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= 0001.3453.p (518 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312843|ref|YP_003776935.1| response regulator containing a... 670 0.0 gi|300310865|ref|YP_003774957.1| response regulator containing a... 257 2e-69 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 232 7e-62 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 220 2e-58 gi|300313782|ref|YP_003777874.1| transmembrane protein [Herbaspi... 187 1e-48 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 670 bits (1728), Expect = 0.0, Method: Compositional matrix adjust. Identities = 347/517 (67%), Positives = 406/517 (78%) Query: 1 MRAMLAKAGPAARHSVARRARLFIILICMAIAASHVWQSVTARMAQVNNTRIYSGNIART 60 M +LAKAG ARHSVARRARLF++LIC AIA H+WQS+TAR Q+ N R YSGN+A+ Sbjct: 1 MHPLLAKAGSHARHSVARRARLFVVLICAAIAGGHLWQSMTARGVQLENNRSYSGNVAKA 60 Query: 61 LAHQAYDVFQATHGALINISDRINEVGIGSPHTTAMGPLLRRMASEMPQLDGLYVFDANG 120 LA AYDV QAT G L+++SDRI+ VGI + P+LRR++SEMPQLDGLYVFD +G Sbjct: 61 LARHAYDVLQATDGLLLDMSDRIDSVGIAHARLVDLMPMLRRLSSEMPQLDGLYVFDEHG 120 Query: 121 NRIASSSPPSPRDANNADRAYFHYHRDHQDDQPHISATIISRSTTQWVIPMSLRLNHPDG 180 R+ +SS P ANN+DR YF +HRDH D PH+ ++SRST +W+IPMS RLNHPDG Sbjct: 121 KRLLTSSAPPLAPANNSDRDYFIWHRDHDDVGPHVGKALLSRSTGRWIIPMSRRLNHPDG 180 Query: 181 RFAGVLLATLRLEHFNTLYQTVDLGHNSSILLVLRPGIILTRQPFEPDYINRDLSQDPNL 240 FAGVLLATL + HFN LY+TV++G SI L+LR G +LTR PF+P YINRD SQ Sbjct: 181 SFAGVLLATLDINHFNQLYRTVEIGKGGSIALLLRDGTLLTRMPFDPGYINRDFSQGRLF 240 Query: 241 HELLTGQSSGHAEIVSPLDASYRYLTYQAVQDFPLMVAVTIARDEALAIWRQQTVVYGAA 300 E L G+ E+VSPLDA R+L+YQAV +PL++ VT+AR+EALA W+QQT VYGAA Sbjct: 241 LEGLPHSPFGYLEVVSPLDARQRFLSYQAVDKYPLVLVVTLAREEALADWKQQTFVYGAA 300 Query: 301 VLLLLIIIAIFGVRLIGLINLRLAAEDRALQVMGELHQANQQLELLAHQDGLTGLANRRH 360 VLLLL II +FG RL+G I LRL AEDRALQ MGEL AN +LE+LAHQDGLTGLANRRH Sbjct: 301 VLLLLAIIGVFGWRLVGQIELRLRAEDRALQAMGELQMANHRLEMLAHQDGLTGLANRRH 360 Query: 361 LDTVLAAEWRRALRSNAVLSLIMIDVDFFKQYNDLYGHQAGDECLRRIAAVLKERQRRPG 420 LDT+L E++RA RS A L+LIMIDVDFFKQYNDLYGHQAGDECLRR+A VLKERQRRPG Sbjct: 361 LDTMLETEFKRAERSGAALALIMIDVDFFKQYNDLYGHQAGDECLRRVAGVLKERQRRPG 420 Query: 421 DLAARYGGEEMVMLLPDTDAAGAMQVAEKIRAGIQALDLPHRGNPAGVVTISAGVGALEL 480 DLAARYGGEEM MLLP TDA GA VAEK+RAGIQAL+LPHRGNP GVVT+S GV ALEL Sbjct: 421 DLAARYGGEEMAMLLPGTDAEGACAVAEKLRAGIQALELPHRGNPVGVVTVSVGVCALEL 480 Query: 481 LGPGARTLEDLLGQADIALYQAKHGGRNQVRLAQAEK 517 L AR+++ LLG AD ALY+AKH GRNQVRLA K Sbjct: 481 LPSAARSVQALLGAADAALYEAKHEGRNQVRLAAPMK 517 >gi|300310865|ref|YP_003774957.1| response regulator containing a CheY-like receiver domain and a GGDEF domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 554 Score = 257 bits (656), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 160/478 (33%), Positives = 245/478 (51%), Gaps = 10/478 (2%) Query: 37 WQSVTARMAQVNNTRIYSGNIARTLAHQAYDVFQATHGALINISDRINEVGIGSPHTTAM 96 W + AR ++ + + N+A L A + L + + ++ + Sbjct: 43 WTAWRAREVALSESTTDASNVALALIQHAEQSIKEADIVLETVQEHLDHEDRSASARIRT 102 Query: 97 GPLLRRMASEMPQLDGLYVFDANGNRIASSSPPSPRDANNADRAYFHYHRDHQDDQPHIS 156 + R + +PQL L V D G +ASS + + YF YH+ + D+P I Sbjct: 103 HDFMIRSVASLPQLAQLTVVDEQGRTVASSQQRMVQTGSPVQDDYFQYHQHRRSDRPFIG 162 Query: 157 ATIISRSTTQWVIPMSLRLNHPDGRFAGVLLATLRLEHFNTLYQTVDLGHNSSILLVLRP 216 + S T Q + +S R+NH DG FAGV++A + L +F Y+ ++G + IL L Sbjct: 163 QPMRSHVTGQRTLTVSRRINHVDGSFAGVIVAEIDLAYFQRYYEQFNIGPHGVILFGLTG 222 Query: 217 GIILTRQPFEPDYINRDLSQDPNLHELLTGQSSGHAEIVSPLDASYRYLTYQAVQDFPLM 276 G ++ R+P D +R + L + + G + S D R +Q + +P+ Sbjct: 223 GSLILRRPLLADMTDRSPAMSEALRKHMEQARRGSFAMRSERDGVERISCFQQGEAYPIF 282 Query: 277 VAVTIARDEALAIWRQQTVVYGAAVLLLLIIIAIFGVRLIGLINLRLAAEDRALQVMGEL 336 V +A+D+ L W + V G V+LLL +I G RL+ L+ R AE +A+ EL Sbjct: 283 TVVALAKDDILEDWSRHVWVRGIGVVLLLAVICFGGKRLVVLVAGRERAEAQAIAARQEL 342 Query: 337 HQANQQLELLAHQDGLTGLANRRHLDTVLAAEWRRALRSNAVLSLIMIDVDFFKQYNDLY 396 + LE + +DGLT + NRR+ D LAAE R R+ LSL+MIDVD FKQ+ND Y Sbjct: 343 ESLYRTLEAQSQKDGLTDVFNRRYFDAALAAELARLNRTGESLSLMMIDVDHFKQFNDTY 402 Query: 397 GHQAGDECLRRIAAVLKERQRRPGDLAARYGGEEMVMLLPDTDAAGAMQVAEKIRAGIQA 456 GH AGD CLR++AA + RR GD+ ARYGGEE ++LP+ A +A ++ ++ Sbjct: 403 GHAAGDVCLRQVAAAISTVARRQGDIVARYGGEEFAVILPNCHPGSAQGLAHRVVQAVRG 462 Query: 457 LDLPHRGNPAGVVTISAGVGALE-----LLGPGARTLEDLLGQADIALYQAKHGGRNQ 509 L++ H +P GVVTIS GV +L L+ P +L+ AD ALY+AK GR++ Sbjct: 463 LEIAHERSPMGVVTISVGVASLASGKSLLIEP-----RELIDSADGALYRAKEEGRDR 515 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 232 bits (591), Expect = 7e-62, Method: Compositional matrix adjust. Identities = 156/415 (37%), Positives = 226/415 (54%), Gaps = 28/415 (6%) Query: 109 QLDGLYVFDANGN-RIASSSPPSPRDA-NNADRAYFHYHRDHQDDQPHISATIISRSTTQ 166 + L + DA+G R+ S SP N ++R YF HRD D IS I + + Sbjct: 98 HITALAILDADGYVRVTSRRSASPSVVVNYSERTYFTVHRDSADAGLFISRPIKANLGNE 157 Query: 167 W-VIPMSLRLNHPDGRFAGVLLATLRLEHFNTLYQTVDLGHNSSILLVLRPGIILTRQPF 225 V+ +S RL+ DG F GV+L L + +F L+ + LG + + L G+ R P+ Sbjct: 158 LPVVVLSKRLSRKDGSFDGVVLMALDMSYFRDLFTGLTLGEDGIMSLYSDDGVTYMRVPY 217 Query: 226 EPDYINRDLSQDPNLHEL--LTGQSSGHAEIVSPLDASYRYLTYQAVQDFPLMVAVTIAR 283 P I R+++ +PN L + + G+ + D R T++ + D PL+V + R Sbjct: 218 HPSSIGREITNNPNFQRLRAMLVDNDGNFFARAHTDGVERLYTFRRIPDAPLIV--LLGR 275 Query: 284 DEALAIWRQQTVVYGAAVLLLLIIIAIFGVRLIGL---INLRLAAEDRALQVMGELHQAN 340 E +Y + +LLL+I A+ GV L+ + + R+AAE Sbjct: 276 SERFIFKTWYDTLY-SVLLLLIIFTALAGVLLMLVRRELLKRVAAE-------------- 320 Query: 341 QQLELLAHQDGLTGLANRRHLDTVLAAEWRRALRS-NAVLSLIMIDVDFFKQYNDLYGHQ 399 +QLE LA DGLTGL NRR LD L A W+R+ RS A S + IDVD+FK+YND YGH+ Sbjct: 321 KQLEDLARTDGLTGLLNRRSLDEALLAVWQRSQRSPTAGFSTLFIDVDYFKRYNDTYGHE 380 Query: 400 AGDECLRRIAAVLKERQRRPGDLAARYGGEEMVMLLPDTDAAGAMQVAEKIRAGIQALDL 459 GD L+ +AAVL+E +R DLA RYGGEE V+LL TD GA+++A+++ I + Sbjct: 381 MGDTVLQAVAAVLREHLQRQNDLAGRYGGEEFVVLLEQTDEHGALRMAQQLCEAIYNRGI 440 Query: 460 PHRGNPAGVVTISAGVGALELLGPGARTLEDLLGQADIALYQAKHGGRNQVRLAQ 514 PH G+P GV+++S GV + P R +ED+L AD ALY AK GRN+V +A Sbjct: 441 PHSGSPLGVISVSIGVATMN-RAPHQR-MEDVLNAADHALYIAKREGRNRVCVAH 493 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 220 bits (561), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 153/407 (37%), Positives = 208/407 (51%), Gaps = 27/407 (6%) Query: 115 VFDANGNRIASSSPPSPRDA-NNADRAYFHYHRDHQDDQPHISATI-ISRSTTQWVIPMS 172 V DA+G SS A + ADRAYF HRD ++S + S V+ +S Sbjct: 125 VLDADGRVQVSSRLGRGNGAPHYADRAYFIAHRDSPTVGLYVSRPMQASLGNELQVVVLS 184 Query: 173 LRLNHPDGRFAGVLLATLRLEHFNTLYQTVDLGHNSSILLVLRPGIILTRQPFEPDYINR 232 RL++ DG FAGV++ L L +F L++ + LG I L GI R P+ I R Sbjct: 185 KRLSNEDGSFAGVVVMALDLAYFRELFEGLALGDEGIISLYSDEGIAYMRVPYRETIIGR 244 Query: 233 DLSQDPNLHEL--LTGQSSGHAEIVSPLDASYRYLTYQAVQDFPLMVAVTIARDEALAIW 290 D+SQ N L + + G + D R T++ + PL+V V A + W Sbjct: 245 DISQTGNFQRLRAMLSEEEGSFFAHATNDGVRRLYTFRRIPGSPLIVFVGYAEEAIFKTW 304 Query: 291 RQQTVVYGAAVLLLLIIIAIFGVRLIGLINLRLAAEDRALQVMGELHQ---ANQQLELLA 347 R+ +L+ +AIFG+ L+ L V EL + A +QLE LA Sbjct: 305 RK-------TFYAVLVSLAIFGLLTAWLL----------LHVRQELRRRVTAERQLEALA 347 Query: 348 HQDGLTGLANRRHLDTVLAAEWRRALRS-NAVLSLIMIDVDFFKQYNDLYGHQAGDECLR 406 DGLT L NRR LD L A W R R+ A S++ IDVD+FK YND YGH+ GD L+ Sbjct: 348 RTDGLTDLLNRRALDEALQATWERCQRNLGASFSVLFIDVDYFKAYNDTYGHKLGDTVLK 407 Query: 407 RIAAVLKERQRRPGDLAARYGGEEMVMLLPDTDAAGAMQVAEKIRAGIQALDLPHRGNPA 466 +AA L R R D A RYGGEE V+LL TD GA +A+++ ++ + H +P Sbjct: 408 EVAATLTARLPRHTDCAGRYGGEEFVVLLEQTDLQGAQMMAQRLCDAVRERHIAHTSSPL 467 Query: 467 GVVTISAGVGALELLGPGARTLEDLLGQADIALYQAKHGGRNQVRLA 513 VVTIS GV LE R +ED+L AD ALY+AK GR++V L+ Sbjct: 468 AVVTISVGVATLE--RDHHRRVEDVLNAADAALYRAKQAGRDRVHLS 512 >gi|300313782|ref|YP_003777874.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 475 Score = 187 bits (476), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 143/419 (34%), Positives = 205/419 (48%), Gaps = 50/419 (11%) Query: 112 GLYVFDANGNRIASSSP-----PSPRDANNADRAYFHYHRDHQ---DDQPHISATIISRS 163 L + D +G + S+ P P A +F H+ H D +ISA + R Sbjct: 83 ALGIVDTDGELVVGSAALSQILPGP----YAQSDFFTAHQTHHAQGDTGLYISAPLTVRL 138 Query: 164 TTQW-VIPMSLRLNHPDGRFAGVLLATLRLEHFNTLYQTVDLGHNSSILLVLRPGIILTR 222 + V+ +S RL PDG FAG+ L L L++F L+Q + L ++ I L G+ R Sbjct: 139 ERRMQVVVLSKRLAQPDGSFAGISLMVLYLDYFRDLFQGLTLENDGVISLYSADGLAYMR 198 Query: 223 QPFEPDYINRDLSQDPNLHELLTGQSSGHAEIVSPLDASYRYLTYQAVQDFPLMV----- 277 P+ +I L+ +L + + SG P SY +A QD P + Sbjct: 199 IPYNEAFIGSRLNISEDLERIFS--PSG------PAQGSY---FARAQQDGPRWLYTFAR 247 Query: 278 ------AVTIARDEALAIWRQQTVVYGAAVLLLLIIIAIFGVRLIGLINLRLAAEDRALQ 331 V I R A ++Y AVL L+ I + LI + + L Sbjct: 248 VPGTGWTVFIGRTGARIFREWYNMLY--AVLFLMASFCIASIYLIRRVRVELQRRS---- 301 Query: 332 VMGELHQANQQLELLAHQDGLTGLANRRHLDTVLAAEWRRALRS-NAVLSLIMIDVDFFK 390 +QQLE LA D LT L NRR LD LA W+RA + +A+ SL+ +DVDFFK Sbjct: 302 ------ALDQQLEELARTDKLTSLLNRRALDEALARAWKRAEENPDAIFSLLFVDVDFFK 355 Query: 391 QYNDLYGHQAGDECLRRIAAVLKERQRRPGDLAARYGGEEMVMLLPDTDAAGAMQVAEKI 450 YND YGH+AGD L ++ + R D + RYGGEE V+LL TD GA VA++I Sbjct: 356 LYNDTYGHKAGDYALMAVSRCIVAAVSRLSDQSGRYGGEEFVVLLNGTDTVGATHVAKRI 415 Query: 451 RAGIQALDLPHRGNPAGVVTISAGVGALELLGPGARTLEDLLGQADIALYQAKHGGRNQ 509 + IQ+L +PH +P ++T+S GV + LL ++ED++ AD ALY+AK GRN+ Sbjct: 416 ISAIQSLKIPHERSPFDILTVSIGVTS--LLREHHSSIEDVVKDADAALYRAKQDGRNK 472 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 0.322 0.136 0.395 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: 1,641,175 Number of extensions: 70485 Number of successful extensions: 316 Number of sequences better than 1.0e-08: 41 Number of HSP's gapped: 252 Number of HSP's successfully gapped: 42 Length of query: 518 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 429 Effective length of database: 1,198,455 Effective search space: 514137195 Effective search space used: 514137195 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: 133 (55.8 bits)