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= 0001.4620.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... 804 0.0 gi|300313916|ref|YP_003778008.1| two component response regulato... 300 1e-82 gi|300312425|ref|YP_003776517.1| nitrogen assimilation transcrip... 300 1e-82 gi|300312654|ref|YP_003776746.1| C4-dicarboxylate transport resp... 285 5e-78 gi|300312042|ref|YP_003776134.1| response regulatory protein [He... 276 3e-75 >gi|300314016|ref|YP_003778108.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 466 Score = 804 bits (2076), Expect = 0.0, Method: Compositional matrix adjust. Identities = 419/456 (91%), Positives = 439/456 (96%) Query: 1 MGKTTPLLLVDDDPDLLRLLTLRLNASGYRILAVESAEAALAQLAISLPALVITDVRLPG 60 MGKT PL+LVDDDPDLLRLLTLRLNASGYRILAVESAEAALAQLAISLPALVITDVRLPG Sbjct: 7 MGKTAPLMLVDDDPDLLRLLTLRLNASGYRILAVESAEAALAQLAISLPALVITDVRLPG 66 Query: 61 MDGLALFAEIRSRYPALPVILLTAHGTIPDAVDATTQGAFAYLTKPFDGHVLLDKVAQAL 120 MDGLALFAEIRSRYPALPVILLTAHGTIPDAVDATTQGAFAYLTKPFDGHVLLDKVAQAL Sbjct: 67 MDGLALFAEIRSRYPALPVILLTAHGTIPDAVDATTQGAFAYLTKPFDGHVLLDKVAQAL 126 Query: 121 SLSAPAQEAPDAAWRADIISRSQRIDELLAEARLVAASDASLLIRGESGTGKELLARAIH 180 SL+APA +PD +WRADI+SRSQR+ ELLAEARLVAASDAS+LIRG+SGTGKELLARAIH Sbjct: 127 SLAAPAPLSPDQSWRADILSRSQRVAELLAEARLVAASDASILIRGDSGTGKELLARAIH 186 Query: 181 RASPRADKPFIAVNCGAIPEQLLESELFGHVKGAFTGAVEHREGLFQAADGGTLFLDEIG 240 RAS RA++PFIAVNCGAIPEQLLESELFGHVKGAFTGAVEHREGLFQAA GGTLFLDEIG Sbjct: 187 RASARAEQPFIAVNCGAIPEQLLESELFGHVKGAFTGAVEHREGLFQAAHGGTLFLDEIG 246 Query: 241 DMPPALQVKLLRVLQEKTVRQVGANESGEVNVRVISATHRDLEIAMMQGQFRQDLYYRLN 300 DMP LQVKLLRVLQEKTVRQVGAN++GEV+VR+ISATHRDLE AM +GQFR+DLYYRLN Sbjct: 247 DMPLPLQVKLLRVLQEKTVRQVGANQAGEVDVRIISATHRDLEAAMREGQFREDLYYRLN 306 Query: 301 VVALNLPSLEERREDIALLANHFLKTIAAKYPKRLTGFAPDALEVLSLAHWPGNVRQLYN 360 VV L+LP+LEERREDIALLANHFLKTIAAKYPKRLTGFAPDALE+LSLAHWPGNVRQLYN Sbjct: 307 VVTLHLPALEERREDIALLANHFLKTIAAKYPKRLTGFAPDALEILSLAHWPGNVRQLYN 366 Query: 361 VVEQVCALSTAPLIPASLVQRALRVPTLDLLRYAEAKQKFERDYLVRLLKLTDGNVSDAA 420 VVEQVCALSTAPLIPASLVQRALR PTLDLLRYAEAKQKFERDYL+RLLKLTDGNVSDAA Sbjct: 367 VVEQVCALSTAPLIPASLVQRALRTPTLDLLRYAEAKQKFERDYLIRLLKLTDGNVSDAA 426 Query: 421 RLADRNRTEFYRLLQKNGLDPRRFRGGEEPVALERQ 456 RLADRNRTEFYRLLQKNGLDPRRFRGGEE V RQ Sbjct: 427 RLADRNRTEFYRLLQKNGLDPRRFRGGEEAVVAGRQ 462 >gi|300313916|ref|YP_003778008.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 448 Score = 300 bits (769), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 188/448 (41%), Positives = 263/448 (58%), Gaps = 23/448 (5%) Query: 7 LLLVDDDPDLLRLLTLRLNASGYRILAVESAEAALAQLAISLPALVITDVRLPGMDGLAL 66 +L+VDDD L ++ G+ +L S A L LA I D+R+P DGLA Sbjct: 4 ILIVDDDAAFRGSLAETVSDLGHDVLEAGSTAAGLKLLAAHAVDAAIVDLRMPDEDGLAF 63 Query: 67 FAEIRSRYPAL---PVILLTAHGTIPDAVDATTQGAFAYLTKPFDGHVLLDKVAQAL--S 121 R PA+ P I+LTA+ + + ++A GAF +LTKP L++ + +AL Sbjct: 64 L----QRAPAIAAIPCIMLTAYASGDNTIEAIRLGAFDHLTKPVPRAALVETLERALRQG 119 Query: 122 LSAPAQEAPDAAWRADIISRSQRIDELLAEARLVAASDASLLIRGESGTGKELLARAIHR 181 S PA +P R ++ S+ + ++ + A SDA++L+ GE+GTGKEL+ARA+HR Sbjct: 120 ASTPAAASPATEERNQLVGESEAMRQVFKQIGRAATSDATVLVLGETGTGKELVARALHR 179 Query: 182 ASPRADKPFIAVNCGAIPEQLLESELFGHVKGAFTGAVEHREGLFQAADGGTLFLDEIGD 241 RA +PF+AVNC AIP +L+ESELFGHVKGAF+GA R G FQ ADGGTLFLDEIGD Sbjct: 180 NGARAARPFVAVNCAAIPAELIESELFGHVKGAFSGATSPRLGRFQEADGGTLFLDEIGD 239 Query: 242 MPPALQVKLLRVLQEKTVRQVGANESGEVNVRVISATHRDLEIAMMQGQFRQDLYYRLNV 301 M A Q K+LRVLQE+ + VG N+S V+VRVI+ATHRDL+ + QG+FR+DL+YRL V Sbjct: 240 MELATQAKILRVLQERELTPVGGNQSVRVDVRVIAATHRDLQHEITQGRFREDLWYRLQV 299 Query: 302 VALNLPSLEERREDIALLANHFLKTIAAKYPKRLTGFAPDALEVLSLAHWPGNVRQLYNV 361 + + +P+L ER DI +A HFL+ + PKR++ P A +L WPGNVR+L N Sbjct: 300 LTIMVPALRERPGDILTIAEHFLRQLGGDAPKRIS---PAAARLLLQHAWPGNVRELRNT 356 Query: 362 VEQVCALSTAPLIPASLVQRALRVPTLDLLR-----------YAEAKQKFERDYLVRLLK 410 +E+ +S I A + + R P A A + ER + R L+ Sbjct: 357 MERAAVMSHGLCIEAEDIGLSARPPAGAASAASAPAIDWDGPLAVALAEVERVMIERALQ 416 Query: 411 LTDGNVSDAARLADRNRTEFYRLLQKNG 438 GN ++AAR +R + YR L++ G Sbjct: 417 GAAGNRAEAARRLGISRQQLYRRLEEAG 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 = 163/387 (42%), Positives = 240/387 (62%), Gaps = 6/387 (1%) Query: 6 PLLLVDDDPDLLRLLTLRLNASGYRILAVESAEAALAQLAISLPALVITDVRLPGMDGLA 65 P+ +VDDD + +L L + SA A+A L P ++++D+R+PG GL Sbjct: 3 PIWIVDDDESIRWVLEKALARENLATQSFSSARDAIAALQNGTPQVLVSDIRMPGASGLE 62 Query: 66 LFAEIRSRYPALPVILLTAHGTIPDAVDATTQGAFAYLTKPFDGHVLLDKVAQALSLSAP 125 L +++++P +PVI++TA + AV A GAF YL KPFD ++ + +AL S Sbjct: 63 LLQTVKAKHPGIPVIIITAFSDLDSAVSAFQGGAFEYLAKPFDVDKAVELIRRALDESLR 122 Query: 126 AQEAPD-AAWRADIISRSQRIDELLAEARLVAASDASLLIRGESGTGKELLARAIHRASP 184 + AA +I+ ++ + ++ ++ S+ ++LI GESG+GKEL+ARA+H+ SP Sbjct: 123 ETDIEQGAAQTPEILGQAPAMQDVFRAIGRLSQSNVTVLITGESGSGKELVARALHKHSP 182 Query: 185 RADKPFIAVNCGAIPEQLLESELFGHVKGAFTGAVEHREGLFQAADGGTLFLDEIGDMPP 244 RA +PF+A+N AIP+ LLESELFGH +GAFTGA R G F+ A+GGTLFLDEIGDMP Sbjct: 183 RASQPFVALNTAAIPKDLLESELFGHERGAFTGAQAMRRGRFEQAEGGTLFLDEIGDMPL 242 Query: 245 ALQVKLLRVLQEKTVRQVGANESGEVNVRVISATHRDLEIAMMQGQFRQDLYYRLNVVAL 304 LQ +LLRVL + +VG ++S + NVRVI+ATH++LE + +G FR+DLY+RLNV+ L Sbjct: 243 DLQTRLLRVLSDGHFYRVGGHQSLKANVRVIAATHQNLEQRVREGLFREDLYHRLNVIRL 302 Query: 305 NLPSLEERREDIALLANHFLKTIAAKYPKRLTGFAPDALEVLSLAHWPGNVRQLYNVVEQ 364 LPSL ER EDI +LA +FL A + +P A++ LS +PGNVRQL N+ Sbjct: 303 RLPSLRERSEDIPILARYFLAQSARQLGVEAKRLSPQAMQFLSQLEFPGNVRQLENLCNW 362 Query: 365 VCALSTAPLI-----PASLVQRALRVP 386 + ++ + P LV+ + P Sbjct: 363 ITVMAPGQTVEIKDLPQDLVEERVHAP 389 >gi|300312654|ref|YP_003776746.1| C4-dicarboxylate transport response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 445 Score = 285 bits (729), Expect = 5e-78, Method: Compositional matrix adjust. Identities = 172/456 (37%), Positives = 256/456 (56%), Gaps = 42/456 (9%) Query: 2 GKTTPLLLVDDDPDLLRLLTLRLNASGYRILAVESAEAALAQLAISLPALVITDVRLPGM 61 G LL++D+ + R L G+ + A SAE AL + +V++DVRLPG+ Sbjct: 5 GGAASALLIEDEQTVRRATAQALELGGFAVTACGSAEEALPLITRDFAGVVVSDVRLPGL 64 Query: 62 DGLALFAEIRSRYPALPVILLTAHGTIPDAVDATTQGAFAYLTKPFDGHVLLDKVAQALS 121 GL + A + + LPVI++T HG + AV+A GA+ ++ KPF LL+ Sbjct: 65 SGLDVLARVVAIDHDLPVIVVTGHGDVGMAVEAMRAGAYDFVEKPFSSDTLLE------- 117 Query: 122 LSAPAQEAPD---------AAWRAD-----IISRSQRIDELLAEARLVAASDASLLIRGE 167 ++ AQE + AW D ++ +S I+ + R + +D +LI G+ Sbjct: 118 IALRAQEKRNLVLENRRLREAWAHDPELPPLVGQSPAIERVRTLIRSLGPADVDVLINGQ 177 Query: 168 SGTGKELLARAIHRASPRADKPFIAVNCGAIPEQLLESELFGHVKGAFTGAVEHREGLFQ 227 +GTGKE++AR +H AS R PF+A+NCGA+PE + ESE+FGH GAFTGA + R G + Sbjct: 178 TGTGKEVVARQLHAASGR-KGPFVALNCGALPETVFESEIFGHEPGAFTGAQKRRIGKLE 236 Query: 228 AADGGTLFLDEIGDMPPALQVKLLRVLQEKTVRQVGANESGEVNVRVISATHRDLEIAMM 287 A+GGTLFLDEI MP ALQVKLLRVLQE+ + ++G NES ++ RV++A+ DL Sbjct: 237 YANGGTLFLDEIESMPLALQVKLLRVLQERRLERLGGNESVAIDCRVVAASKADLLKLAA 296 Query: 288 QGQFRQDLYYRLNVVALNLPSLEERREDIALLANHFLKTIAAKYPKRLTGFAPDALEVLS 347 +GQFR+DLYYR+ VVA++LP+L +RREDIALL HF + A +Y + ++ ++ Sbjct: 297 EGQFREDLYYRIGVVAIDLPALNQRREDIALLLAHFCQAAAVRYRRESPAWSAAQMQQWQ 356 Query: 348 LAHWPGNVRQLYNV-------VEQVCALSTAPLIPASLVQRALRVPTLDLLRYAEAKQKF 400 WPGNVR+L N VEQ+ A + + +P L E ++F Sbjct: 357 QRDWPGNVRELRNFADRWVLGVEQMAASAVSSAVPV-------------LSSLPEQVEQF 403 Query: 401 ERDYLVRLLKLTDGNVSDAARLADRNRTEFYRLLQK 436 E + LK ++G+V+ AA + Y ++K Sbjct: 404 EAGLIAAALKDSEGSVAVAAERLGIPKKTLYDKIRK 439 >gi|300312042|ref|YP_003776134.1| response regulatory protein [Herbaspirillum seropedicae SmR1] Length = 450 Score = 276 bits (705), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 169/449 (37%), Positives = 248/449 (55%), Gaps = 14/449 (3%) Query: 1 MGKTTP-LLLVDDDPDLLRLLTLRLNASGYRILAVESAEAALAQLAISLPALVITDVRLP 59 M + P LL+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 KVAQALSLSA------PAQEAPDAAWRADIISRSQRIDELLAEARLVAASDASLLIRGES 168 V +A L A Q+A +I+R + + VA S AS+++ G S Sbjct: 119 VVQRAFYLHALQRENQRMQQAGGHTALGGLITRDAGMLAVCRSIEKVAPSSASVMLLGSS 178 Query: 169 GTGKELLARAIHRASPRADKPFIAVNCGAIPEQLLESELFGHVKGAFTGAVEHREGLFQA 228 GTGKE+LARA+H+ SPR+ + F+A+NC AIPE LLESELFG+ KGAFTGA + G + Sbjct: 179 GTGKEVLARALHQLSPRSGRRFMAINCAAIPENLLESELFGYEKGAFTGAAKQTIGKVEL 238 Query: 229 ADGGTLFLDEIGDMPPALQVKLLRVLQEKTVRQVGANESGEVNVRVISATHRDLEIAMMQ 288 A GGT FLDE+GD+P LQ KLLR LQE+ + +VG + V+VRVI ATH++L+ Sbjct: 239 AHGGTFFLDEVGDLPMPLQAKLLRFLQERVIERVGGHTEIPVDVRVICATHQNLKELTAS 298 Query: 289 GQFRQDLYYRLNVVALNLPSLEERREDIALLANHFLKTIAAKYPKRLTGFAPDALEVLSL 348 G FR+DLYYRL + + +P+L+ER D LLA HF++ AK + + DA+ + Sbjct: 299 GGFREDLYYRLCEIIIKIPALKERHGDAVLLARHFVQKFCAKEGRATLHLSQDAVAAIER 358 Query: 349 AHWPGNVRQLYNVVEQVCALSTAPLIPASLVQRALRVPTLDLLRYAEAKQKFERDYLVRL 408 WPGNVR++ N V + ++ I A + ++ + L + + + ER +V+ 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 0.320 0.137 0.385 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: 1,367,676 Number of extensions: 58067 Number of successful extensions: 381 Number of sequences better than 1.0e-08: 48 Number of HSP's gapped: 363 Number of HSP's successfully gapped: 48 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 (21.8 bits) S2: 132 (55.5 bits)