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= 0015.0153.p (443 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312654|ref|YP_003776746.1| C4-dicarboxylate transport resp... 799 0.0 gi|300312425|ref|YP_003776517.1| nitrogen assimilation transcrip... 286 3e-78 gi|300312042|ref|YP_003776134.1| response regulatory protein [He... 284 1e-77 gi|300314016|ref|YP_003778108.1| two component transcription reg... 278 5e-76 gi|300313916|ref|YP_003778008.1| two component response regulato... 244 1e-65 >gi|300312654|ref|YP_003776746.1| C4-dicarboxylate transport response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 445 Score = 799 bits (2064), Expect = 0.0, Method: Compositional matrix adjust. Identities = 402/445 (90%), Positives = 415/445 (93%), Gaps = 2/445 (0%) Query: 1 MDNPAAAPSALLIEDEQAVRRATAQALELEGFTVTACASAEEALPLLTRDFPGVLVTDVR 60 MD P A SALLIEDEQ VRRATAQALEL GF VTAC SAEEALPL+TRDF GV+V+DVR Sbjct: 1 MDKPGGAASALLIEDEQTVRRATAQALELGGFAVTACGSAEEALPLITRDFAGVVVSDVR 60 Query: 61 LPGWSGLQVLAHVMHIDPDLPVIVVTGHGDVSMAVEAMRAGAYDFVEKPFGSDSLLEIAL 120 LPG SGL VLA V+ ID DLPVIVVTGHGDV MAVEAMRAGAYDFVEKPF SD+LLEIAL Sbjct: 61 LPGLSGLDVLARVVAIDHDLPVIVVTGHGDVGMAVEAMRAGAYDFVEKPFSSDTLLEIAL 120 Query: 121 RAQEKRSLVLENRRLREAWAHDPELPPLVGQSPAIERVRTLIRSLGPADVDVLINGQTGS 180 RAQEKR+LVLENRRLREAWAHDPELPPLVGQSPAIERVRTLIRSLGPADVDVLINGQTG+ Sbjct: 121 RAQEKRNLVLENRRLREAWAHDPELPPLVGQSPAIERVRTLIRSLGPADVDVLINGQTGT 180 Query: 181 GKEVVARQLHAASGRKGPFVALNCGALPETVFESEIFGHEAGAFTGAQKRRIGKLEYANG 240 GKEVVARQLHAASGRKGPFVALNCGALPETVFESEIFGHE GAFTGAQKRRIGKLEYANG Sbjct: 181 GKEVVARQLHAASGRKGPFVALNCGALPETVFESEIFGHEPGAFTGAQKRRIGKLEYANG 240 Query: 241 GTLFLDEIESMPLALQVKLLRVLQERRLERLGGNESVAIDCRVVAASKADLLKLSAEGQF 300 GTLFLDEIESMPLALQVKLLRVLQERRLERLGGNESVAIDCRVVAASKADLLKL+AEGQF Sbjct: 241 GTLFLDEIESMPLALQVKLLRVLQERRLERLGGNESVAIDCRVVAASKADLLKLAAEGQF 300 Query: 301 REDLYYRIGVVSIDLPALNQRSSDIPLLLAHFCQAAAVRYRREVPPWTAAQMQQWQQRDW 360 REDLYYRIGVV+IDLPALNQR DI LLLAHFCQAAAVRYRRE P W+AAQMQQWQQRDW Sbjct: 301 REDLYYRIGVVAIDLPALNQRREDIALLLAHFCQAAAVRYRRESPAWSAAQMQQWQQRDW 360 Query: 361 PGNVRELRNFADRWVLGVEQIATAGVLPS-PAL-SLPEQVEQFEAGLIAAALKDSEGSVA 418 PGNVRELRNFADRWVLGVEQ+A + V + P L SLPEQVEQFEAGLIAAALKDSEGSVA Sbjct: 361 PGNVRELRNFADRWVLGVEQMAASAVSSAVPVLSSLPEQVEQFEAGLIAAALKDSEGSVA 420 Query: 419 QAAERLGIPKKTLYDKIRKYQLAGS 443 AAERLGIPKKTLYDKIRKYQLAGS Sbjct: 421 VAAERLGIPKKTLYDKIRKYQLAGS 445 >gi|300312425|ref|YP_003776517.1| nitrogen assimilation transcription activator protein [Herbaspirillum seropedicae SmR1] Length = 500 Score = 286 bits (731), Expect = 3e-78, Method: Compositional matrix adjust. Identities = 155/365 (42%), Positives = 229/365 (62%), Gaps = 8/365 (2%) Query: 12 LIEDEQAVRRATAQALELEGFTVTACASAEEALPLLTRDFPGVLVTDVRLPGWSGLQVLA 71 +++D++++R +AL E + +SA +A+ L P VLV+D+R+PG SGL++L Sbjct: 6 IVDDDESIRWVLEKALARENLATQSFSSARDAIAALQNGTPQVLVSDIRMPGASGLELLQ 65 Query: 72 HVMHIDPDLPVIVVTGHGDVSMAVEAMRAGAYDFVEKPFGSDSLLEIALRAQEKRSLVLE 131 V P +PVI++T D+ AV A + GA++++ KPF D +E+ RA ++ L Sbjct: 66 TVKAKHPGIPVIIITAFSDLDSAVSAFQGGAFEYLAKPFDVDKAVELIRRALDES---LR 122 Query: 132 NRRLREAWAHDPELPPLVGQSPAIERVRTLIRSLGPADVDVLINGQTGSGKEVVARQLHA 191 + + A PE+ +GQ+PA++ V I L ++V VLI G++GSGKE+VAR LH Sbjct: 123 ETDIEQGAAQTPEI---LGQAPAMQDVFRAIGRLSQSNVTVLITGESGSGKELVARALHK 179 Query: 192 ASGRKG-PFVALNCGALPETVFESEIFGHEAGAFTGAQKRRIGKLEYANGGTLFLDEIES 250 S R PFVALN A+P+ + ESE+FGHE GAFTGAQ R G+ E A GGTLFLDEI Sbjct: 180 HSPRASQPFVALNTAAIPKDLLESELFGHERGAFTGAQAMRRGRFEQAEGGTLFLDEIGD 239 Query: 251 MPLALQVKLLRVLQERRLERLGGNESVAIDCRVVAASKADLLKLSAEGQFREDLYYRIGV 310 MPL LQ +LLRVL + R+GG++S+ + RV+AA+ +L + EG FREDLY+R+ V Sbjct: 240 MPLDLQTRLLRVLSDGHFYRVGGHQSLKANVRVIAATHQNLEQRVREGLFREDLYHRLNV 299 Query: 311 VSIDLPALNQRSSDIPLLLAHFCQAAAVRYRREVPPWTAAQMQQWQQRDWPGNVRELRNF 370 + + LP+L +RS DIP+L +F +A + E + MQ Q ++PGNVR+L N Sbjct: 300 IRLRLPSLRERSEDIPILARYFLAQSARQLGVEAKRLSPQAMQFLSQLEFPGNVRQLENL 359 Query: 371 ADRWV 375 + W+ Sbjct: 360 CN-WI 363 >gi|300312042|ref|YP_003776134.1| response regulatory protein [Herbaspirillum seropedicae SmR1] Length = 450 Score = 284 bits (726), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 167/447 (37%), Positives = 259/447 (57%), Gaps = 17/447 (3%) Query: 8 PSALLIEDEQAVRRATAQALELEGFTVTACASAEEALPLLTRDFPGVLVTDVRLP----- 62 P L++ED+ +++ +L+ + V E AL ++ R P V+ D+ LP Sbjct: 6 PKLLIVEDDPGLQKQLRWSLD--AYEVLVAGDRESALAMVRRHEPAVVTMDLGLPPDPDG 63 Query: 63 GWSGLQVLAHVMHIDPDLPVIVVTGHGDVSMAVEAMRAGAYDFVEKPFGSDSLLEIALRA 122 G L V+ + PD VI++TG+ D + AV+A+ GAYDF +KP ++L + RA Sbjct: 64 ASEGFATLQQVLALAPDTKVIMLTGNQDHAHAVKAISMGAYDFHQKPCIDETLRLVVQRA 123 Query: 123 QEKRSLVLENRRLREAWAHDPELPPLVGQSPAIERVRTLIRSLGPADVDVLINGQTGSGK 182 +L EN+R+++A H L L+ + + V I + P+ V++ G +G+GK Sbjct: 124 FYLHALQRENQRMQQAGGHTA-LGGLITRDAGMLAVCRSIEKVAPSSASVMLLGSSGTGK 182 Query: 183 EVVARQLHAASGRKGP-FVALNCGALPETVFESEIFGHEAGAFTGAQKRRIGKLEYANGG 241 EV+AR LH S R G F+A+NC A+PE + ESE+FG+E GAFTGA K+ IGK+E A+GG Sbjct: 183 EVLARALHQLSPRSGRRFMAINCAAIPENLLESELFGYEKGAFTGAAKQTIGKVELAHGG 242 Query: 242 TLFLDEIESMPLALQVKLLRVLQERRLERLGGNESVAIDCRVVAASKADLLKLSAEGQFR 301 T FLDE+ +P+ LQ KLLR LQER +ER+GG+ + +D RV+ A+ +L +L+A G FR Sbjct: 243 TFFLDEVGDLPMPLQAKLLRFLQERVIERVGGHTEIPVDVRVICATHQNLKELTASGGFR 302 Query: 302 EDLYYRIGVVSIDLPALNQRSSDIPLLLAHFCQAAAVRYRREVPPWTAAQMQQWQQRDWP 361 EDLYYR+ + I +PAL +R D LL HF Q + R + + ++ +WP Sbjct: 303 EDLYYRLCEIIIKIPALKERHGDAVLLARHFVQKFCAKEGRATLHLSQDAVAAIERYEWP 362 Query: 362 GNVRELRNFADRWVLGVE-QIATAGVL-------PSPALSLPEQVEQFEAGLIAAALKDS 413 GNVRE+ N R V+ + Q TA L + L+L + ++ E + AL Sbjct: 363 GNVREMENCVMRAVIMADGQQITAEDLGLSVEGREAEPLNLRQVRDEAERKAVVKALTRM 422 Query: 414 EGSVAQAAERLGIPKKTLYDKIRKYQL 440 +G++ +AAE LG+ + TLYD + ++++ Sbjct: 423 DGNILKAAELLGVSRPTLYDLMSRHEI 449 >gi|300314016|ref|YP_003778108.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 466 Score = 278 bits (712), Expect = 5e-76, Method: Compositional matrix adjust. Identities = 164/423 (38%), Positives = 243/423 (57%), Gaps = 24/423 (5%) Query: 31 GFTVTACASAEEALPLLTRDFPGVLVTDVRLPGWSGLQVLAHVMHIDPDLPVIVVTGHGD 90 G+ + A SAE AL L P +++TDVRLPG GL + A + P LPVI++T HG Sbjct: 34 GYRILAVESAEAALAQLAISLPALVITDVRLPGMDGLALFAEIRSRYPALPVILLTAHGT 93 Query: 91 VSMAVEAMRAGAYDFVEKPFGSDSLLEIALRAQEKRSLVLENRRLREAWAHDPELPPLVG 150 + AV+A GA+ ++ KPF LL+ AQ ++W D ++ Sbjct: 94 IPDAVDATTQGAFAYLTKPFDGHVLLDKV--AQALSLAAPAPLSPDQSWRAD-----ILS 146 Query: 151 QSPAIERVRTLIRSLGPADVDVLINGQTGSGKEVVARQLHAASGR-KGPFVALNCGALPE 209 +S + + R + +D +LI G +G+GKE++AR +H AS R + PF+A+NCGA+PE Sbjct: 147 RSQRVAELLAEARLVAASDASILIRGDSGTGKELLARAIHRASARAEQPFIAVNCGAIPE 206 Query: 210 TVFESEIFGHEAGAFTGAQKRRIGKLEYANGGTLFLDEIESMPLALQVKLLRVLQERRLE 269 + ESE+FGH GAFTGA + R G + A+GGTLFLDEI MPL LQVKLLRVLQE+ + Sbjct: 207 QLLESELFGHVKGAFTGAVEHREGLFQAAHGGTLFLDEIGDMPLPLQVKLLRVLQEKTVR 266 Query: 270 RLGGNESVAIDCRVVAASKADLLKLSAEGQFREDLYYRIGVVSIDLPALNQRSSDIPLLL 329 ++G N++ +D R+++A+ DL EGQFREDLYYR+ VV++ LPAL +R DI LL Sbjct: 267 QVGANQAGEVDVRIISATHRDLEAAMREGQFREDLYYRLNVVTLHLPALEERREDIALLA 326 Query: 330 AHFCQAAAVRYRREVPPWTAAQMQQWQQRDWPGNVRELRNFADRWVLGVEQIATAGVLP- 388 HF + A +Y + + + ++ WPGNVR+L N ++ V ++TA ++P Sbjct: 327 NHFLKTIAAKYPKRLTGFAPDALEILSLAHWPGNVRQLYNVVEQ----VCALSTAPLIPA 382 Query: 389 --------SPALSL---PEQVEQFEAGLIAAALKDSEGSVAQAAERLGIPKKTLYDKIRK 437 +P L L E ++FE + LK ++G+V+ AA + Y ++K Sbjct: 383 SLVQRALRTPTLDLLRYAEAKQKFERDYLIRLLKLTDGNVSDAARLADRNRTEFYRLLQK 442 Query: 438 YQL 440 L Sbjct: 443 NGL 445 >gi|300313916|ref|YP_003778008.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 448 Score = 244 bits (622), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 165/445 (37%), Positives = 238/445 (53%), Gaps = 29/445 (6%) Query: 11 LLIEDEQAVRRATAQALELEGFTVTACASAEEALPLLTRDFPGVLVTDVRLPGWSGLQVL 70 L+++D+ A R + A+ + G V S L LL + D+R+P GL L Sbjct: 5 LIVDDDAAFRGSLAETVSDLGHDVLEAGSTAAGLKLLAAHAVDAAIVDLRMPDEDGLAFL 64 Query: 71 AHVMHIDPDLPVIVVTGHGDVSMAVEAMRAGAYDFVEKPFGSDSLLEIALRAQEKRSLVL 130 I +P I++T + +EA+R GA+D + KP +L+E +R+L Sbjct: 65 QRAPAIAA-IPCIMLTAYASGDNTIEAIRLGAFDHLTKPVPRAALVETL-----ERALRQ 118 Query: 131 ENRRLREAWAHDPELPPLVGQSPAIERVRTLIRSLGPADVDVLINGQTGSGKEVVARQLH 190 A E LVG+S A+ +V I +D VL+ G+TG+GKE+VAR LH Sbjct: 119 GASTPAAASPATEERNQLVGESEAMRQVFKQIGRAATSDATVLVLGETGTGKELVARALH 178 Query: 191 AASGRKG-PFVALNCGALPETVFESEIFGHEAGAFTGAQKRRIGKLEYANGGTLFLDEIE 249 R PFVA+NC A+P + ESE+FGH GAF+GA R+G+ + A+GGTLFLDEI Sbjct: 179 RNGARAARPFVAVNCAAIPAELIESELFGHVKGAFSGATSPRLGRFQEADGGTLFLDEIG 238 Query: 250 SMPLALQVKLLRVLQERRLERLGGNESVAIDCRVVAASKADLLKLSAEGQFREDLYYRIG 309 M LA Q K+LRVLQER L +GGN+SV +D RV+AA+ DL +G+FREDL+YR+ Sbjct: 239 DMELATQAKILRVLQERELTPVGGNQSVRVDVRVIAATHRDLQHEITQGRFREDLWYRLQ 298 Query: 310 VVSIDLPALNQRSSDIPLLLAHFCQAAAVRYRREVPPWTAAQMQQWQQRDWPGNVRELRN 369 V++I +PAL +R DI + HF + + + P A + Q WPGNVRELRN Sbjct: 299 VLTIMVPALRERPGDILTIAEHFLRQLGGDAPKRISPAAARLLLQHA---WPGNVRELRN 355 Query: 370 FADR-------WVLGVEQIATAGVLPSPALS------------LPEQVEQFEAGLIAAAL 410 +R + E I + P+ A S L + + E +I AL Sbjct: 356 TMERAAVMSHGLCIEAEDIGLSARPPAGAASAASAPAIDWDGPLAVALAEVERVMIERAL 415 Query: 411 KDSEGSVAQAAERLGIPKKTLYDKI 435 + + G+ A+AA RLGI ++ LY ++ Sbjct: 416 QGAAGNRAEAARRLGISRQQLYRRL 440 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 0.319 0.135 0.391 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: 1,392,387 Number of extensions: 60805 Number of successful extensions: 404 Number of sequences better than 1.0e-08: 23 Number of HSP's gapped: 399 Number of HSP's successfully gapped: 23 Length of query: 443 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 355 Effective length of database: 1,203,190 Effective search space: 427132450 Effective search space used: 427132450 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 (21.7 bits) S2: 132 (55.5 bits)