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= 0030.0106.p (791 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311805|ref|YP_003775897.1| two component hybrid sensor his... 1551 0.0 gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine... 108 1e-24 gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine... 84 5e-17 gi|300313027|ref|YP_003777119.1| two component transmembrane sen... 77 8e-15 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 72 2e-13 >gi|300311805|ref|YP_003775897.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1278 Score = 1551 bits (4015), Expect = 0.0, Method: Compositional matrix adjust. Identities = 764/783 (97%), Positives = 768/783 (98%), Gaps = 5/783 (0%) Query: 1 MADFSWLRGAGPAAQILTASDWTASPLGAPAQWSPMLRATLNQILLSPTPSLLVWGGARS 60 MADFSWLRGAGPAAQILTASDWTASPLGAPAQWSPMLRATLNQILLSPTPSLLVWGGARS Sbjct: 13 MADFSWLRGAGPAAQILTASDWTASPLGAPAQWSPMLRATLNQILLSPTPSLLVWGGARS 72 Query: 61 MLYNDAFAACLGSAHPAALGAPLTTIAGWPGTDAESAGRLQSAVLASLAGAPQQAECLAL 120 MLYNDAFAACLGSAHPAALGAPLTTIAGWPGTDAESAGRLQSAVLASLAGAPQQAECLAL Sbjct: 73 MLYNDAFAACLGSAHPAALGAPLTTIAGWPGTDAESAGRLQSAVLASLAGAPQQAECLAL 132 Query: 121 LAPPQAATARWDLSCVPLWELDEPAQAQASGVLCTFLRASGVQTALLHTDLLSDLMEQSP 180 LAPPQAATARWDLSCVPLWELDEPAQAQASGVLCTFLRASGVQTALLHTDLLSDLMEQSP Sbjct: 133 LAPPQAATARWDLSCVPLWELDEPAQAQASGVLCTFLRASGVQTALLHTDLLSDLMEQSP 192 Query: 181 SFKAVVRGPEHVFERVNSAYFKLFGDRPVIGQPARTALPELLDENLFVLLDRVYQTGQAY 240 SFKAVVRGPEHVFERVNSAYFKLFGDRPVIGQPAR ALPELLDENLF+LLDRVYQTGQAY Sbjct: 193 SFKAVVRGPEHVFERVNSAYFKLFGDRPVIGQPARMALPELLDENLFMLLDRVYQTGQAY 252 Query: 241 TERGARLFLRRGVDSHFDGAVLDFVFQPIKNAEGKVDGIFIEGNDVTERMLAEERLRIVD 300 TERGARLFLRRGVDSHFDGAVLDFVFQPIKNAEGKVDGIFIEGNDVTERMLAEERLRIVD Sbjct: 253 TERGARLFLRRGVDSHFDGAVLDFVFQPIKNAEGKVDGIFIEGNDVTERMLAEERLRIVD 312 Query: 301 RAGEIGIFEWFPDSGRLSVSDRFRRLWGLPPEGEVTAAQLVGMIDEQFHPNLGTARIKEG 360 RAGEIGIFEWFPDSGRLSVSDRFRRLWGLPPEGEVTAAQLVGMIDEQFHPNLGTARIKEG Sbjct: 313 RAGEIGIFEWFPDSGRLSVSDRFRRLWGLPPEGEVTAAQLVGMIDEQFHPNLGTARIKEG 372 Query: 361 GSRNPLEYTEYHITRPDGQQRWLARKGEVVQDDPRTGSRYVGVAFDVTARKLMEQALAAS 420 GSRNPLEYTEYHITRPDGQQRWLARKGEVVQDDPRTGSRYVGVAFDVTARKLMEQALAAS Sbjct: 373 GSRNPLEYTEYHITRPDGQQRWLARKGEVVQDDPRTGSRYVGVAFDVTARKLMEQALAAS 432 Query: 421 EASVRANNAFVRQLLDSTDQGFFSIDSAGIITLCNAAFLQLLGYAAEKDVLGRPIHDVIL 480 EASVRANNAFVRQLLDSTDQGFFSIDSAGIITLCNAAFLQLLGYAAEKDVLGRPIHDVIL Sbjct: 433 EASVRANNAFVRQLLDSTDQGFFSIDSAGIITLCNAAFLQLLGYAAEKDVLGRPIHDVIL 492 Query: 481 QPSEETQSRTGCAVLRAAREGVSAHVDSENFLRVDGTSFPVQYQTHPVWQDGQLQGALCT 540 QPSEETQSRTGCAVLRAAREGVSAHVDSENFLRVDGTSFPVQYQTHPVWQDGQLQGALCT Sbjct: 493 QPSEETQSRTGCAVLRAAREGVSAHVDSENFLRVDGTSFPVQYQTHPVWQDGQLQGALCT 552 Query: 541 FVDLTERRRGLQALSWSENRLRAIFNQASVCFSELDLQGRYLRVNQALCRMLGRSEEEML 600 FVDLTERRRGLQALSWSENRLRAIFNQASVCFSELDLQGRYLRVNQALCRMLGRSEEEML Sbjct: 553 FVDLTERRRGLQALSWSENRLRAIFNQASVCFSELDLQGRYLRVNQALCRMLGRSEEEML 612 Query: 601 GMTLADVTHPDDVPMNMSLFNRCIEDGRSFTLEKRYLRPDGSTFWVSSDISRIVDGEGRP 660 GMTLADVTHPDDVPMNMSLFNRCIEDGRSFTLEKRYLRPDGSTFWVSSDISRIVDGEGRP Sbjct: 613 GMTLADVTHPDDVPMNMSLFNRCIEDGRSFTLEKRYLRPDGSTFWVSSDISRIVDGEGRP 672 Query: 661 QAMIAVSTDITERRRAEEALRELNDTLEQRVVEEILERSRAEAALRQMQKMEAVGQLTGG 720 QAMIAVSTDITERRRAEEALRELNDTLEQRVVEEILERSRAEAALRQMQKMEAVGQLTGG Sbjct: 673 QAMIAVSTDITERRRAEEALRELNDTLEQRVVEEILERSRAEAALRQMQKMEAVGQLTGG 732 Query: 721 VAHDFNNVLQIIGGNLQLLQSDPRLDERSRQRVRIAIGAVSQAVFAIAGLCAPAALAAAQ 780 VAHDFNNVLQIIGGNLQLLQSDPRLDERSRQRVRIAIGAV + + L LA A+ Sbjct: 733 VAHDFNNVLQIIGGNLQLLQSDPRLDERSRQRVRIAIGAVDRGAKLSSQL-----LAFAR 787 Query: 781 HQP 783 QP Sbjct: 788 RQP 790 >gi|300311617|ref|YP_003775709.1| PAS/PAC sensor hybrid histidine kinase response regulator protein [Herbaspirillum seropedicae SmR1] Length = 688 Score = 108 bits (271), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 77/212 (36%), Positives = 108/212 (50%), Gaps = 12/212 (5%) Query: 541 FVDLTERRRGLQALSWSENRLRAIFNQASVCFSEL-DLQGRYLRVNQALCRMLGRSEEEM 599 F D+T RRR AL + R++ ++ + + DL V+ G E Sbjct: 125 FRDVTARRRTEAALRENVERVQLALEAGAIIGTWIWDLPSDRFSVDDGFAAAFGIPAERG 184 Query: 600 L-GMTLADV---THPDDVPMNMSLFNRCIEDGRSFTLEKRYLRPDGSTFWVSSDISRIVD 655 L G+ L ++ HPDD + + + G ++ + R R DG +W+ ++ + Sbjct: 185 LDGIKLDELMLSVHPDDRELLSARIREALARGGAYAHQYRTRRRDGRYYWLEANGRVEMT 244 Query: 656 GEGRPQAMIAVSTDI-------TERRRAEEALRELNDTLEQRVVEEILERSRAEAALRQM 708 +G P V DI ER RA ALR LN+TLEQRV E AE ALRQ Sbjct: 245 PDGIPSKFPGVLIDIEGRRAVEAERDRALAALRTLNETLEQRVEERTAALLNAEEALRQA 304 Query: 709 QKMEAVGQLTGGVAHDFNNVLQIIGGNLQLLQ 740 QKMEAVGQLTGG+AHDFNN+L I G+L+L++ Sbjct: 305 QKMEAVGQLTGGLAHDFNNILAGISGSLELMK 336 Score = 56.6 bits (135), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 67/273 (24%), Positives = 110/273 (40%), Gaps = 30/273 (10%) Query: 190 EHVFERVNSAYFKLFGDRPVIGQPARTALPELLDENLFVLLD---RVYQTGQAYTERGAR 246 ++V NS Y + G ++G+ R P+ N V LD +V TGQ Sbjct: 44 DYVHIEANSGYHRHTGIEGIVGKRLREVEPD----NAQVWLDIYGKVLLTGQTVR----- 94 Query: 247 LFLRRGVDSHFDGAVLDFVFQPIKNAEGKVDGIFIEGNDVTERMLAE-------ERLRIV 299 + F A + ++ + + DVT R E ER+++ Sbjct: 95 ------FEQEFKAAARHIEVSATRVGPVEMRQVSVLFRDVTARRRTEAALRENVERVQLA 148 Query: 300 DRAGEI-GIFEWFPDSGRLSVSDRFRRLWGLPPEGEVTAAQLVGMIDEQFHPN---LGTA 355 AG I G + W S R SV D F +G+P E + +L ++ HP+ L +A Sbjct: 149 LEAGAIIGTWIWDLPSDRFSVDDGFAAAFGIPAERGLDGIKLDELM-LSVHPDDRELLSA 207 Query: 356 RIKEGGSRNPLEYTEYHITRPDGQQRWLARKGEVVQDDPRTGSRYVGVAFDVTARKLMEQ 415 RI+E +R +Y R DG+ WL G V S++ GV D+ R+ +E Sbjct: 208 RIREALARGGAYAHQYRTRRRDGRYYWLEANGRVEMTPDGIPSKFPGVLIDIEGRRAVEA 267 Query: 416 ALAASEASVRANNAFVRQLLDSTDQGFFSIDSA 448 + A++R N + Q ++ + + A Sbjct: 268 ERDRALAALRTLNETLEQRVEERTAALLNAEEA 300 >gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 552 Score = 84.0 bits (206), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 62/199 (31%), Positives = 92/199 (46%), Gaps = 26/199 (13%) Query: 584 VNQALCRMLGRSEEEMLGMTLADVTHPDDVPMNMSLFNRCIEDGRSFTLEKRYLRPDGST 643 VN A M G S E++G + P+ ++ R + + R E R +GST Sbjct: 71 VNNAFINMTGYSSAEVVGKNCRFLQGPETDRSVVAEVRRAVAERREIATELLNYRKNGST 130 Query: 644 FWVSSDISRIVDGEGRPQAMIAVSTDITERRRAEEALRELNDTLEQRVVEEILERSRAEA 703 FW + IS + D +G + + DI+ RR AE+AL Sbjct: 131 FWNALFISPVYDQQGNLKYFFSSQLDISRRRDAEQALG---------------------- 168 Query: 704 ALRQMQKMEAVGQLTGGVAHDFNNVLQIIGGNLQLLQSDPRLDERSRQRVRIAIGAVSQA 763 Q +KMEA+GQLTGG+AHDFNN+LQ+I G L ++ R D+ RV + ++ +A Sbjct: 169 ---QARKMEALGQLTGGIAHDFNNLLQVITGYLDMINLALRSDKPDLARVARSADSIRKA 225 Query: 764 VFAIAGLCAPAALAAAQHQ 782 A + LA A+ Q Sbjct: 226 S-GKAAMLTQQLLAFARKQ 243 >gi|300313027|ref|YP_003777119.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 454 Score = 76.6 bits (187), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 56/163 (34%), Positives = 85/163 (52%), Gaps = 9/163 (5%) Query: 580 RYLRVNQALCRMLGRSEEEMLG--MTLADVTHPDDVP-MNMSLFNRCIEDGRSFTLEKRY 636 R V++ R+LG EML + HPDD + SL +ED + + E R+ Sbjct: 56 RLTFVSENASRVLGYEPCEMLDDPNFWFNHIHPDDTAQIFSSLAMLFVEDQKIY--EYRF 113 Query: 637 LRPDGSTFWVSSDISRIVDGEGRPQAMIAVSTDITERRRAEEALRELNDTLEQRVVEEIL 696 +GS W+ + I D +G PQ +I + TDIT R+ E+ L+ + EQR + E L Sbjct: 114 RTSNGSYLWMHDTLRLIRDPDGTPQEVIGLMTDITGRKEMEDTLQRQAE--EQRKLIEQL 171 Query: 697 ERSRAEAALRQMQKMEAVGQLTGGVAHDFNNVLQIIGGNLQLL 739 + A+A L Q +K+ ++GQL GVAH+ NN + + NL L Sbjct: 172 KM--AQAQLMQSEKLASIGQLAAGVAHEINNPIGFVSANLNTL 212 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 72.0 bits (175), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 69/242 (28%), Positives = 104/242 (42%), Gaps = 11/242 (4%) Query: 446 DSAGIITLCNAAFLQLLGYAAEKDVLGRPIHDVIL-QPSEETQSRTGC-AVLRAAREGVS 503 D+ + + L L GY E +L + + + L P + T R A +R R Sbjct: 27 DAQWTMEFVSEGCLALTGYLPEDLLLNQRLSFLELTHPEDRTLVRNHVDACMRERR---- 82 Query: 504 AHVDSE-NFLRVDGTSFPVQYQTHPVWQ-DGQLQGALCTFVDLTERRRGLQALSWSENRL 561 +D E +R DG V + ++ +GQ++ D+TER+ QAL +E R Sbjct: 83 -RIDIEYRIVRADGAVRWVWERGVGIYNANGQVEAIEGFLQDVTERKEAAQALQEAERRY 141 Query: 562 RAIFNQASVCFSELDLQGRYLRVNQALCRMLGRSEEEMLGMTLADVTHPDDV-PMNMSLF 620 R+IF A + G Y+ VN AL R+ G E L + L D++H V P F Sbjct: 142 RSIFENAIEGVFQTTPDGTYIAVNPALARIYGYHSPEDLIVGLRDISHQLYVEPERRQEF 201 Query: 621 NRCIED-GRSFTLEKRYLRPDGSTFWVSSDISRIVDGEGRPQAMIAVSTDITERRRAEEA 679 R +E+ G E R R DG W+S + + D G+ ITER+ E Sbjct: 202 MRLMEEQGSVSNFESRVYRRDGEIIWISENARAVYDEAGKLSCYEGTVEAITERKAHEAE 261 Query: 680 LR 681 +R Sbjct: 262 MR 263 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 0.320 0.135 0.400 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: 2,406,760 Number of extensions: 102814 Number of successful extensions: 394 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 384 Number of HSP's successfully gapped: 10 Length of query: 791 Length of database: 1,619,870 Length adjustment: 93 Effective length of query: 698 Effective length of database: 1,179,515 Effective search space: 823301470 Effective search space used: 823301470 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 (21.8 bits) S2: 134 (56.2 bits)