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= 0022.0460.p (460 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314016|ref|YP_003778108.1| two component transcription reg... 915 0.0 gi|300313916|ref|YP_003778008.1| two component response regulato... 301 1e-82 gi|300312425|ref|YP_003776517.1| nitrogen assimilation transcrip... 300 1e-82 gi|300312654|ref|YP_003776746.1| C4-dicarboxylate transport resp... 281 9e-77 gi|300312042|ref|YP_003776134.1| response regulatory protein [He... 276 2e-75 >gi|300314016|ref|YP_003778108.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 466 Score = 915 bits (2364), Expect = 0.0, Method: Compositional matrix adjust. Identities = 459/460 (99%), Positives = 459/460 (99%) Query: 1 MGKTAPLMLVDDDPDLLRLLTLRLNASGYRILAVESAEAALAQLAISLPALVITDVRLPG 60 MGKTAPLMLVDDDPDLLRLLTLRLNASGYRILAVESAEAALAQLAISLPALVITDVRLPG Sbjct: 7 MGKTAPLMLVDDDPDLLRLLTLRLNASGYRILAVESAEAALAQLAISLPALVITDVRLPG 66 Query: 61 MDGLALFAEIRSRYPALPVILLTAHGTIPDAVDATTQGAFAYLTKPFDGHVLLDKVAQAL 120 MDGLALFAEIRSRYPALPVILLTAHGTIPDAVDATTQGAFAYLTKPFDGHVLLDKVAQAL Sbjct: 67 MDGLALFAEIRSRYPALPVILLTAHGTIPDAVDATTQGAFAYLTKPFDGHVLLDKVAQAL 126 Query: 121 SLAAPAPLSPDQSWRADILSRSQRVAELLAEARLVAASDASILIRGDSGTGKELLGRAIH 180 SLAAPAPLSPDQSWRADILSRSQRVAELLAEARLVAASDASILIRGDSGTGKELL RAIH Sbjct: 127 SLAAPAPLSPDQSWRADILSRSQRVAELLAEARLVAASDASILIRGDSGTGKELLARAIH 186 Query: 181 RASARAEQPFIAVNCGAIPEQLLESELFGHVKGAFTGAVEHREGLFQAAHGGTLFLDEIG 240 RASARAEQPFIAVNCGAIPEQLLESELFGHVKGAFTGAVEHREGLFQAAHGGTLFLDEIG Sbjct: 187 RASARAEQPFIAVNCGAIPEQLLESELFGHVKGAFTGAVEHREGLFQAAHGGTLFLDEIG 246 Query: 241 DMPLPLQVKLLRVLQEKTVRQVGANQAGEVDVRIISATHRDLEAAMREGQFREDLYYRLN 300 DMPLPLQVKLLRVLQEKTVRQVGANQAGEVDVRIISATHRDLEAAMREGQFREDLYYRLN Sbjct: 247 DMPLPLQVKLLRVLQEKTVRQVGANQAGEVDVRIISATHRDLEAAMREGQFREDLYYRLN 306 Query: 301 VVTLHLPALEERREDIALLANHFLKTIAAKYPKRLTGFAPDALEILSLAHWPGNVRQLYN 360 VVTLHLPALEERREDIALLANHFLKTIAAKYPKRLTGFAPDALEILSLAHWPGNVRQLYN Sbjct: 307 VVTLHLPALEERREDIALLANHFLKTIAAKYPKRLTGFAPDALEILSLAHWPGNVRQLYN 366 Query: 361 VVEQVCALSTAPLIPASLVQRALRTPTLDLLRYAEAKQKFERDYLIRLLKLTDGNVSDAA 420 VVEQVCALSTAPLIPASLVQRALRTPTLDLLRYAEAKQKFERDYLIRLLKLTDGNVSDAA Sbjct: 367 VVEQVCALSTAPLIPASLVQRALRTPTLDLLRYAEAKQKFERDYLIRLLKLTDGNVSDAA 426 Query: 421 RLADRNRTEFYRLLQKNGLDPRRFRGGEEAVVAGRQEERL 460 RLADRNRTEFYRLLQKNGLDPRRFRGGEEAVVAGRQEERL Sbjct: 427 RLADRNRTEFYRLLQKNGLDPRRFRGGEEAVVAGRQEERL 466 >gi|300313916|ref|YP_003778008.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 448 Score = 301 bits (770), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 188/450 (41%), Positives = 264/450 (58%), Gaps = 23/450 (5%) Query: 5 APLMLVDDDPDLLRLLTLRLNASGYRILAVESAEAALAQLAISLPALVITDVRLPGMDGL 64 A +++VDDD L ++ G+ +L S A L LA I D+R+P DGL Sbjct: 2 ARILIVDDDAAFRGSLAETVSDLGHDVLEAGSTAAGLKLLAAHAVDAAIVDLRMPDEDGL 61 Query: 65 ALFAEIRSRYPAL---PVILLTAHGTIPDAVDATTQGAFAYLTKPFDGHVLLDKVAQAL- 120 A R PA+ P I+LTA+ + + ++A GAF +LTKP L++ + +AL Sbjct: 62 AFL----QRAPAIAAIPCIMLTAYASGDNTIEAIRLGAFDHLTKPVPRAALVETLERALR 117 Query: 121 -SLAAPAPLSPDQSWRADILSRSQRVAELLAEARLVAASDASILIRGDSGTGKELLGRAI 179 + PA SP R ++ S+ + ++ + A SDA++L+ G++GTGKEL+ RA+ Sbjct: 118 QGASTPAAASPATEERNQLVGESEAMRQVFKQIGRAATSDATVLVLGETGTGKELVARAL 177 Query: 180 HRASARAEQPFIAVNCGAIPEQLLESELFGHVKGAFTGAVEHREGLFQAAHGGTLFLDEI 239 HR ARA +PF+AVNC AIP +L+ESELFGHVKGAF+GA R G FQ A GGTLFLDEI Sbjct: 178 HRNGARAARPFVAVNCAAIPAELIESELFGHVKGAFSGATSPRLGRFQEADGGTLFLDEI 237 Query: 240 GDMPLPLQVKLLRVLQEKTVRQVGANQAGEVDVRIISATHRDLEAAMREGQFREDLYYRL 299 GDM L Q K+LRVLQE+ + VG NQ+ VDVR+I+ATHRDL+ + +G+FREDL+YRL Sbjct: 238 GDMELATQAKILRVLQERELTPVGGNQSVRVDVRVIAATHRDLQHEITQGRFREDLWYRL 297 Query: 300 NVVTLHLPALEERREDIALLANHFLKTIAAKYPKRLTGFAPDALEILSLAHWPGNVRQLY 359 V+T+ +PAL ER DI +A HFL+ + PKR++ P A +L WPGNVR+L Sbjct: 298 QVLTIMVPALRERPGDILTIAEHFLRQLGGDAPKRIS---PAAARLLLQHAWPGNVRELR 354 Query: 360 NVVEQVCALSTAPLIPASLVQRALRTPTLDLLR-----------YAEAKQKFERDYLIRL 408 N +E+ +S I A + + R P A A + ER + R Sbjct: 355 NTMERAAVMSHGLCIEAEDIGLSARPPAGAASAASAPAIDWDGPLAVALAEVERVMIERA 414 Query: 409 LKLTDGNVSDAARLADRNRTEFYRLLQKNG 438 L+ GN ++AAR +R + YR L++ G Sbjct: 415 LQGAAGNRAEAARRLGISRQQLYRRLEEAG 444 >gi|300312425|ref|YP_003776517.1| nitrogen assimilation transcription activator protein [Herbaspirillum seropedicae SmR1] Length = 500 Score = 300 bits (769), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 166/397 (41%), Positives = 240/397 (60%), Gaps = 26/397 (6%) Query: 6 PLMLVDDDPDLLRLLTLRLNASGYRILAVESAEAALAQLAISLPALVITDVRLPGMDGLA 65 P+ +VDDD + +L L + SA A+A L P ++++D+R+PG GL Sbjct: 3 PIWIVDDDESIRWVLEKALARENLATQSFSSARDAIAALQNGTPQVLVSDIRMPGASGLE 62 Query: 66 LFAEIRSRYPALPVILLTAHGTIPDAVDATTQGAFAYLTKPFDGHVLLDKVAQALSLAAP 125 L +++++P +PVI++TA + AV A GAF YL KPFD ++ + +AL Sbjct: 63 LLQTVKAKHPGIPVIIITAFSDLDSAVSAFQGGAFEYLAKPFDVDKAVELIRRAL----- 117 Query: 126 APLSPDQSWR-ADILSRSQRVAELLAEARLV----------AASDASILIRGDSGTGKEL 174 D+S R DI + + E+L +A + + S+ ++LI G+SG+GKEL Sbjct: 118 -----DESLRETDIEQGAAQTPEILGQAPAMQDVFRAIGRLSQSNVTVLITGESGSGKEL 172 Query: 175 LGRAIHRASARAEQPFIAVNCGAIPEQLLESELFGHVKGAFTGAVEHREGLFQAAHGGTL 234 + RA+H+ S RA QPF+A+N AIP+ LLESELFGH +GAFTGA R G F+ A GGTL Sbjct: 173 VARALHKHSPRASQPFVALNTAAIPKDLLESELFGHERGAFTGAQAMRRGRFEQAEGGTL 232 Query: 235 FLDEIGDMPLPLQVKLLRVLQEKTVRQVGANQAGEVDVRIISATHRDLEAAMREGQFRED 294 FLDEIGDMPL LQ +LLRVL + +VG +Q+ + +VR+I+ATH++LE +REG FRED Sbjct: 233 FLDEIGDMPLDLQTRLLRVLSDGHFYRVGGHQSLKANVRVIAATHQNLEQRVREGLFRED 292 Query: 295 LYYRLNVVTLHLPALEERREDIALLANHFLKTIAAKYPKRLTGFAPDALEILSLAHWPGN 354 LY+RLNV+ L LP+L ER EDI +LA +FL A + +P A++ LS +PGN Sbjct: 293 LYHRLNVIRLRLPSLRERSEDIPILARYFLAQSARQLGVEAKRLSPQAMQFLSQLEFPGN 352 Query: 355 VRQLYNVVEQVCALSTAPLI-----PASLVQRALRTP 386 VRQL N+ + ++ + P LV+ + P Sbjct: 353 VRQLENLCNWITVMAPGQTVEIKDLPQDLVEERVHAP 389 >gi|300312654|ref|YP_003776746.1| C4-dicarboxylate transport response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 445 Score = 281 bits (718), Expect = 9e-77, Method: Compositional matrix adjust. Identities = 169/447 (37%), Positives = 252/447 (56%), Gaps = 29/447 (6%) Query: 2 GKTAPLMLVDDDPDLLRLLTLRLNASGYRILAVESAEAALAQLAISLPALVITDVRLPGM 61 G A +L++D+ + R L G+ + A SAE AL + +V++DVRLPG+ Sbjct: 5 GGAASALLIEDEQTVRRATAQALELGGFAVTACGSAEEALPLITRDFAGVVVSDVRLPGL 64 Query: 62 DGLALFAEIRSRYPALPVILLTAHGTIPDAVDATTQGAFAYLTKPFDGHVLLDKV--AQA 119 GL + A + + LPVI++T HG + AV+A GA+ ++ KPF LL+ AQ Sbjct: 65 SGLDVLARVVAIDHDLPVIVVTGHGDVGMAVEAMRAGAYDFVEKPFSSDTLLEIALRAQE 124 Query: 120 LSLAAPAPLSPDQSWRAD-----ILSRSQRVAELLAEARLVAASDASILIRGDSGTGKEL 174 ++W D ++ +S + + R + +D +LI G +GTGKE+ Sbjct: 125 KRNLVLENRRLREAWAHDPELPPLVGQSPAIERVRTLIRSLGPADVDVLINGQTGTGKEV 184 Query: 175 LGRAIHRASARAEQPFIAVNCGAIPEQLLESELFGHVKGAFTGAVEHREGLFQAAHGGTL 234 + R +H AS R + PF+A+NCGA+PE + ESE+FGH GAFTGA + R G + A+GGTL Sbjct: 185 VARQLHAASGR-KGPFVALNCGALPETVFESEIFGHEPGAFTGAQKRRIGKLEYANGGTL 243 Query: 235 FLDEIGDMPLPLQVKLLRVLQEKTVRQVGANQAGEVDVRIISATHRDLEAAMREGQFRED 294 FLDEI MPL LQVKLLRVLQE+ + ++G N++ +D R+++A+ DL EGQFRED Sbjct: 244 FLDEIESMPLALQVKLLRVLQERRLERLGGNESVAIDCRVVAASKADLLKLAAEGQFRED 303 Query: 295 LYYRLNVVTLHLPALEERREDIALLANHFLKTIAAKYPKRLTGFAPDALEILSLAHWPGN 354 LYYR+ VV + LPAL +RREDIALL HF + A +Y + ++ ++ WPGN Sbjct: 304 LYYRIGVVAIDLPALNQRREDIALLLAHFCQAAAVRYRRESPAWSAAQMQQWQQRDWPGN 363 Query: 355 VRQLYNV-------VEQVCALSTAPLIPASLVQRALRTPTLDLLRYAEAKQKFERDYLIR 407 VR+L N VEQ+ A + + +P L E ++FE + Sbjct: 364 VRELRNFADRWVLGVEQMAASAVSSAVPV-------------LSSLPEQVEQFEAGLIAA 410 Query: 408 LLKLTDGNVSDAA-RLADRNRTEFYRL 433 LK ++G+V+ AA RL +T + ++ Sbjct: 411 ALKDSEGSVAVAAERLGIPKKTLYDKI 437 >gi|300312042|ref|YP_003776134.1| response regulatory protein [Herbaspirillum seropedicae SmR1] Length = 450 Score = 276 bits (707), Expect = 2e-75, Method: Compositional matrix adjust. Identities = 166/449 (36%), Positives = 248/449 (55%), Gaps = 14/449 (3%) Query: 1 MGKTAP-LMLVDDDPDLLRLLTLRLNASGYRILAVESAEAALAQLAISLPALVITDVRLP 59 M + P L++V+DDP L + L L+A Y +L E+ALA + PA+V D+ LP Sbjct: 1 MSENKPKLLIVEDDPGLQKQLRWSLDA--YEVLVAGDRESALAMVRRHEPAVVTMDLGLP 58 Query: 60 -----GMDGLALFAEIRSRYPALPVILLTAHGTIPDAVDATTQGAFAYLTKPFDGHVLLD 114 +G A ++ + P VI+LT + AV A + GA+ + KP L Sbjct: 59 PDPDGASEGFATLQQVLALAPDTKVIMLTGNQDHAHAVKAISMGAYDFHQKPCIDETLRL 118 Query: 115 KVAQALSLAA------PAPLSPDQSWRADILSRSQRVAELLAEARLVAASDASILIRGDS 168 V +A L A + + +++R + + VA S AS+++ G S Sbjct: 119 VVQRAFYLHALQRENQRMQQAGGHTALGGLITRDAGMLAVCRSIEKVAPSSASVMLLGSS 178 Query: 169 GTGKELLGRAIHRASARAEQPFIAVNCGAIPEQLLESELFGHVKGAFTGAVEHREGLFQA 228 GTGKE+L RA+H+ S R+ + F+A+NC AIPE LLESELFG+ KGAFTGA + G + Sbjct: 179 GTGKEVLARALHQLSPRSGRRFMAINCAAIPENLLESELFGYEKGAFTGAAKQTIGKVEL 238 Query: 229 AHGGTLFLDEIGDMPLPLQVKLLRVLQEKTVRQVGANQAGEVDVRIISATHRDLEAAMRE 288 AHGGT FLDE+GD+P+PLQ KLLR LQE+ + +VG + VDVR+I ATH++L+ Sbjct: 239 AHGGTFFLDEVGDLPMPLQAKLLRFLQERVIERVGGHTEIPVDVRVICATHQNLKELTAS 298 Query: 289 GQFREDLYYRLNVVTLHLPALEERREDIALLANHFLKTIAAKYPKRLTGFAPDALEILSL 348 G FREDLYYRL + + +PAL+ER D LLA HF++ AK + + DA+ + Sbjct: 299 GGFREDLYYRLCEIIIKIPALKERHGDAVLLARHFVQKFCAKEGRATLHLSQDAVAAIER 358 Query: 349 AHWPGNVRQLYNVVEQVCALSTAPLIPASLVQRALRTPTLDLLRYAEAKQKFERDYLIRL 408 WPGNVR++ N V + ++ I A + ++ + L + + + ER +++ Sbjct: 359 YEWPGNVREMENCVMRAVIMADGQQITAEDLGLSVEGREAEPLNLRQVRDEAERKAVVKA 418 Query: 409 LKLTDGNVSDAARLADRNRTEFYRLLQKN 437 L DGN+ AA L +R Y L+ ++ Sbjct: 419 LTRMDGNILKAAELLGVSRPTLYDLMSRH 447 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 0.321 0.137 0.387 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: 1,268,588 Number of extensions: 51862 Number of successful extensions: 341 Number of sequences better than 1.0e-08: 43 Number of HSP's gapped: 331 Number of HSP's successfully gapped: 43 Length of query: 460 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 372 Effective length of database: 1,203,190 Effective search space: 447586680 Effective search space used: 447586680 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: 132 (55.5 bits)