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= 0013.0022.p (499 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312425|ref|YP_003776517.1| nitrogen assimilation transcrip... 884 0.0 gi|300313916|ref|YP_003778008.1| two component response regulato... 308 7e-85 gi|300314016|ref|YP_003778108.1| two component transcription reg... 291 9e-80 gi|300312654|ref|YP_003776746.1| C4-dicarboxylate transport resp... 277 1e-75 gi|300312042|ref|YP_003776134.1| response regulatory protein [He... 256 2e-69 >gi|300312425|ref|YP_003776517.1| nitrogen assimilation transcription activator protein [Herbaspirillum seropedicae SmR1] Length = 500 Score = 884 bits (2285), Expect = 0.0, Method: Compositional matrix adjust. Identities = 450/500 (90%), Positives = 467/500 (93%), Gaps = 1/500 (0%) Query: 1 MKPIWIVDDDESIRWVLEKALARENLATQSFSSARDAMQALESGTPQVLVSDIRMPGASG 60 MKPIWIVDDDESIRWVLEKALARENLATQSFSSARDA+ AL++GTPQVLVSDIRMPGASG Sbjct: 1 MKPIWIVDDDESIRWVLEKALARENLATQSFSSARDAIAALQNGTPQVLVSDIRMPGASG 60 Query: 61 LELLQTIKAKHPGIPVIIITAFSDLDSAVSAFQGGAFEYLAKPFDVDKAVELIRRALEES 120 LELLQT+KAKHPGIPVIIITAFSDLDSAVSAFQGGAFEYLAKPFDVDKAVELIRRAL+ES Sbjct: 61 LELLQTVKAKHPGIPVIIITAFSDLDSAVSAFQGGAFEYLAKPFDVDKAVELIRRALDES 120 Query: 121 LRETDVEQSSANAPEILGQAPAMQDVFRAIGRLSQSNVTVLITGESGSGKELVARALHKH 180 LRETD+EQ +A PEILGQAPAMQDVFRAIGRLSQSNVTVLITGESGSGKELVARALHKH Sbjct: 121 LRETDIEQGAAQTPEILGQAPAMQDVFRAIGRLSQSNVTVLITGESGSGKELVARALHKH 180 Query: 181 SPRAAQPFVALNTAAIPKDLLESELFGHERGAFTGAQAMRRGRFEQAEGGTLFLDEIGDM 240 SPRA+QPFVALNTAAIPKDLLESELFGHERGAFTGAQAMRRGRFEQAEGGTLFLDEIGDM Sbjct: 181 SPRASQPFVALNTAAIPKDLLESELFGHERGAFTGAQAMRRGRFEQAEGGTLFLDEIGDM 240 Query: 241 PLDLQTRLLRVLSDGHFYRVGGHQSLKANVRVIAATHQNLEHRVREGLFREDLYHRLNVI 300 PLDLQTRLLRVLSDGHFYRVGGHQSLKANVRVIAATHQNLE RVREGLFREDLYHRLNVI Sbjct: 241 PLDLQTRLLRVLSDGHFYRVGGHQSLKANVRVIAATHQNLEQRVREGLFREDLYHRLNVI 300 Query: 301 RLRLPSLRERSEDIPILARHFLTQSARQLGVEAKRLSPQAMQFLSQLELPGNVRQLENLC 360 RLRLPSLRERSEDIPILAR+FL QSARQLGVEAKRLSPQAMQFLSQLE PGNVRQLENLC Sbjct: 301 RLRLPSLRERSEDIPILARYFLAQSARQLGVEAKRLSPQAMQFLSQLEFPGNVRQLENLC 360 Query: 361 NWITVMAPGQTVEVKDLPQDLIEERSSNFQPTHTHTHTTSSAAPAEAHG-GAGGGASYDS 419 NWITVMAPGQTVE+KDLPQDL+EER QP T S+AA A+ A G AS + Sbjct: 361 NWITVMAPGQTVEIKDLPQDLVEERVHAPQPAQTVAAPASAAALPTAYTEPAPGVASASA 420 Query: 420 DGGAERSWISLLETEAAQMLAEERPEVMDILGRQFEATLIKIALKHTHGRKNDAAVRLGI 479 DG A SWI+LLETEAAQMLA E+PEVMDILGRQFEA LIK+ALKHTHGRKNDAAVRLGI Sbjct: 421 DGAAGASWITLLETEAAQMLASEQPEVMDILGRQFEAALIKVALKHTHGRKNDAAVRLGI 480 Query: 480 GRNTITRKIQELGIGGAEDD 499 GRNTITRKIQELGIGGAEDD Sbjct: 481 GRNTITRKIQELGIGGAEDD 500 >gi|300313916|ref|YP_003778008.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 448 Score = 308 bits (789), Expect = 7e-85, Method: Compositional matrix adjust. Identities = 170/379 (44%), Positives = 242/379 (63%), Gaps = 7/379 (1%) Query: 1 MKPIWIVDDDESIRWVLEKALARENLATQSFSSARDAMQALESGTPQVLVSDIRMPGASG 60 M I IVDDD + R L + ++ S ++ L + + D+RMP G Sbjct: 1 MARILIVDDDAAFRGSLAETVSDLGHDVLEAGSTAAGLKLLAAHAVDAAIVDLRMPDEDG 60 Query: 61 LELLQTIKAKHPGIPVIIITAFSDLDSAVSAFQGGAFEYLAKPFDVDKAVELIRRALEES 120 L LQ A IP I++TA++ D+ + A + GAF++L KP VE + RAL + Sbjct: 61 LAFLQRAPAI-AAIPCIMLTAYASGDNTIEAIRLGAFDHLTKPVPRAALVETLERALRQG 119 Query: 121 LRETDVEQSSANA-PEILGQAPAMQDVFRAIGRLSQSNVTVLITGESGSGKELVARALHK 179 + +++G++ AM+ VF+ IGR + S+ TVL+ GE+G+GKELVARALH+ Sbjct: 120 ASTPAAASPATEERNQLVGESEAMRQVFKQIGRAATSDATVLVLGETGTGKELVARALHR 179 Query: 180 HSPRAAQPFVALNTAAIPKDLLESELFGHERGAFTGAQAMRRGRFEQAEGGTLFLDEIGD 239 + RAA+PFVA+N AAIP +L+ESELFGH +GAF+GA + R GRF++A+GGTLFLDEIGD Sbjct: 180 NGARAARPFVAVNCAAIPAELIESELFGHVKGAFSGATSPRLGRFQEADGGTLFLDEIGD 239 Query: 240 MPLDLQTRLLRVLSDGHFYRVGGHQSLKANVRVIAATHQNLEHRVREGLFREDLYHRLNV 299 M L Q ++LRVL + VGG+QS++ +VRVIAATH++L+H + +G FREDL++RL V Sbjct: 240 MELATQAKILRVLQERELTPVGGNQSVRVDVRVIAATHRDLQHEITQGRFREDLWYRLQV 299 Query: 300 IRLRLPSLRERSEDIPILARHFLTQSARQLGVEA-KRLSPQAMQFLSQLELPGNVRQLEN 358 + + +P+LRER DI +A HFL RQLG +A KR+SP A + L Q PGNVR+L N Sbjct: 300 LTIMVPALRERPGDILTIAEHFL----RQLGGDAPKRISPAAARLLLQHAWPGNVRELRN 355 Query: 359 LCNWITVMAPGQTVEVKDL 377 VM+ G +E +D+ Sbjct: 356 TMERAAVMSHGLCIEAEDI 374 >gi|300314016|ref|YP_003778108.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 466 Score = 291 bits (745), Expect = 9e-80, Method: Compositional matrix adjust. Identities = 153/338 (45%), Positives = 219/338 (64%), Gaps = 1/338 (0%) Query: 30 SFSSARDAMQALESGTPQVLVSDIRMPGASGLELLQTIKAKHPGIPVIIITAFSDLDSAV 89 + SA A+ L P ++++D+R+PG GL L I++++P +PVI++TA + AV Sbjct: 39 AVESAEAALAQLAISLPALVITDVRLPGMDGLALFAEIRSRYPALPVILLTAHGTIPDAV 98 Query: 90 SAFQGGAFEYLAKPFDVDKAVELIRRALEESLRETDVEQSSANAPEILGQAPAMQDVFRA 149 A GAF YL KPFD ++ + +AL + S A +IL ++ + ++ Sbjct: 99 DATTQGAFAYLTKPFDGHVLLDKVAQALSLAAPAPLSPDQSWRA-DILSRSQRVAELLAE 157 Query: 150 IGRLSQSNVTVLITGESGSGKELVARALHKHSPRAAQPFVALNTAAIPKDLLESELFGHE 209 ++ S+ ++LI G+SG+GKEL+ARA+H+ S RA QPF+A+N AIP+ LLESELFGH Sbjct: 158 ARLVAASDASILIRGDSGTGKELLARAIHRASARAEQPFIAVNCGAIPEQLLESELFGHV 217 Query: 210 RGAFTGAQAMRRGRFEQAEGGTLFLDEIGDMPLDLQTRLLRVLSDGHFYRVGGHQSLKAN 269 +GAFTGA R G F+ A GGTLFLDEIGDMPL LQ +LLRVL + +VG +Q+ + + Sbjct: 218 KGAFTGAVEHREGLFQAAHGGTLFLDEIGDMPLPLQVKLLRVLQEKTVRQVGANQAGEVD 277 Query: 270 VRVIAATHQNLEHRVREGLFREDLYHRLNVIRLRLPSLRERSEDIPILARHFLTQSARQL 329 VR+I+ATH++LE +REG FREDLY+RLNV+ L LP+L ER EDI +LA HFL A + Sbjct: 278 VRIISATHRDLEAAMREGQFREDLYYRLNVVTLHLPALEERREDIALLANHFLKTIAAKY 337 Query: 330 GVEAKRLSPQAMQFLSQLELPGNVRQLENLCNWITVMA 367 +P A++ LS PGNVRQL N+ + ++ Sbjct: 338 PKRLTGFAPDALEILSLAHWPGNVRQLYNVVEQVCALS 375 >gi|300312654|ref|YP_003776746.1| C4-dicarboxylate transport response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 445 Score = 277 bits (709), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 153/365 (41%), Positives = 227/365 (62%), Gaps = 8/365 (2%) Query: 6 IVDDDESIRWVLEKALARENLATQSFSSARDAMQALESGTPQVLVSDIRMPGASGLELLQ 65 +++D++++R +AL A + SA +A+ + V+VSD+R+PG SGL++L Sbjct: 12 LIEDEQTVRRATAQALELGGFAVTACGSAEEALPLITRDFAGVVVSDVRLPGLSGLDVLA 71 Query: 66 TIKAKHPGIPVIIITAFSDLDSAVSAFQGGAFEYLAKPFDVDKAVELIRRALEES---LR 122 + A +PVI++T D+ AV A + GA++++ KPF D +E+ RA E+ L Sbjct: 72 RVVAIDHDLPVIVVTGHGDVGMAVEAMRAGAYDFVEKPFSSDTLLEIALRAQEKRNLVLE 131 Query: 123 ETDVEQSSANAPEI---LGQAPAMQDVFRAIGRLSQSNVTVLITGESGSGKELVARALHK 179 + ++ A+ PE+ +GQ+PA++ V I L ++V VLI G++G+GKE+VAR LH Sbjct: 132 NRRLREAWAHDPELPPLVGQSPAIERVRTLIRSLGPADVDVLINGQTGTGKEVVARQLHA 191 Query: 180 HSPRAAQPFVALNTAAIPKDLLESELFGHERGAFTGAQAMRRGRFEQAEGGTLFLDEIGD 239 S R PFVALN A+P+ + ESE+FGHE GAFTGAQ R G+ E A GGTLFLDEI Sbjct: 192 ASGRKG-PFVALNCGALPETVFESEIFGHEPGAFTGAQKRRIGKLEYANGGTLFLDEIES 250 Query: 240 MPLDLQTRLLRVLSDGHFYRVGGHQSLKANVRVIAATHQNLEHRVREGLFREDLYHRLNV 299 MPL LQ +LLRVL + R+GG++S+ + RV+AA+ +L EG FREDLY+R+ V Sbjct: 251 MPLALQVKLLRVLQERRLERLGGNESVAIDCRVVAASKADLLKLAAEGQFREDLYYRIGV 310 Query: 300 IRLRLPSLRERSEDIPILARHFLTQSARQLGVEAKRLSPQAMQFLSQLELPGNVRQLENL 359 + + LP+L +R EDI +L HF +A + E+ S MQ Q + PGNVR+L N Sbjct: 311 VAIDLPALNQRREDIALLLAHFCQAAAVRYRRESPAWSAAQMQQWQQRDWPGNVRELRNF 370 Query: 360 CN-WI 363 + W+ Sbjct: 371 ADRWV 375 >gi|300312042|ref|YP_003776134.1| response regulatory protein [Herbaspirillum seropedicae SmR1] Length = 450 Score = 256 bits (655), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 159/392 (40%), Positives = 231/392 (58%), Gaps = 23/392 (5%) Query: 2 KP-IWIVDDD----ESIRWVLEKALARENLATQSFSSARDAMQALESGTPQVLVSDIRMP 56 KP + IV+DD + +RW L+ A E L SA + + P V+ D+ +P Sbjct: 5 KPKLLIVEDDPGLQKQLRWSLD---AYEVLVAGDRESA---LAMVRRHEPAVVTMDLGLP 58 Query: 57 ----GAS-GLELLQTIKAKHPGIPVIIITAFSDLDSAVSAFQGGAFEYLAKPFDVDKAVE 111 GAS G LQ + A P VI++T D AV A GA+++ KP +D+ + Sbjct: 59 PDPDGASEGFATLQQVLALAPDTKVIMLTGNQDHAHAVKAISMGAYDFHQKPC-IDETLR 117 Query: 112 LI-RRALE-ESLRETDVEQSSANAPEILG----QAPAMQDVFRAIGRLSQSNVTVLITGE 165 L+ +RA +L+ + A LG + M V R+I +++ S+ +V++ G Sbjct: 118 LVVQRAFYLHALQRENQRMQQAGGHTALGGLITRDAGMLAVCRSIEKVAPSSASVMLLGS 177 Query: 166 SGSGKELVARALHKHSPRAAQPFVALNTAAIPKDLLESELFGHERGAFTGAQAMRRGRFE 225 SG+GKE++ARALH+ SPR+ + F+A+N AAIP++LLESELFG+E+GAFTGA G+ E Sbjct: 178 SGTGKEVLARALHQLSPRSGRRFMAINCAAIPENLLESELFGYEKGAFTGAAKQTIGKVE 237 Query: 226 QAEGGTLFLDEIGDMPLDLQTRLLRVLSDGHFYRVGGHQSLKANVRVIAATHQNLEHRVR 285 A GGT FLDE+GD+P+ LQ +LLR L + RVGGH + +VRVI ATHQNL+ Sbjct: 238 LAHGGTFFLDEVGDLPMPLQAKLLRFLQERVIERVGGHTEIPVDVRVICATHQNLKELTA 297 Query: 286 EGLFREDLYHRLNVIRLRLPSLRERSEDIPILARHFLTQSARQLGVEAKRLSPQAMQFLS 345 G FREDLY+RL I +++P+L+ER D +LARHF+ + + G LS A+ + Sbjct: 298 SGGFREDLYYRLCEIIIKIPALKERHGDAVLLARHFVQKFCAKEGRATLHLSQDAVAAIE 357 Query: 346 QLELPGNVRQLENLCNWITVMAPGQTVEVKDL 377 + E PGNVR++EN +MA GQ + +DL Sbjct: 358 RYEWPGNVREMENCVMRAVIMADGQQITAEDL 389 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 0.317 0.133 0.376 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: 1,383,042 Number of extensions: 53002 Number of successful extensions: 429 Number of sequences better than 1.0e-08: 34 Number of HSP's gapped: 425 Number of HSP's successfully gapped: 34 Length of query: 499 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 410 Effective length of database: 1,198,455 Effective search space: 491366550 Effective search space used: 491366550 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 132 (55.5 bits)