAVGGELAIDSSAA-GTRISAIIARSSLL 294 V D+G GF L +GLR M+ER E +G L IDS GTRI+ + R L Sbjct: 590 VSDDGHGFTLESARAKGLEHVGLRIMQERAERLGANLEIDSQPGHGTRIALTLLRQERL 648 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 0.318 0.133 0.370 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: 730,698 Number of extensions: 24156 Number of successful extensions: 144 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 137 Number of HSP's successfully gapped: 6 Length of query: 299 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 214 Effective length of database: 1,217,395 Effective search space: 260522530 Effective search space used: 260522530 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 130 (54.7 bits)