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= 0035.0017.p (450 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312042|ref|YP_003776134.1| response regulatory protein [He... 920 0.0 gi|300312654|ref|YP_003776746.1| C4-dicarboxylate transport resp... 282 4e-77 gi|300313916|ref|YP_003778008.1| two component response regulato... 271 6e-74 gi|300314016|ref|YP_003778108.1| two component transcription reg... 266 3e-72 gi|300312425|ref|YP_003776517.1| nitrogen assimilation transcrip... 258 5e-70 >gi|300312042|ref|YP_003776134.1| response regulatory protein [Herbaspirillum seropedicae SmR1] Length = 450 Score = 920 bits (2378), Expect = 0.0, Method: Compositional matrix adjust. Identities = 449/450 (99%), Positives = 450/450 (100%) Query: 1 VSENKPKLLIVEDDPGLQKQLRWSLDAYEVLVAGDRESALAMVRRHEPAVVTMDLGLPPD 60 +SENKPKLLIVEDDPGLQKQLRWSLDAYEVLVAGDRESALAMVRRHEPAVVTMDLGLPPD Sbjct: 1 MSENKPKLLIVEDDPGLQKQLRWSLDAYEVLVAGDRESALAMVRRHEPAVVTMDLGLPPD 60 Query: 61 PDGASEGFATLQQVLALAPDTKVIMLTGNQDHAHAVKAISMGAYDFHQKPCIDETLRLVV 120 PDGASEGFATLQQVLALAPDTKVIMLTGNQDHAHAVKAISMGAYDFHQKPCIDETLRLVV Sbjct: 61 PDGASEGFATLQQVLALAPDTKVIMLTGNQDHAHAVKAISMGAYDFHQKPCIDETLRLVV 120 Query: 121 QRAFYLHALQRENQRMQQAGGHTALGGLITRDAGMLAVCRSIEKVAPSSASVMLLGSSGT 180 QRAFYLHALQRENQRMQQAGGHTALGGLITRDAGMLAVCRSIEKVAPSSASVMLLGSSGT Sbjct: 121 QRAFYLHALQRENQRMQQAGGHTALGGLITRDAGMLAVCRSIEKVAPSSASVMLLGSSGT 180 Query: 181 GKEVLARALHQLSPRSGRRFMAINCAAIPENLLESELFGYEKGAFTGAAKQTIGKVELAH 240 GKEVLARALHQLSPRSGRRFMAINCAAIPENLLESELFGYEKGAFTGAAKQTIGKVELAH Sbjct: 181 GKEVLARALHQLSPRSGRRFMAINCAAIPENLLESELFGYEKGAFTGAAKQTIGKVELAH 240 Query: 241 GGTFFLDEVGDLPMPLQAKLLRFLQERVIERVGGHTEIPVDVRVICATHQNLKELTASGG 300 GGTFFLDEVGDLPMPLQAKLLRFLQERVIERVGGHTEIPVDVRVICATHQNLKELTASGG Sbjct: 241 GGTFFLDEVGDLPMPLQAKLLRFLQERVIERVGGHTEIPVDVRVICATHQNLKELTASGG 300 Query: 301 FREDLYYRLCEIIIKIPALKERHGDAVLLARHFVQKFCAKEGRATLHLSQDAVAAIERYE 360 FREDLYYRLCEIIIKIPALKERHGDAVLLARHFVQKFCAKEGRATLHLSQDAVAAIERYE Sbjct: 301 FREDLYYRLCEIIIKIPALKERHGDAVLLARHFVQKFCAKEGRATLHLSQDAVAAIERYE 360 Query: 361 WPGNVREMENCVMRAVIMADGQQITAEDLGLSVEGREAEPLNLRQVRDEAERKAVVKALT 420 WPGNVREMENCVMRAVIMADGQQITAEDLGLSVEGREAEPLNLRQVRDEAERKAVVKALT Sbjct: 361 WPGNVREMENCVMRAVIMADGQQITAEDLGLSVEGREAEPLNLRQVRDEAERKAVVKALT 420 Query: 421 RMDGNILKAAELLGVSRPTLYDLMSRHEIK 450 RMDGNILKAAELLGVSRPTLYDLMSRHEIK Sbjct: 421 RMDGNILKAAELLGVSRPTLYDLMSRHEIK 450 >gi|300312654|ref|YP_003776746.1| C4-dicarboxylate transport response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 445 Score = 282 bits (722), Expect = 4e-77, Method: Compositional matrix adjust. Identities = 171/444 (38%), Positives = 257/444 (57%), Gaps = 15/444 (3%) Query: 9 LIVEDDPGLQKQLRWSLD--AYEVLVAGDRESALAMVRRHEPAVVTMDLGLPPDPDGASE 66 L++ED+ +++ +L+ + V G E AL ++ R VV D+ LP G S Sbjct: 11 LLIEDEQTVRRATAQALELGGFAVTACGSAEEALPLITRDFAGVVVSDVRLP----GLS- 65 Query: 67 GFATLQQVLALAPDTKVIMLTGNQDHAHAVKAISMGAYDFHQKPCIDETLRLVVQRAFYL 126 G L +V+A+ D VI++TG+ D AV+A+ GAYDF +KP +TL + RA Sbjct: 66 GLDVLARVVAIDHDLPVIVVTGHGDVGMAVEAMRAGAYDFVEKPFSSDTLLEIALRAQEK 125 Query: 127 HALQRENQRMQQAGGHTA-LGGLITRDAGMLAVCRSIEKVAPSSASVMLLGSSGTGKEVL 185 L EN+R+++A H L L+ + + V I + P+ V++ G +GTGKEV+ Sbjct: 126 RNLVLENRRLREAWAHDPELPPLVGQSPAIERVRTLIRSLGPADVDVLINGQTGTGKEVV 185 Query: 186 ARALHQLSPRSGRRFMAINCAAIPENLLESELFGYEKGAFTGAAKQTIGKVELAHGGTFF 245 AR LH S R G F+A+NC A+PE + ESE+FG+E GAFTGA K+ IGK+E A+GGT F Sbjct: 186 ARQLHAASGRKGP-FVALNCGALPETVFESEIFGHEPGAFTGAQKRRIGKLEYANGGTLF 244 Query: 246 LDEVGDLPMPLQAKLLRFLQERVIERVGGHTEIPVDVRVICATHQNLKELTASGGFREDL 305 LDE+ +P+ LQ KLLR LQER +ER+GG+ + +D RV+ A+ +L +L A G FREDL Sbjct: 245 LDEIESMPLALQVKLLRVLQERRLERLGGNESVAIDCRVVAASKADLLKLAAEGQFREDL 304 Query: 306 YYRLCEIIIKIPALKERHGDAVLLARHFVQKFCAKEGRATLHLSQDAVAAIERYEWPGNV 365 YYR+ + I +PAL +R D LL HF Q + R + S + ++ +WPGNV Sbjct: 305 YYRIGVVAIDLPALNQRREDIALLLAHFCQAAAVRYRRESPAWSAAQMQQWQQRDWPGNV 364 Query: 366 REMENCVMRAVIMADGQQITAEDLGLSVEGREAEPLNLRQVRDEAERKAVVKALTRMDGN 425 RE+ N R V+ +Q+ A + +V + P + Q E + AL +G+ Sbjct: 365 RELRNFADRWVLGV--EQMAASAVSSAVPVLSSLPEQVEQF----EAGLIAAALKDSEGS 418 Query: 426 ILKAAELLGVSRPTLYDLMSRHEI 449 + AAE LG+ + TLYD + ++++ Sbjct: 419 VAVAAERLGIPKKTLYDKIRKYQL 442 >gi|300313916|ref|YP_003778008.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 448 Score = 271 bits (694), Expect = 6e-74, Method: Compositional matrix adjust. Identities = 172/450 (38%), Positives = 250/450 (55%), Gaps = 30/450 (6%) Query: 7 KLLIVEDDPGLQKQLRWSLD--AYEVLVAGDRESALAMVRRHEPAVVTMDLGLPPDPDGA 64 ++LIV+DD + L ++ ++VL AG + L ++ H +DL +P + Sbjct: 3 RILIVDDDAAFRGSLAETVSDLGHDVLEAGSTAAGLKLLAAHAVDAAIVDLRMPDE---- 58 Query: 65 SEGFATLQQVLALAPDTKVIMLTGNQDHAHAVKAISMGAYDFHQKPCIDETLRLVVQRAF 124 +G A LQ+ A+A IMLT + ++AI +GA+D KP L ++RA Sbjct: 59 -DGLAFLQRAPAIAA-IPCIMLTAYASGDNTIEAIRLGAFDHLTKPVPRAALVETLERAL 116 Query: 125 YLHALQRENQRMQQAGGHTALGGLITRDAGMLAVCRSIEKVAPSSASVMLLGSSGTGKEV 184 Q + + L+ M V + I + A S A+V++LG +GTGKE+ Sbjct: 117 R----QGASTPAAASPATEERNQLVGESEAMRQVFKQIGRAATSDATVLVLGETGTGKEL 172 Query: 185 LARALHQLSPRSGRRFMAINCAAIPENLLESELFGYEKGAFTGAAKQTIGKVELAHGGTF 244 +ARALH+ R+ R F+A+NCAAIP L+ESELFG+ KGAF+GA +G+ + A GGT Sbjct: 173 VARALHRNGARAARPFVAVNCAAIPAELIESELFGHVKGAFSGATSPRLGRFQEADGGTL 232 Query: 245 FLDEVGDLPMPLQAKLLRFLQERVIERVGGHTEIPVDVRVICATHQNLKELTASGGFRED 304 FLDE+GD+ + QAK+LR LQER + VGG+ + VDVRVI ATH++L+ G FRED Sbjct: 233 FLDEIGDMELATQAKILRVLQERELTPVGGNQSVRVDVRVIAATHRDLQHEITQGRFRED 292 Query: 305 LYYRLCEIIIKIPALKERHGDAVLLARHFVQKFCAKEGRATLHLSQDAVAAIERYEWPGN 364 L+YRL + I +PAL+ER GD + +A HF+++ G A +S A + ++ WPGN Sbjct: 293 LWYRLQVLTIMVPALRERPGDILTIAEHFLRQLG---GDAPKRISPAAARLLLQHAWPGN 349 Query: 365 VREMENCVMRAVIMADGQQITAEDLGLSVEGREAE-------------PLNLRQVRDEAE 411 VRE+ N + RA +M+ G I AED+GLS PL + E E Sbjct: 350 VRELRNTMERAAVMSHGLCIEAEDIGLSARPPAGAASAASAPAIDWDGPLAVALA--EVE 407 Query: 412 RKAVVKALTRMDGNILKAAELLGVSRPTLY 441 R + +AL GN +AA LG+SR LY Sbjct: 408 RVMIERALQGAAGNRAEAARRLGISRQQLY 437 >gi|300314016|ref|YP_003778108.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 466 Score = 266 bits (679), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 156/420 (37%), Positives = 232/420 (55%), Gaps = 11/420 (2%) Query: 28 YEVLVAGDRESALAMVRRHEPAVVTMDLGLPPDPDGASEGFATLQQVLALAPDTKVIMLT 87 Y +L E+ALA + PA+V D+ LP +G A ++ + P VI+LT Sbjct: 35 YRILAVESAEAALAQLAISLPALVITDVRLP-----GMDGLALFAEIRSRYPALPVILLT 89 Query: 88 GNQDHAHAVKAISMGAYDFHQKPCIDETLRLVVQRAFYLHALQRENQRMQQAGGHTALGG 147 + AV A + GA+ + KP L V +A L A + + Sbjct: 90 AHGTIPDAVDATTQGAFAYLTKPFDGHVLLDKVAQALSLAA------PAPLSPDQSWRAD 143 Query: 148 LITRDAGMLAVCRSIEKVAPSSASVMLLGSSGTGKEVLARALHQLSPRSGRRFMAINCAA 207 +++R + + VA S AS+++ G SGTGKE+LARA+H+ S R+ + F+A+NC A Sbjct: 144 ILSRSQRVAELLAEARLVAASDASILIRGDSGTGKELLARAIHRASARAEQPFIAVNCGA 203 Query: 208 IPENLLESELFGYEKGAFTGAAKQTIGKVELAHGGTFFLDEVGDLPMPLQAKLLRFLQER 267 IPE LLESELFG+ KGAFTGA + G + AHGGT FLDE+GD+P+PLQ KLLR LQE+ Sbjct: 204 IPEQLLESELFGHVKGAFTGAVEHREGLFQAAHGGTLFLDEIGDMPLPLQVKLLRVLQEK 263 Query: 268 VIERVGGHTEIPVDVRVICATHQNLKELTASGGFREDLYYRLCEIIIKIPALKERHGDAV 327 + +VG + VDVR+I ATH++L+ G FREDLYYRL + + +PAL+ER D Sbjct: 264 TVRQVGANQAGEVDVRIISATHRDLEAAMREGQFREDLYYRLNVVTLHLPALEERREDIA 323 Query: 328 LLARHFVQKFCAKEGRATLHLSQDAVAAIERYEWPGNVREMENCVMRAVIMADGQQITAE 387 LLA HF++ AK + + DA+ + WPGNVR++ N V + ++ I A Sbjct: 324 LLANHFLKTIAAKYPKRLTGFAPDALEILSLAHWPGNVRQLYNVVEQVCALSTAPLIPAS 383 Query: 388 DLGLSVEGREAEPLNLRQVRDEAERKAVVKALTRMDGNILKAAELLGVSRPTLYDLMSRH 447 + ++ + L + + + ER +++ L DGN+ AA L +R Y L+ ++ Sbjct: 384 LVQRALRTPTLDLLRYAEAKQKFERDYLIRLLKLTDGNVSDAARLADRNRTEFYRLLQKN 443 >gi|300312425|ref|YP_003776517.1| nitrogen assimilation transcription activator protein [Herbaspirillum seropedicae SmR1] Length = 500 Score = 258 bits (660), Expect = 5e-70, Method: Compositional matrix adjust. Identities = 161/392 (41%), Positives = 237/392 (60%), Gaps = 23/392 (5%) Query: 5 KPKLLIVEDDPGLQKQLRWSLD---AYEVLVAGDRESA---LAMVRRHEPAVVTMDLGLP 58 KP + IV+DD + +RW L+ A E L SA +A ++ P V+ D+ +P Sbjct: 2 KP-IWIVDDD----ESIRWVLEKALARENLATQSFSSARDAIAALQNGTPQVLVSDIRMP 56 Query: 59 PDPDGASEGFATLQQVLALAPDTKVIMLTGNQDHAHAVKAISMGAYDFHQKPC-IDETLR 117 GAS G LQ V A P VI++T D AV A GA+++ KP +D+ + Sbjct: 57 ----GAS-GLELLQTVKAKHPGIPVIIITAFSDLDSAVSAFQGGAFEYLAKPFDVDKAVE 111 Query: 118 LVVQRAFYLHALQRENQRMQQAGGHTALGGLITRDAGMLAVCRSIEKVAPSSASVMLLGS 177 L+ +RA L RE ++Q T ++ + M V R+I +++ S+ +V++ G Sbjct: 112 LI-RRA--LDESLRETD-IEQGAAQTP--EILGQAPAMQDVFRAIGRLSQSNVTVLITGE 165 Query: 178 SGTGKEVLARALHQLSPRSGRRFMAINCAAIPENLLESELFGYEKGAFTGAAKQTIGKVE 237 SG+GKE++ARALH+ SPR+ + F+A+N AAIP++LLESELFG+E+GAFTGA G+ E Sbjct: 166 SGSGKELVARALHKHSPRASQPFVALNTAAIPKDLLESELFGHERGAFTGAQAMRRGRFE 225 Query: 238 LAHGGTFFLDEVGDLPMPLQAKLLRFLQERVIERVGGHTEIPVDVRVICATHQNLKELTA 297 A GGT FLDE+GD+P+ LQ +LLR L + RVGGH + +VRVI ATHQNL++ Sbjct: 226 QAEGGTLFLDEIGDMPLDLQTRLLRVLSDGHFYRVGGHQSLKANVRVIAATHQNLEQRVR 285 Query: 298 SGGFREDLYYRLCEIIIKIPALKERHGDAVLLARHFVQKFCAKEGRATLHLSQDAVAAIE 357 G FREDLY+RL I +++P+L+ER D +LAR+F+ + + G LS A+ + Sbjct: 286 EGLFREDLYHRLNVIRLRLPSLRERSEDIPILARYFLAQSARQLGVEAKRLSPQAMQFLS 345 Query: 358 RYEWPGNVREMENCVMRAVIMADGQQITAEDL 389 + E+PGNVR++EN +MA GQ + +DL Sbjct: 346 QLEFPGNVRQLENLCNWITVMAPGQTVEIKDL 377 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 0.390 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: 1,439,233 Number of extensions: 61470 Number of successful extensions: 386 Number of sequences better than 1.0e-08: 13 Number of HSP's gapped: 369 Number of HSP's successfully gapped: 13 Length of query: 450 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 362 Effective length of database: 1,203,190 Effective search space: 435554780 Effective search space used: 435554780 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)