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= 0001.3339.p (372 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312674|ref|YP_003776766.1| two-component system transcript... 711 0.0 gi|300312803|ref|YP_003776895.1| two component sensor histidine ... 159 3e-40 gi|300311807|ref|YP_003775899.1| light-regulated signal transduc... 117 1e-27 gi|300311949|ref|YP_003776041.1| two component response regulato... 74 2e-14 gi|300313070|ref|YP_003777162.1| two component sensor histidine ... 74 3e-14 >gi|300312674|ref|YP_003776766.1| two-component system transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 372 Score = 711 bits (1835), Expect = 0.0, Method: Compositional matrix adjust. Identities = 352/372 (94%), Positives = 363/372 (97%) Query: 1 VIEKHKDRDLPRVKFLLVDDLDENLLALSALLQRDDVELLLARSGLEALELLLQHEVALA 60 + E+HKDRDLPRVKFLLVDDLDENLLALSALLQRDDVELLLARSGLEALELLL HEVALA Sbjct: 1 MTEQHKDRDLPRVKFLLVDDLDENLLALSALLQRDDVELLLARSGLEALELLLVHEVALA 60 Query: 61 FIDVQMPDMDGFELAELIRGSERTRNVPLIFVTAGVRDERRLFKGYESGAVDFLYKPIEP 120 FIDVQMPDMDGFELAELIRGSERTRNVPLIFVTAGVRDERRLFKGYESGAVDFLYKPIEP Sbjct: 61 FIDVQMPDMDGFELAELIRGSERTRNVPLIFVTAGVRDERRLFKGYESGAVDFLYKPIEP 120 Query: 121 HILRNKAEVFFQLYRQKQLLALELRERTETLRMNEMFVAILGHDLRNPLSAVVMAATLLQ 180 HILRNKAEVFFQLYRQKQ LALELRERTETLR+NEMFVAILGHDLRNPLSAV+MAATLLQ Sbjct: 121 HILRNKAEVFFQLYRQKQQLALELRERTETLRLNEMFVAILGHDLRNPLSAVMMAATLLQ 180 Query: 181 RTYKEEVAQKASQQILNGGKRMAKLIENMLDLARARLAGGIPLARASACLGEITERVVQE 240 RTYKEEVAQKASQQILNGGKRMAKLIENMLDLARARLAGGIPLARASACLGEITERVVQE Sbjct: 181 RTYKEEVAQKASQQILNGGKRMAKLIENMLDLARARLAGGIPLARASACLGEITERVVQE 240 Query: 241 YQATYPGSVIERRIEGDDNGFWDGDRLAQVAANLLGNALQHGVAGSPICIGLDGRSEHEV 300 YQATYPGSVIERRIEGDDNG+WDGDRLAQVAANLLGNALQHG G PICIG+DGRSEHEV Sbjct: 241 YQATYPGSVIERRIEGDDNGYWDGDRLAQVAANLLGNALQHGEPGHPICIGIDGRSEHEV 300 Query: 301 VLTIANRGVIPAELLPVIFDPFRGGGREIGRKEGLGLGLFIAQQIVKAHGGSITMTSDDQ 360 V+ IANRGVIPA+LLPVIFDPFRGG RE GRKEGLGLGLFIAQQIVKAHGGSI+M+SDDQ Sbjct: 301 VMVIANRGVIPADLLPVIFDPFRGGEREAGRKEGLGLGLFIAQQIVKAHGGSISMSSDDQ 360 Query: 361 VQTMVTVRLPRR 372 +QTMVTVRLPRR Sbjct: 361 LQTMVTVRLPRR 372 >gi|300312803|ref|YP_003776895.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 401 Score = 159 bits (403), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 107/290 (36%), Positives = 160/290 (55%), Gaps = 20/290 (6%) Query: 101 RLFKGYESGAVDFLYKPIEPHILRNKAEVFFQLYRQK------------QLLALELRERT 148 RL G+ + Y+ + +LR A+ + + Y Q LA L T Sbjct: 91 RLLSGFSVEQLASEYRALRSSVLRLWAKEWKEGYETNVDDITRFNEAIDQALAESLARYT 150 Query: 149 ETL-RMNEMFVAILGHDLRNPLSAVVMAATLLQRTYK-EEVAQKASQQILNGGKRMAKLI 206 + L + +F+AILGHDLRNPL A + A ++ ++ +K + +I N G+RM+KL+ Sbjct: 151 KLLDQSRNLFLAILGHDLRNPLGATIHGAQIMLLAEDIDDRHRKIAARIYNSGQRMSKLV 210 Query: 207 ENMLDLARARLAGGIPLARASACLGEITERVVQEYQATYPGSVIERRIEGDDNGFWDGDR 266 ++LD R L G+PL +SA +G+I +RV+ E ++P VI + G+ NG WD +R Sbjct: 211 ADLLDYTRTHLGSGLPLEISSANVGDIAQRVIDEISTSHPDKVITLKTSGELNGEWDKER 270 Query: 267 LAQVAANLLGNALQHGVAGSPICIGLDGRSEHEVVLTIANRG-VIPAELLPVIFDPF--- 322 +AQ +NLLGNA+QHG G I + + S EV + I N+G +IP E L IFDP Sbjct: 271 IAQAISNLLGNAVQHGATGEAIKVEISA-SRGEVHVAINNKGPLIPEEKLHTIFDPLVRL 329 Query: 323 -RGGGREIGRKEGLGLGLFIAQQIVKAHGGSITMTSDDQVQTMVTVRLPR 371 GG G+ +GLGL+I +++ AHGGS+T +S T T+RLPR Sbjct: 330 VANGGEGSGQGGSMGLGLYIVREVASAHGGSVTASSSTAEGTTFTIRLPR 379 >gi|300311807|ref|YP_003775899.1| light-regulated signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 732 Score = 117 bits (294), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 76/226 (33%), Positives = 122/226 (53%), Gaps = 14/226 (6%) Query: 152 RMNEMFVAILGHDLRNPLSAVVMAATLLQRTYKEEVAQKASQQILNGGKRMAKLIENMLD 211 R E +A LGHDLR+PL A++MAA +++ + S++I + RM +LI +LD Sbjct: 510 RARETLLATLGHDLRDPLQAIMMAARMIEVREHSPSSSNLSKRISSSSSRMHRLISQVLD 569 Query: 212 LARARLAGGIPLARASACLGEITERVVQEYQATYPGSVIERRIEGDDNG--FWDGDRLAQ 269 ++R + G+ + R + ++ +V E + YP + I +E +D G DGDR++Q Sbjct: 570 ISRLQSGMGLDIQRRPVDVRKMVSEIVSEARMAYPDNEI--ILEAEDCGEIALDGDRISQ 627 Query: 270 VAANLLGNALQHGVAGSPICIGLDGRSEHEVVLTIANRG-VIPAELLPVIFDPFR----G 324 V +NL+ N HG G P + + R E + + ++N G IP + +F P++ G Sbjct: 628 VVSNLISNTRHHGEIGKPSTL-IVFRREDVLTIAVSNHGPAIPEPVRSNLFKPYKKESLG 686 Query: 325 GGREIGRKEGLGLGLFIAQQIVKAHGGSITMTSDDQVQTMVTVRLP 370 R GLGLGL+I +IV HGG I ++ D+ + T TV LP Sbjct: 687 NQRN---TRGLGLGLYIVSEIVHGHGGKIAVSCDNNIITF-TVTLP 728 >gi|300311949|ref|YP_003776041.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 318 Score = 73.9 bits (180), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 41/109 (37%), Positives = 61/109 (55%), Gaps = 1/109 (0%) Query: 12 RVKFLLVDDLDENLLALSALLQRDDVELLLARSGLEALELLLQHEVALAFIDVQMPDMDG 71 R L+VDD+ +NL LS L +L+A GL ALE L L +D MP +DG Sbjct: 8 RHVVLIVDDMPDNLAMLSDALDDSGHIVLVATDGLSALERLDHITPDLILLDAMMPGIDG 67 Query: 72 FELAELIRGSERTRNVPLIFVTAGVRDERRLFKGYESGAVDFLYKPIEP 120 FE I+ R +VP++F+T G+ + + +G+E G +D++ KPI P Sbjct: 68 FETCRRIKQVRRVAHVPVVFMT-GLSETEHVVRGFEVGGIDYVTKPIRP 115 >gi|300313070|ref|YP_003777162.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 939 Score = 73.6 bits (179), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 66/230 (28%), Positives = 112/230 (48%), Gaps = 11/230 (4%) Query: 149 ETLRMNEMFVAILGHDLRNPLSAVVMAATLLQRTYK-EEVAQKASQQILNGGKRMAKLIE 207 E+ R+ ++ + HDLR PL+++V +A +L + ++ A+ ++ I ++M L+ Sbjct: 703 ESERLRNSLLSAISHDLRTPLTSLVGSADVLAANARLDDDARAMARTISEQSQKMVGLMN 762 Query: 208 NMLDLARARLAGGIPLARASACLGEITERVVQEYQATYPGSVIERRIEGDDNGF-WDGDR 266 N+LD+AR + AG + L R L E+ ++ G ++ RI + D Sbjct: 763 NLLDMARLQ-AGVVTLNRQWNALEELAGSALRLLAKALEGRQVDTRIAPELPLLRVDAVL 821 Query: 267 LAQVAANLLGNALQHGVAGSPICIGL-----DGRSEHEVVLTIANRGVIPAELLPVIFDP 321 L +V ANL+ NA+++ G+PI I DG + +V + RG P + F+ Sbjct: 822 LERVLANLVENAIKYSPPGTPIGISAHVEHGDGAPQVKVCVMDQGRG-FPPTMTQHAFEK 880 Query: 322 FRGGGREIGRKEGLGLGLFIAQQIVKAHGGSITMTSDDQVQ-TMVTVRLP 370 F G E G+GLGL I + I++AH G I + + Q V LP Sbjct: 881 FTRGDNESA-TPGVGLGLAICRAIIEAHQGRIWIAPQEAGQGATVCFTLP 929 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 0.322 0.140 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: 955,069 Number of extensions: 35934 Number of successful extensions: 288 Number of sequences better than 1.0e-08: 26 Number of HSP's gapped: 301 Number of HSP's successfully gapped: 27 Length of query: 372 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 285 Effective length of database: 1,207,925 Effective search space: 344258625 Effective search space used: 344258625 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: 131 (55.1 bits)