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= 0056.0017.p (377 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... 223 2e-59 gi|300310865|ref|YP_003774957.1| response regulator containing a... 167 1e-42 gi|300313022|ref|YP_003777114.1| two component sensor histidine ... 117 2e-27 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 87 2e-18 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 77 2e-15 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 223 bits (569), Expect = 2e-59, Method: Compositional matrix adjust. Identities = 115/302 (38%), Positives = 181/302 (59%), Gaps = 1/302 (0%) Query: 34 ASVFVGLVCLSILILHISFAWNVRIKDLDDAQISTANLSRALAEHAQATLISADSVLFGM 93 A +FV L+C +I H+ + R L++ + + N+++ALA HA L + D +L M Sbjct: 20 ARLFVVLICAAIAGGHLWQSMTARGVQLENNRSYSGNVAKALARHAYDVLQATDGLLLDM 79 Query: 94 VQRLEVEGMDRDSLARLYPLLASYVKELPQIQGLFVYDESGKWMVNSMDDSPWMLNNADR 153 R++ G+ L L P+L E+PQ+ GL+V+DE GK ++ S NN+DR Sbjct: 80 SDRIDSVGIAHARLVDLMPMLRRLSSEMPQLDGLYVFDEHGKRLLTSSAPPLAPANNSDR 139 Query: 154 EYFIYHMTHEDRAPHVGEPVKSRSSGDWIIPLSRRINHPDGSFAGVVLATVEVEYFLKFY 213 +YFI+H H+D PHVG+ + SRS+G WIIP+SRR+NHPDGSFAGV+LAT+++ +F + Y Sbjct: 140 DYFIWHRDHDDVGPHVGKALLSRSTGRWIIPMSRRLNHPDGSFAGVLLATLDINHFNQLY 199 Query: 214 RSFDIGKHGEILLATQPGILLAKWPSSGEIFGQNISNSNIVSEHASRNKNG-IAIITAAD 272 R+ +IGK G I L + G LL + P ++ S + E + G + +++ D Sbjct: 200 RTVEIGKGGSIALLLRDGTLLTRMPFDPGYINRDFSQGRLFLEGLPHSPFGYLEVVSPLD 259 Query: 273 GVKRLHSYKRLDRYPLFVTAALSYDEVLASWRTETLMQSVGVLILVAMLAWMGKRLVNQI 332 +R SY+ +D+YPL + L+ +E LA W+ +T + VL+L+A++ G RLV QI Sbjct: 260 ARQRFLSYQAVDKYPLVLVVTLAREEALADWKQQTFVYGAAVLLLLAIIGVFGWRLVGQI 319 Query: 333 KL 334 +L Sbjct: 320 EL 321 >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 = 167 bits (424), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 87/278 (31%), Positives = 155/278 (55%), Gaps = 1/278 (0%) Query: 53 AWNVRIKDLDDAQISTANLSRALAEHAQATLISADSVLFGMVQRLEVEGMDRDSLARLYP 112 AW R L ++ +N++ AL +HA+ ++ AD VL + + L+ E + R + Sbjct: 45 AWRAREVALSESTTDASNVALALIQHAEQSIKEADIVLETVQEHLDHEDRSASARIRTHD 104 Query: 113 LLASYVKELPQIQGLFVYDESGKWMVNSMDDSPWMLNNADREYFIYHMTHEDRAPHVGEP 172 + V LPQ+ L V DE G+ + +S + +YF YH P +G+P Sbjct: 105 FMIRSVASLPQLAQLTVVDEQGRTVASSQQRMVQTGSPVQDDYFQYHQHRRSDRPFIGQP 164 Query: 173 VKSRSSGDWIIPLSRRINHPDGSFAGVVLATVEVEYFLKFYRSFDIGKHGEILLATQPGI 232 ++S +G + +SRRINH DGSFAGV++A +++ YF ++Y F+IG HG IL G Sbjct: 165 MRSHVTGQRTLTVSRRINHVDGSFAGVIVAEIDLAYFQRYYEQFNIGPHGVILFGLTGGS 224 Query: 233 LLAKWPSSGEIFGQNISNSNIVSEHASRNKNG-IAIITAADGVKRLHSYKRLDRYPLFVT 291 L+ + P ++ ++ + S + +H + + G A+ + DGV+R+ +++ + YP+F Sbjct: 225 LILRRPLLADMTDRSPAMSEALRKHMEQARRGSFAMRSERDGVERISCFQQGEAYPIFTV 284 Query: 292 AALSYDEVLASWRTETLMQSVGVLILVAMLAWMGKRLV 329 AL+ D++L W ++ +GV++L+A++ + GKRLV Sbjct: 285 VALAKDDILEDWSRHVWVRGIGVVLLLAVICFGGKRLV 322 >gi|300313022|ref|YP_003777114.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 117 bits (292), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 92/322 (28%), Positives = 151/322 (46%), Gaps = 31/322 (9%) Query: 24 RSRRVNVRIFASVFVGLVCLSILILHISFAWNVRIKDLDDAQISTANLSRALAEHAQATL 83 R R+++R+ S+F L+ + + N R LDDA+ +LSR EHA T+ Sbjct: 12 RFARIDLRVALSLFSLLLICGLWLGAFKELQNSRNNYLDDARRDAQSLSRLFLEHAYRTI 71 Query: 84 ISADSVLFGMVQRLEVEG--------MDRDSLAR-LYPLLASYVKELPQIQGLFVYDESG 134 +AD + R G +D +AR +Y L + + D G Sbjct: 72 EAADQAALYLRYRYAERGNALNLATEIDNGLVARNVYNLFS-------------IVDAQG 118 Query: 135 KWMVNSMDDSPWMLNNADREYFIYHMTHEDRAPHVGEPVKSRSSGDWIIPLSRRINHPDG 194 +++S +P +N ADRE+ HM + +PV R S W + ++RRIN PDG Sbjct: 119 DVVLSSKPFTP--VNLADREHVQVHMQGGQDQLFISKPVLGRVSKKWSLQITRRINRPDG 176 Query: 195 SFAGVVLATVEVEYFLKFYRSFDIGKHGEILLATQPGILLAKWPSSGEIFGQNISNSNIV 254 F GVV+ +++ +YF + Y D+G HG I L G+ + + G+ ++ + Sbjct: 177 GFGGVVVVSMDPQYFTRLYHQIDVGHHGVITLVGADGVARVRRTGDMDAMGEQVAGGKVY 236 Query: 255 SEHASRNKNGIAIITAADGVKRLHSYKRLDRYPLFVTAALSYDEVLASW---RTETLM-- 309 + ++ I ++ DG +RL+++++L YPLF + E LA + R TLM Sbjct: 237 AAMLAQGSGTIEAVSKIDGRERLYAFQKLRDYPLFAAVGIDLKERLAPYYRERERTLMLA 296 Query: 310 --QSVGVLILVAMLAWMGKRLV 329 SV VL+ A+L W+ LV Sbjct: 297 ALLSVAVLVFNAVLLWLAGSLV 318 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 87.4 bits (215), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 76/316 (24%), Positives = 142/316 (44%), Gaps = 12/316 (3%) Query: 17 GETPAVARSRRVN---VRIFASVFVGLVCLSILILHISFAWNVRIKDLDDAQISTANLSR 73 GE A+ +++ V I A + ++ +S L+ S+ R + +A T R Sbjct: 14 GEFAGSAKIKQLKNYLVVILAIAVLMVMAISASTLYQSY-QQTRQSAVSNASNVTLVSQR 72 Query: 74 ALAEHAQATLISADSVLFGMVQRLEVEGMDRDSLARLYPLLASYVKELPQIQGLFVYDES 133 A++ + + +S D++ + L ++ A+ Y L + I + V D Sbjct: 73 AISRNLEMLSLSLDTLAYRFQHPLSARRLND---AQRYAYLFGSTTNVSHIAVMAVLDAD 129 Query: 134 GKWMVNS-MDDSPWMLNNADREYFIYHMTHEDRAPHVGEPVKSRSSGDW-IIPLSRRINH 191 G+ V+S + + ADR YFI H +V P+++ + ++ LS+R+++ Sbjct: 130 GRVQVSSRLGRGNGAPHYADRAYFIAHRDSPTVGLYVSRPMQASLGNELQVVVLSKRLSN 189 Query: 192 PDGSFAGVVLATVEVEYFLKFYRSFDIGKHGEILLATQPGILLAKWPSSGEIFGQNIS-- 249 DGSFAGVV+ +++ YF + + +G G I L + GI + P I G++IS Sbjct: 190 EDGSFAGVVVMALDLAYFRELFEGLALGDEGIISLYSDEGIAYMRVPYRETIIGRDISQT 249 Query: 250 -NSNIVSEHASRNKNGIAIITAADGVKRLHSYKRLDRYPLFVTAALSYDEVLASWRTETL 308 N + S + DGV+RL++++R+ PL V + + + +WR Sbjct: 250 GNFQRLRAMLSEEEGSFFAHATNDGVRRLYTFRRIPGSPLIVFVGYAEEAIFKTWRKTFY 309 Query: 309 MQSVGVLILVAMLAWM 324 V + I + AW+ Sbjct: 310 AVLVSLAIFGLLTAWL 325 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 77.0 bits (188), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 72/300 (24%), Positives = 135/300 (45%), Gaps = 14/300 (4%) Query: 33 FASVFVGLVCLSILILHISFAW----NVRIKDLDDAQISTANLSRALAEHAQATLISADS 88 + ++ +GL+ + +L + + + RI + +A T + RA++ + + ++ D+ Sbjct: 7 YLALILGLIIMMVLSICGASLYEGYRQTRISAITEANNVTLIVQRAISRNMEILSLAMDT 66 Query: 89 VLFGMVQRLEVEGMDRDSLARLYPLLASYVKELPQIQGLFVYDESGKWMVNSMDD-SP-W 146 + + L+ + S Y L I L + D G V S SP Sbjct: 67 LAYRYQHPLD---LTHASDEERYNYLFGSTAAAHHITALAILDADGYVRVTSRRSASPSV 123 Query: 147 MLNNADREYFIYHMTHEDRAPHVGEPVKSRSSGDW-IIPLSRRINHPDGSFAGVVLATVE 205 ++N ++R YF H D + P+K+ + ++ LS+R++ DGSF GVVL ++ Sbjct: 124 VVNYSERTYFTVHRDSADAGLFISRPIKANLGNELPVVVLSKRLSRKDGSFDGVVLMALD 183 Query: 206 VEYFLKFYRSFDIGKHGEILLATQPGILLAKWPSSGEIFGQNISNS-NIVSEHASRNKNG 264 + YF + +G+ G + L + G+ + P G+ I+N+ N A N Sbjct: 184 MSYFRDLFTGLTLGEDGIMSLYSDDGVTYMRVPYHPSSIGREITNNPNFQRLRAMLVDND 243 Query: 265 IAIITAA--DGVKRLHSYKRLDRYPLFVTAALSYDEVLASWRTETLMQSVGVLILVAMLA 322 A DGV+RL++++R+ PL V S + +W +TL + +LI+ LA Sbjct: 244 GNFFARAHTDGVERLYTFRRIPDAPLIVLLGRSERFIFKTW-YDTLYSVLLLLIIFTALA 302 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 0.413 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: 1,068,881 Number of extensions: 40651 Number of successful extensions: 139 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 130 Number of HSP's successfully gapped: 7 Length of query: 377 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 290 Effective length of database: 1,207,925 Effective search space: 350298250 Effective search space used: 350298250 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: 131 (55.1 bits)