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= 0088.0024.p (211 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... 125 2e-30 gi|300310865|ref|YP_003774957.1| response regulator containing a... 125 3e-30 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 79 3e-16 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 78 4e-16 gi|300313022|ref|YP_003777114.1| two component sensor histidine ... 58 5e-10 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 125 bits (315), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 65/176 (36%), Positives = 104/176 (59%), Gaps = 1/176 (0%) Query: 1 VARAVQRHADDTIKSADVSLIGMVKLVENEGYTPSGREQLASLMGQSATALGQVHAYFAF 60 VA+A+ RHA D +++ D L+ M +++ G + L ++ + ++ + Q+ + F Sbjct: 57 VAKALARHAYDVLQATDGLLLDMSDRIDSVGIAHARLVDLMPMLRRLSSEMPQLDGLYVF 116 Query: 61 DEYGRSVIDST-PLYAQLDVSGREYFQFHRDHATRDAYVGPLIKSNTTNTWVITVSRRVN 119 DE+G+ ++ S+ P A + S R+YF +HRDH +VG + S +T W+I +SRR+N Sbjct: 117 DEHGKRLLTSSAPPLAPANNSDRDYFIWHRDHDDVGPHVGKALLSRSTGRWIIPMSRRLN 176 Query: 120 HEDGSFAGVVLAALDLEYFRKFYDTFDVGKKGVIFLGTNAGTTLVRRPLYEKYVGR 175 H DGSFAGV+LA LD+ +F + Y T ++GK G I L GT L R P Y+ R Sbjct: 177 HPDGSFAGVLLATLDINHFNQLYRTVEIGKGGSIALLLRDGTLLTRMPFDPGYINR 232 >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 = 125 bits (313), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 69/194 (35%), Positives = 110/194 (56%), Gaps = 1/194 (0%) Query: 1 VARAVQRHADDTIKSADVSLIGMVKLVENEGYTPSGREQLASLMGQSATALGQVHAYFAF 60 VA A+ +HA+ +IK AD+ L + + +++E + S R + M +S +L Q+ Sbjct: 63 VALALIQHAEQSIKEADIVLETVQEHLDHEDRSASARIRTHDFMIRSVASLPQLAQLTVV 122 Query: 61 DEYGRSVIDSTPLYAQLDVSGRE-YFQFHRDHATRDAYVGPLIKSNTTNTWVITVSRRVN 119 DE GR+V S Q ++ YFQ+H+ + ++G ++S+ T +TVSRR+N Sbjct: 123 DEQGRTVASSQQRMVQTGSPVQDDYFQYHQHRRSDRPFIGQPMRSHVTGQRTLTVSRRIN 182 Query: 120 HEDGSFAGVVLAALDLEYFRKFYDTFDVGKKGVIFLGTNAGTTLVRRPLYEKYVGRSMAD 179 H DGSFAGV++A +DL YF+++Y+ F++G GVI G G+ ++RRPL RS A Sbjct: 183 HVDGSFAGVIVAEIDLAYFQRYYEQFNIGPHGVILFGLTGGSLILRRPLLADMTDRSPAM 242 Query: 180 LPMYRDHIAQNAAG 193 R H+ Q G Sbjct: 243 SEALRKHMEQARRG 256 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 79.0 bits (193), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 39/109 (35%), Positives = 65/109 (59%), Gaps = 1/109 (0%) Query: 77 LDVSGREYFQFHRDHATRDAYVGPLIKSNTTNTW-VITVSRRVNHEDGSFAGVVLAALDL 135 ++ S R YF HRD A ++ IK+N N V+ +S+R++ +DGSF GVVL ALD+ Sbjct: 125 VNYSERTYFTVHRDSADAGLFISRPIKANLGNELPVVVLSKRLSRKDGSFDGVVLMALDM 184 Query: 136 EYFRKFYDTFDVGKKGVIFLGTNAGTTLVRRPLYEKYVGRSMADLPMYR 184 YFR + +G+ G++ L ++ G T +R P + +GR + + P ++ Sbjct: 185 SYFRDLFTGLTLGEDGIMSLYSDDGVTYMRVPYHPSSIGREITNNPNFQ 233 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 78.2 bits (191), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 52/149 (34%), Positives = 77/149 (51%), Gaps = 14/149 (9%) Query: 38 EQLASLMGQSATALGQVHAYFAFDEYGRSVIDS-------TPLYAQLDVSGREYFQFHRD 90 ++ A L G S T + + D GR + S P YA R YF HRD Sbjct: 105 QRYAYLFG-STTNVSHIAVMAVLDADGRVQVSSRLGRGNGAPHYAD-----RAYFIAHRD 158 Query: 91 HATRDAYVG-PLIKSNTTNTWVITVSRRVNHEDGSFAGVVLAALDLEYFRKFYDTFDVGK 149 T YV P+ S V+ +S+R+++EDGSFAGVV+ ALDL YFR+ ++ +G Sbjct: 159 SPTVGLYVSRPMQASLGNELQVVVLSKRLSNEDGSFAGVVVMALDLAYFRELFEGLALGD 218 Query: 150 KGVIFLGTNAGTTLVRRPLYEKYVGRSMA 178 +G+I L ++ G +R P E +GR ++ Sbjct: 219 EGIISLYSDEGIAYMRVPYRETIIGRDIS 247 >gi|300313022|ref|YP_003777114.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 58.2 bits (139), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 50/191 (26%), Positives = 87/191 (45%), Gaps = 5/191 (2%) Query: 1 VARAVQRHADDTIKSADVSLIGMVKLVENEGYTPSGREQLASLMGQSATALGQVHAYFAF 60 ++R HA TI++AD + + + G + LA+ + A + + Sbjct: 59 LSRLFLEHAYRTIEAADQAALYLRYRYAERGNALN----LATEIDNGLVARNVYNLFSIV 114 Query: 61 DEYGRSVIDSTPLYAQLDVSGREYFQFHRDHATRDAYVGPLIKSNTTNTWVITVSRRVNH 120 D G V+ S P + ++++ RE+ Q H ++ + + W + ++RR+N Sbjct: 115 DAQGDVVLSSKP-FTPVNLADREHVQVHMQGGQDQLFISKPVLGRVSKKWSLQITRRINR 173 Query: 121 EDGSFAGVVLAALDLEYFRKFYDTFDVGKKGVIFLGTNAGTTLVRRPLYEKYVGRSMADL 180 DG F GVV+ ++D +YF + Y DVG GVI L G VRR +G +A Sbjct: 174 PDGGFGGVVVVSMDPQYFTRLYHQIDVGHHGVITLVGADGVARVRRTGDMDAMGEQVAGG 233 Query: 181 PMYRDHIAQNA 191 +Y +AQ + Sbjct: 234 KVYAAMLAQGS 244 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 0.135 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: 660,395 Number of extensions: 27305 Number of successful extensions: 86 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 82 Number of HSP's successfully gapped: 5 Length of query: 211 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 130 Effective length of database: 1,236,335 Effective search space: 160723550 Effective search space used: 160723550 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: 128 (53.9 bits)