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= 0001.2117.p (732 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311807|ref|YP_003775899.1| light-regulated signal transduc... 1256 0.0 gi|300312674|ref|YP_003776766.1| two-component system transcript... 127 4e-30 gi|300312803|ref|YP_003776895.1| two component sensor histidine ... 100 4e-22 gi|300311808|ref|YP_003775900.1| two component sensor histidine ... 82 1e-16 gi|300312679|ref|YP_003776771.1| periplasmic sensor signal trans... 72 1e-13 >gi|300311807|ref|YP_003775899.1| light-regulated signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 732 Score = 1256 bits (3250), Expect = 0.0, Method: Compositional matrix adjust. Identities = 623/730 (85%), Positives = 674/730 (92%) Query: 1 MSNPYHASRKRAVDLSNCDQEPIHIPGSIQNHGALLCFTPEGELATRSANAGSLLGPLPE 60 MSNPYH R R VDLSNCD EPIHIPGSIQNHGALLCF P+G LA+RSANA +LLG LPE Sbjct: 1 MSNPYHEGRHRTVDLSNCDSEPIHIPGSIQNHGALLCFAPDGALASRSANASTLLGALPE 60 Query: 61 IGQALGEPHLNAATRALIQAALADHQGYVDAHMITLDSGTFDLVTHKSEGVLIAEFEQRA 120 +GQALGE HL+A+ RA+IQAAL D GYVDA M+ L +G FDLVTHKSEGVLIAEFE+R Sbjct: 61 VGQALGEAHLDASARAVIQAALEDRYGYVDARMLVLPAGVFDLVTHKSEGVLIAEFERRP 120 Query: 121 ADALPLDAFALAAHQAIQRIQRQPGVDDLLTLAVDEIARITGFDRVMAYRFLHDDSGEVV 180 AD LD+FALAAHQAIQRIQRQ V DLL+LAVDEIARITGFDRVMAYRFLHDDSGEVV Sbjct: 121 ADVAALDSFALAAHQAIQRIQRQQSVADLLSLAVDEIARITGFDRVMAYRFLHDDSGEVV 180 Query: 181 AEHKRDDLEPFLGQRYPASDIPTQARRLYVINPIRLIADVLAPTVALEPDLNPLTGRPLD 240 AEH+R+DLE FLGQRYPASDIP QARRLYVINPIRLIADV APTV L+PDLNPLTGR LD Sbjct: 181 AEHRREDLESFLGQRYPASDIPAQARRLYVINPIRLIADVGAPTVPLQPDLNPLTGRALD 240 Query: 241 LSHGMLRSVSPVHIEYLSNMGVGASMSLSIVIGERLWGLIACHHMKAHLVPHAVRMSCQL 300 LSHG+LRSVSPVHIEYLSNMGVGASMSLSIVIGERLWGLIACHHM HLVPHAVRMSCQL Sbjct: 241 LSHGILRSVSPVHIEYLSNMGVGASMSLSIVIGERLWGLIACHHMSPHLVPHAVRMSCQL 300 Query: 301 LAQFVSALVERNLNGERARALEYNAALRRQIVAQVTDREDIVLALGSDHQSFLRLLNSHG 360 L+QFVSALVERNLNGERARAL+ + ALRR+IVAQVTDRED+VLAL S +SFLRL+N+HG Sbjct: 301 LSQFVSALVERNLNGERARALDDSTALRREIVAQVTDREDLVLALSSAPESFLRLMNAHG 360 Query: 361 GAISVDRKTQVFGKSPSREGVNALINWLNENEPGDLFYTNALGADVPALKAAMGDICGVL 420 GAI++DRKTQVFGK+PSREGVNALINWLNE+ DLF T++LGADVP LKAAMGDICGVL Sbjct: 361 GAITLDRKTQVFGKAPSREGVNALINWLNEHHSADLFSTSSLGADVPDLKAAMGDICGVL 420 Query: 421 AVRFYRQQDGYAFWFRSEQVEDVRWGGNPEKQYSIGPLGPRLTPRGSFAVWKETVRGKSL 480 AVRFYR+Q+GYAFWFR+EQVEDVRWGGNPEK+YSIGPLGPRLTPRGSFAVWKETVRGKSL Sbjct: 421 AVRFYREQNGYAFWFRNEQVEDVRWGGNPEKKYSIGPLGPRLTPRGSFAVWKETVRGKSL 480 Query: 481 PWDTTELETANQLRLDFQEVALSNENMVKRARETLLATLGHDLRDPLQAIMMAARMIEVR 540 PW+ T+ E A+QLRLD QEVAL+NEN+VKRARETLLATLGHDLRDPLQAIMMAARMIEVR Sbjct: 481 PWEKTQTEAASQLRLDLQEVALTNENLVKRARETLLATLGHDLRDPLQAIMMAARMIEVR 540 Query: 541 EHSPSSSNLSKRISSSSSRMHRLIAQVLDISRLQSGMGLDIQRRPVDVCKMVNEIVNEAR 600 EHSPSSSNLSKRISSSSSRMHRLI+QVLDISRLQSGMGLDIQRRPVDV KMV+EIV+EAR Sbjct: 541 EHSPSSSNLSKRISSSSSRMHRLISQVLDISRLQSGMGLDIQRRPVDVRKMVSEIVSEAR 600 Query: 601 MAYPDNEIILEAEDCGEIDLDGDRISQVVSNLLSNTRHHGELGKPSTLIVFRREDVLTMS 660 MAYPDNEIILEAEDCGEI LDGDRISQVVSNL+SNTRHHGE+GKPSTLIVFRREDVLT++ Sbjct: 601 MAYPDNEIILEAEDCGEIALDGDRISQVVSNLISNTRHHGEIGKPSTLIVFRREDVLTIA 660 Query: 661 VSNYGAAIPSAVRDNLFKPYKKEAMGNRRNARGLGLGLYIVSEIVSGHGGKIEVQCDNHI 720 VSN+G AIP VR NLFKPYKKE++GN+RN RGLGLGLYIVSEIV GHGGKI V CDN+I Sbjct: 661 VSNHGPAIPEPVRSNLFKPYKKESLGNQRNTRGLGLGLYIVSEIVHGHGGKIAVSCDNNI 720 Query: 721 ITFTVTLPIL 730 ITFTVTLPIL Sbjct: 721 ITFTVTLPIL 730 >gi|300312674|ref|YP_003776766.1| two-component system transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 372 Score = 127 bits (318), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 88/249 (35%), Positives = 133/249 (53%), Gaps = 14/249 (5%) Query: 488 ETANQLRLDFQEVALSNENMVK--RARETLLATLGHDLRDPLQAIMMAARMIEVREHSPS 545 E QL Q++AL + R E +A LGHDLR+PL A+MMAA +++ Sbjct: 128 EVFFQLYRQKQQLALELRERTETLRLNEMFVAILGHDLRNPLSAVMMAATLLQRTYKEEV 187 Query: 546 SSNLSKRISSSSSRMHRLIAQVLDISRLQSGMGLDIQRRPVDVCKMVNEIVNEARMAYPD 605 + S++I + RM +LI +LD++R + G+ + R + ++ +V E + YP Sbjct: 188 AQKASQQILNGGKRMAKLIENMLDLARARLAGGIPLARASACLGEITERVVQEYQATYPG 247 Query: 606 NEI--ILEAEDCGEIDLDGDRISQVVSNLLSNTRHHGELGKPSTL-IVFRREDVLTMSVS 662 + I +E +D G DGDR++QV +NLL N HGE G P + I R E + M ++ Sbjct: 248 SVIERRIEGDDNGY--WDGDRLAQVAANLLGNALQHGEPGHPICIGIDGRSEHEVVMVIA 305 Query: 663 NYGAAIPSAVRDNLFKPYKKEAMGNRRNAR--GLGLGLYIVSEIVSGHGGKIEVQCDNHI 720 N G IP+ + +F P++ G R R GLGLGL+I +IV HGG I + D+ + Sbjct: 306 NRG-VIPADLLPVIFDPFRG---GEREAGRKEGLGLGLFIAQQIVKAHGGSISMSSDDQL 361 Query: 721 ITF-TVTLP 728 T TV LP Sbjct: 362 QTMVTVRLP 370 >gi|300312803|ref|YP_003776895.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 401 Score = 100 bits (250), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 71/233 (30%), Positives = 117/233 (50%), Gaps = 9/233 (3%) Query: 506 NMVKRARETLLATLGHDLRDPLQAIMMAARMIEVREH-SPSSSNLSKRISSSSSRMHRLI 564 ++ ++R LA LGHDLR+PL A + A+++ + E ++ RI +S RM +L+ Sbjct: 151 KLLDQSRNLFLAILGHDLRNPLGATIHGAQIMLLAEDIDDRHRKIAARIYNSGQRMSKLV 210 Query: 565 AQVLDISRLQSGMGLDIQRRPVDVCKMVNEIVNEARMAYPDNEIILEAEDCGEI--DLDG 622 A +LD +R G GL ++ +V + +++E ++PD I L+ GE+ + D Sbjct: 211 ADLLDYTRTHLGSGLPLEISSANVGDIAQRVIDEISTSHPDKVITLKT--SGELNGEWDK 268 Query: 623 DRISQVVSNLLSNTRHHGELGKPSTLIVFRREDVLTMSVSNYGAAIPSAVRDNLFKPYKK 682 +RI+Q +SNLL N HG G+ + + + ++++N G IP +F P + Sbjct: 269 ERIAQAISNLLGNAVQHGATGEAIKVEISASRGEVHVAINNKGPLIPEEKLHTIFDPLVR 328 Query: 683 ---EAMGNRRNARGLGLGLYIVSEIVSGHGGKIEVQCDN-HIITFTVTLPILP 731 +GLGLYIV E+ S HGG + TFT+ LP P Sbjct: 329 LVANGGEGSGQGGSMGLGLYIVREVASAHGGSVTASSSTAEGTTFTIRLPRDP 381 >gi|300311808|ref|YP_003775900.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 289 Score = 82.4 bits (202), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 73/245 (29%), Positives = 120/245 (48%), Gaps = 13/245 (5%) Query: 495 LDFQEVALSNENMVKRARETLLATLGHDLRDPLQAIMMAARMIEVREHSPSSSNLSK--R 552 L+ Q A + V R ++ LATL H+LR PL AI+ + + + +HS + L K + Sbjct: 33 LETQRAARRQADSVTRLKDEFLATLSHELRTPLNAIVGWTQYL-LNDHS-DADRLVKGLQ 90 Query: 553 ISSSSSRMH-RLIAQVLDISRLQSGMGLDIQRRPVDVCKMVNEIVNEARMAYPDNEIILE 611 + ++R+ +++ +LD+SR+ +G L ++ RP+D+ + E + R A +I L Sbjct: 91 VIERNARLQAQMVEDLLDMSRMLAGK-LRLETRPMDLASVAEEAIAAVRPAAEARQIELH 149 Query: 612 AE--DCGEIDLDGDRISQVVSNLLSNTRHHGELGKPSTLIVFRREDVLTMSVSNYGAAIP 669 G I D R+ QVV NLL N +L + + +D + + VS+ G I Sbjct: 150 PALGQGGVILGDPARLQQVVWNLLMNAIKFTPRQGRVSLSLRQHDDTVALEVSDNGRGIK 209 Query: 670 SAVRDNLFKPYKKEAM---GNRRNARGLGLGLYIVSEIVSGHGGKIEVQCDNHII--TFT 724 ++F + +E + A GLGLGL I +V HGG+I + FT Sbjct: 210 GEFLGSVFDRFTQEDVSTGSTGSTASGLGLGLAIARHLVELHGGQIRAASAGPGMGAAFT 269 Query: 725 VTLPI 729 VTLP+ Sbjct: 270 VTLPL 274 >gi|300312679|ref|YP_003776771.1| periplasmic sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 459 Score = 72.0 bits (175), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 63/231 (27%), Positives = 105/231 (45%), Gaps = 10/231 (4%) Query: 506 NMVKRARETLLATLGHDLRDPLQAIMMAARMI-EVREHSPSSSNLSKRISSSSSRMHRLI 564 N ++A++ +A + H LR PL + + ++ + + P ++ ++SS RM R Sbjct: 231 NKGEQAQQNFMADVAHQLRTPLTGLKLQLELLHDKHQDQPDTARSLAMMNSSVERMIRQS 290 Query: 565 AQVLDISRLQSGMGLDIQRRPVDVCKMVNEIVNEARMAYPDNEIILEAEDCGEIDLDGDR 624 Q+L ++R + G+ + + + K+V E V + D + I D L GDR Sbjct: 291 RQLLALARSEPGLFESRKLEELSLDKLVEESVQHF-IEEADKKRIDLGFDLRPARLRGDR 349 Query: 625 --ISQVVSNLLSNTRHHGELGKPSTLIVFRREDVLTMSVSNYGAAIPSAVRDNLFKPYKK 682 +S ++ NL+ N + T+ +D +SV + G I R+ +F + + Sbjct: 350 FLLSDLIDNLIDNAVRYSPPHGTVTVRCLEEQDATVLSVEDSGPGIAPEHRELIFDRFYR 409 Query: 683 EAMGNRRNARGLGLGLYIVSEIVSGHGGKIEVQCDN--HIITFTVTLPILP 731 N + A G GLGL IV EI HGG I V C FTV P+ P Sbjct: 410 ---ANDKVA-GSGLGLAIVREIAHDHGGVISVDCKEQGQGTIFTVRFPLAP 456 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 0.396 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: 2,073,727 Number of extensions: 83405 Number of successful extensions: 290 Number of sequences better than 1.0e-08: 24 Number of HSP's gapped: 295 Number of HSP's successfully gapped: 24 Length of query: 732 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 640 Effective length of database: 1,184,250 Effective search space: 757920000 Effective search space used: 757920000 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: 134 (56.2 bits)