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= 0004.0012.p (451 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312689|ref|YP_003776781.1| transmembrane sensor kinase tra... 331 9e-92 gi|300313819|ref|YP_003777911.1| two component sensor histidine ... 270 2e-73 gi|300314014|ref|YP_003778106.1| two component sensor histidine ... 209 3e-55 gi|300312679|ref|YP_003776771.1| periplasmic sensor signal trans... 191 8e-50 gi|300309980|ref|YP_003774072.1| two component transmembrane sen... 187 2e-48 >gi|300312689|ref|YP_003776781.1| transmembrane sensor kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 459 Score = 331 bits (848), Expect = 9e-92, Method: Compositional matrix adjust. Identities = 186/447 (41%), Positives = 266/447 (59%), Gaps = 2/447 (0%) Query: 5 VPLAVFVAFNSWVAYKNAIEMATVVQDRMLLGAARIIAEQIRYDDDIFEVSVPPSALELF 64 +P+AV+V ++ AY NA+ AT+VQDR LL +AR+IA Q+ ++D VSVPP+ALELF Sbjct: 15 IPMAVYVGLSTSDAYDNAVSSATLVQDRALLASARMIAGQVGWNDGAPVVSVPPAALELF 74 Query: 65 ESAAQDHVYYRVTSSNGTLLAGSEDFPLPRAPARMDAAVHFSAQFRQQPVRIVAYTKSVI 124 S AQD VYY+V + TLLAG DFP A + V+ + F +P+R+V+Y +++ Sbjct: 75 ASPAQDAVYYQVLMDDDTLLAGRPDFPAAPDFAAL-YPVYSTTSFNGKPLRVVSYIRALF 133 Query: 125 AAPSETTVIVEVAQTLHAHKILSDGVWEHTIQQQLLIMLLVAGLAWIGMRRGLAPTMRLR 184 + V V V QT+ + + D W ++++Q++++LL L +G+ L P + L+ Sbjct: 134 DEGTLRMVAVSVGQTMQGRQEMIDDQWHASLRRQIVLLLLAISLVVLGLTMELRPLLALK 193 Query: 185 DHVQNRQPSSLEPLDATPVPNELVPLVDAINHYVGRLDEHMTAHDRFIANASHQLRTPLA 244 D + R+P SL PL A + EL P+V+AIN Y+ RL+ +T RF+A+A+HQLRTPLA Sbjct: 194 DELATRRPDSLTPLRAGGLQQELRPIVEAINQYIFRLNAQVTVQKRFVADAAHQLRTPLA 253 Query: 245 ALNTQVDYGLRSETIDGKNAALRAINGGVQHGIRLVNQLLTLSNAGAISTRRLQHAQKVD 304 +++Q+ + + + L ++ G + L N+LL LS A A + A VD Sbjct: 254 VIDSQIQFARQLDDPARVAQVLASLQEGSRSMTDLTNKLLLLSQAEASDSSAFPRA-PVD 312 Query: 305 LVRVVQQVFEELAIVAQDRGIDLGFECKEEQICLTDTAGLLDELVSNLVDNALRYTLVGG 364 L+ V V EEL+ +A +GIDLG E E + L ++ NL+DNALRYT GG Sbjct: 313 LLAVSAMVLEELSGLALKKGIDLGLETTLESAMVNGNEAQLMGMLMNLIDNALRYTPEGG 372 Query: 365 VVTVSVERHDGAVLLKVEDNGPGIPESERERVFERFYRIDAGKHHGTGLGLAIVREIVAA 424 VTV +E+ +++ V DNGPGIP RERVFERFYR A G+GLGLAIVREIV A Sbjct: 373 KVTVGLEKKRSQMIITVSDNGPGIPAEVRERVFERFYRNAAPDQPGSGLGLAIVREIVQA 432 Query: 425 IGAVITLGSPINHSGLIVWVRFPVQQE 451 I L +P SGL+ V P Q Sbjct: 433 SQGSIRLDAPAQGSGLVATVSLPALQS 459 >gi|300313819|ref|YP_003777911.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 485 Score = 270 bits (689), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 181/468 (38%), Positives = 257/468 (54%), Gaps = 31/468 (6%) Query: 2 WLLVPLAVFVAFNSWVAYKNAIEMATVVQDRMLLGAARIIAEQIRYDDDIFEVSVPPSAL 61 WLL+PL + VA ++ Y NA+E+A + DR LL + R +AE++ D VP AL Sbjct: 18 WLLIPLTLLVAVDAVSVYYNALEVADLAYDRSLLASTRALAERVSVVDGHVTADVPYVAL 77 Query: 62 ELFESAAQDHVYYRVTSSNGTLLAGSEDFPLPRAPARMDAAVH------FSAQFRQQPVR 115 + FE+ +YY+VT NG L++G +D P P P + V+ + A + QPVR Sbjct: 78 DSFETDNLGRIYYKVTGLNGELVSGYDDLP-PVPPDVKRSEVYPALVRFYQADYHDQPVR 136 Query: 116 IVAYTKSVIAAPSETTVIVEVAQTLHAHKILSDGVWEHTIQQQLLIMLLVAGLAWIGMRR 175 I A + V +++V +T+ ++ + T+ +Q ++ + A L W +R Sbjct: 137 IAALLQPVYDDSIRGIALIQVGETMEGRNGMTRKILFDTLWRQGTLVTVAALLVWFAVRF 196 Query: 176 GLAPTMRLRDHVQNRQPSSLEPLDATPVPNELVPLVDAINHYVGRLDEHMTAHDRFIANA 235 L P M+L+ V++R P+ L D V E+ PLV A+N Y+GRL ++A RFIA+A Sbjct: 197 VLRPLMQLKGEVESRAPTDLSGFDTALVHKEMRPLVQAMNGYMGRLQALISAQRRFIADA 256 Query: 236 SHQLRTPLAALNTQVDYGLRS---ETIDGKNAALRAINGGVQH----GIRLVNQLLTLSN 288 SHQLRTPL L TQ + LR E +D A LR + G+ + L N+LLTL+ Sbjct: 257 SHQLRTPLTVLKTQSELTLRELRREQVDA--AELRDLVEGMARTTDAAVHLANRLLTLAR 314 Query: 289 A--GAISTRRLQHAQKVDLVRVVQQVFEELAIVAQDRGIDLGFECKEEQICLTDTAGLLD 346 A GA + + L +QV EL+ A R I L FE +E + + A LL Sbjct: 315 AEHGAAEGGTM----PLSLSDAARQVALELSQQAVSREIGLAFE-EEGDVSIEANALLLH 369 Query: 347 ELVSNLVDNALRYTLVGGVVTVSVERHDG-----AVLLKVEDNGPGIPESERERVFERFY 401 EL+ NL+DNA+RYT GG VT+ V LL+VED+GPGIP +ERE+VFE FY Sbjct: 370 ELMVNLLDNAIRYTPAGGHVTLRVRAQSSPGQPTVALLEVEDSGPGIPAAEREKVFEPFY 429 Query: 402 RIDAGKH---HGTGLGLAIVREIVAAIGAVITLGSPINHSGLIVWVRF 446 R A +H GTGLGL+IVREI A A +TL +P SGL+V + F Sbjct: 430 RAGATQHVNPGGTGLGLSIVREIAAMHRASVTLDAPAQGSGLVVRIVF 477 >gi|300314014|ref|YP_003778106.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 467 Score = 209 bits (533), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 135/446 (30%), Positives = 227/446 (50%), Gaps = 16/446 (3%) Query: 2 WLLVPLAVFVAFNSWVAYKNAIEMATVVQDRMLLGAARIIAEQIRYDDDIFEVSVPPSAL 61 W++ P+A+F+ +S+ Y+N +E DRML+ + I + +R ++ + S+P +AL Sbjct: 18 WIISPIALFIIIDSFSLYRNTLESVNTAYDRMLIASVHSIGDLLRIENGELKASLPYAAL 77 Query: 62 ELFESAAQDHVYYRVTSSNGTLLAGSEDFPLPRAPARMDA-----AVHFSAQFRQQPVRI 116 E++E+ + YR+ +G G D P + A +A A + + PVR+ Sbjct: 78 EIYEADYSSRMIYRINGLDGKFFDGDADLPSYKGKADKEAIYPALAHIYEDTYNGVPVRV 137 Query: 117 VAYTKSVIAAPSETTVIVEVAQTLHAHKILSDGV-WEHTIQQQLLIMLLVAGLAWIGMRR 175 A + V+ +V+VA+T+ L+ + WE I+Q L++++V+ ++ +RR Sbjct: 138 AALFQPVVTNDPRGAALVQVAETMENRSALARKIFWETLIRQAALLVVIVSVTLYV-VRR 196 Query: 176 GLAPTMRLRDHVQNRQPSSLEPLDATPVPNELVPLVDAINHYVGRLDEHMTAHDRFIANA 235 L P LR + R L P+ P EL P +DA+N + RL + RF+ANA Sbjct: 197 ALQPVDALRRQLDERPADDLSPVAPPMAPRELQPFIDALNQLMARLRRLLDHQQRFVANA 256 Query: 236 SHQLRTPLAALNTQVDYGLRSETIDGKNAALRAINGGVQHGIRLVNQLLTLSNAGAISTR 295 SHQLRTPLA L TQ+ GLR + + ++G V+ L NQLL+L+ I R Sbjct: 257 SHQLRTPLAVLKTQLQSGLRGDA--PAPVIWQEMSGTVERATTLANQLLSLAKVEQIRGR 314 Query: 296 RLQHAQKVDLVRVVQQVFEELAIVAQDRGIDLGFECKEEQICLTDTAGLLDELVSNLVDN 355 Q DL + ++ +L+ + ++ DL FE + E+I + ++ EL+SNL+ N Sbjct: 315 GAQEV--CDLGMLARETAVDLSPLIAEK--DLDFELEAEKILVMGHPWMIGELISNLLHN 370 Query: 356 ALRYTLVGGVVTVSVERHDGAVLLKVEDNGPGIPESERERVFERFYRIDAGKHHGTGLGL 415 A+R+T G + + + + L + D+G GI + E VF+ F + GLGL Sbjct: 371 AIRHTPAQGRLGIRITAREDVAELLIWDSGEGIDDQAMENVFKAF---SSNVSSAGGLGL 427 Query: 416 AIVREIVAAIGAVITLGSPINHSGLI 441 I EIV ++ A I+L + + G I Sbjct: 428 TICGEIVDSMQATISLRNRVGEDGTI 453 >gi|300312679|ref|YP_003776771.1| periplasmic sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 459 Score = 191 bits (486), Expect = 8e-50, Method: Compositional matrix adjust. Identities = 144/457 (31%), Positives = 228/457 (49%), Gaps = 27/457 (5%) Query: 2 WLLVPLAVFVAFNSWVAYKNAIEMATVVQDRMLLGAARIIAEQIRYDDDIFEVSVPPSAL 61 WL+ PL + + + Y A A D+ L+ + + Q+R+ + + A Sbjct: 15 WLIAPLLLVNLIGAGLTYWLAWLPAQHAFDQNLMDSTWGLYAQVRHRQERTTAELTQQAE 74 Query: 62 ELFESAAQDHVYYRVTSSNGTLLAGSEDFPLPRAPARMDAAVHFSAQFRQQPVRIVAYTK 121 ++ S D ++ V ++ G ++ G + FP A D +++ + R +PVRI A Sbjct: 75 QILRSNHSDTTFFAVRNTEGQIVVGDKGFPQLPASDVFDRPINYDGEMRGEPVRIAAMQV 134 Query: 122 SVIAAPSETTVIVEVAQTL------HAHKILSDGVWEHTIQQQLLIMLLVAGLAWIGMRR 175 V + V VA+T+ H +LS V + + + ++LVA +RR Sbjct: 135 RV----KNGVIWVAVAETIRKRDRAHYTILLSFLVLDGALTFASIFVVLVA------VRR 184 Query: 176 GLAPTMRLRDHVQNRQPSSLEPLDATPVPNELVPLVDAINHYVGRLDEHMTAHDRFIANA 235 GL P L+ +++ R L +D P EL PL+ A+N + R+++ A F+A+ Sbjct: 185 GLRPLKSLQRNLEQRDHGKLGAIDGRGAPVELQPLIVAMNELMARINKGEQAQQNFMADV 244 Query: 236 SHQLRTPLAALNTQVDYGLRSETIDGKNAA--LRAINGGVQHGIRLVNQLLTL--SNAGA 291 +HQLRTPL L Q++ L + D + A L +N V+ IR QLL L S G Sbjct: 245 AHQLRTPLTGLKLQLEL-LHDKHQDQPDTARSLAMMNSSVERMIRQSRQLLALARSEPGL 303 Query: 292 ISTRRLQHAQKVDLVRVVQQVFEELAIVAQDRGIDLGFECKEEQICLTDTAGLLDELVSN 351 +R+L+ ++ L ++V++ + A + IDLGF+ + + L LL +L+ N Sbjct: 304 FESRKLE---ELSLDKLVEESVQHFIEEADKKRIDLGFDLRPAR--LRGDRFLLSDLIDN 358 Query: 352 LVDNALRYTLVGGVVTVSVERHDGAVLLKVEDNGPGIPESERERVFERFYRIDAGKHHGT 411 L+DNA+RY+ G VTV A +L VED+GPGI RE +F+RFYR + K G+ Sbjct: 359 LIDNAVRYSPPHGTVTVRCLEEQDATVLSVEDSGPGIAPEHRELIFDRFYRAN-DKVAGS 417 Query: 412 GLGLAIVREIVAAIGAVITLGSPINHSGLIVWVRFPV 448 GLGLAIVREI G VI++ G I VRFP+ Sbjct: 418 GLGLAIVREIAHDHGGVISVDCKEQGQGTIFTVRFPL 454 >gi|300309980|ref|YP_003774072.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 390 Score = 187 bits (475), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 128/367 (34%), Positives = 190/367 (51%), Gaps = 33/367 (8%) Query: 92 LPRAPARMDAAVHFSAQFR--------------QQPVRIVAYTKSVIAAPSETTVIVEVA 137 +P+ P D + + QFR Q +R A ++ P TV +V Sbjct: 1 MPQPPPDEDRSTVGTVQFRNDILHGSDVRIATLQVDLRRSAAQRAASREPRLATV--QVG 58 Query: 138 QTLHAHKILSDGVWEHTIQQQLLIMLLVAGLAWIGMRRGLAPTMRLRDHVQNRQPSSLEP 197 +TL L++ + + I Q +I+ + L W + RGL+P L+ ++ R+P L P Sbjct: 59 ETLEKRAQLANEIIKGVILPQFIILPVALALVWFALSRGLSPLSELQQRIRARRPDDLSP 118 Query: 198 LDATPVPNELVPLVDAINHYVGRLDEHMTAHDRFIANASHQLRTPLAALNTQVDYGLRSE 257 +D+ VP E+ PLV ++N + RL + + RFIA+A+HQ++TPLA + Q + LR + Sbjct: 119 IDSGQVPEEISPLVRSLNDMLARLSQTIAIQKRFIADAAHQMKTPLAGMRMQSELALRQD 178 Query: 258 TIDGKNAALRAINGGVQHGIRLVNQLLTLSNAGAISTRRLQHAQK-----VDLVRVVQQV 312 +L + + RLVNQLL+L+ A Q +Q V+L + + V Sbjct: 179 DQVDVRRSLEQLAKSSETATRLVNQLLSLARAEN------QQSQSGGMIPVELNELARSV 232 Query: 313 FEELAIVAQDRGIDLGFECKEEQICLTDTAGLLDELVSNLVDNALRYTLVGGVVTVSVE- 371 ++ ++ + IDLGFE + I +T +L EL+SNL+DNAL YT G V+V Sbjct: 233 VQDWVPMSFTQRIDLGFEQPDHPILITGNPVMLRELLSNLLDNALHYTPHDGNGRVTVRA 292 Query: 372 RHD---GAVLLKVEDNGPGIPESERERVFERFYRI--DAGKHHGTGLGLAIVREIVAAIG 426 R D G +L+VEDNGPGIP +ER VFERFYRI G GLGLAIVREI Sbjct: 293 RTDEGGGLAILEVEDNGPGIPVAERANVFERFYRILGTPSTGSGLGLGLAIVREIAQQHE 352 Query: 427 AVITLGS 433 A + + S Sbjct: 353 AALEITS 359 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 0.136 0.394 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: 1,443,704 Number of extensions: 62078 Number of successful extensions: 395 Number of sequences better than 1.0e-08: 36 Number of HSP's gapped: 320 Number of HSP's successfully gapped: 36 Length of query: 451 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 363 Effective length of database: 1,203,190 Effective search space: 436757970 Effective search space used: 436757970 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)