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= 0001.3659.p (136 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313044|ref|YP_003777136.1| two component response regulato... 178 2e-46 gi|300312802|ref|YP_003776894.1| two component response regulato... 89 1e-19 gi|300312287|ref|YP_003776379.1| chemotaxis cheY protein [Herbas... 74 3e-15 gi|300310245|ref|YP_003774337.1| receiver domain-containing prot... 70 5e-14 gi|300311948|ref|YP_003776040.1| sensor histidine kinase/respons... 67 7e-13 >gi|300313044|ref|YP_003777136.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 122 Score = 178 bits (451), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 85/121 (70%), Positives = 105/121 (86%) Query: 3 TNNEEQTVLVVEDHAESREMLCDLLRKGGLNVLAAADGVDAIALMQDHAPDLVLTDLRMP 62 + ++++TVLVVEDH +SR++LC++L GL+V+AA+DGV+AIALMQ AP LVLTDLRMP Sbjct: 2 SRSKQKTVLVVEDHPDSRDLLCEILAHKGLSVMAASDGVEAIALMQSQAPSLVLTDLRMP 61 Query: 63 RMDGMELARYIKSHERYAQIPVVLISAHLPAASARIPMIAAFLLKPCSVDHLFGTLTLLL 122 RMDGMELARYIKS ER+ IPV LISA+LPAA+AR+P I+AFLLKPCSVDHL T+T LL Sbjct: 62 RMDGMELARYIKSDERFGHIPVALISANLPAANARVPEISAFLLKPCSVDHLLTTVTQLL 121 Query: 123 R 123 R Sbjct: 122 R 122 >gi|300312802|ref|YP_003776894.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 125 Score = 89.0 bits (219), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 53/115 (46%), Positives = 75/115 (65%), Gaps = 5/115 (4%) Query: 8 QTVLVVEDHAESREMLCDLLRKGGLNVLAAADGVDAIALMQDHAPDL--VLTDLRMPRMD 65 TVLVVED++E R + ++LR G VL AA+G A++++ D D+ +LTDLRMP MD Sbjct: 8 STVLVVEDNSEVRALYSEVLRSDGYRVLEAANGTLALSVLFDRPGDVDVILTDLRMPLMD 67 Query: 66 GMELARYIKSHERYAQIPVVLISAHLPAAS--ARIPMIAAFLLKPCSVDHLFGTL 118 G+ELA +K+ ER++ IP+VL+SA S AR AA L KPC ++ L T+ Sbjct: 68 GLELAETLKADERFSAIPLVLLSATPMTNSWHAR-KNFAALLTKPCPLNLLLSTI 121 >gi|300312287|ref|YP_003776379.1| chemotaxis cheY protein [Herbaspirillum seropedicae SmR1] Length = 121 Score = 74.3 bits (181), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 37/104 (35%), Positives = 58/104 (55%), Gaps = 3/104 (2%) Query: 8 QTVLVVEDHAESREMLCDLLRKGGLNVLAAADGVDAIALMQDHAPDLVLTDLRMPRMDGM 67 +T+L V+D R+M+ L+ G NV A DGVDA+ + DLVLTD MPRMDG+ Sbjct: 3 KTILAVDDSGSLRQMVVFSLKAAGYNVTEAVDGVDALEKAKSQTFDLVLTDQNMPRMDGL 62 Query: 68 ELARYIKSHERYAQIPVVLISAHLP---AASARIPMIAAFLLKP 108 L R ++ YA++P+++++ A + +L+KP Sbjct: 63 TLIRSLRELTSYARVPILMLTTEFSDEMKAKGKAAGANGWLVKP 106 >gi|300310245|ref|YP_003774337.1| receiver domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 125 Score = 70.5 bits (171), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 41/118 (34%), Positives = 63/118 (53%), Gaps = 3/118 (2%) Query: 4 NNEEQTVLVVEDHAESREMLCDLLRKGGLNVLAAADGVDAIALMQDHAP--DLVLTDLRM 61 N + +L++ED+ RE+ ++ G V A +G + + ++ +VLTDLRM Sbjct: 4 NPRTRAILIIEDNLYVREIFAEVFDAAGYEVHQAGNGAEGLEILLSSPGRVSVVLTDLRM 63 Query: 62 PRMDGMELARYIKSHERYAQIPVVLISAHLPAASARI-PMIAAFLLKPCSVDHLFGTL 118 P MDG+ A +K R+A +PVVL+SA A S + AA L+KPC L T+ Sbjct: 64 PVMDGLRFATELKKDVRFAGLPVVLLSATPMANSWEARKVFAALLVKPCPFSQLLDTV 121 >gi|300311948|ref|YP_003776040.1| sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1145 Score = 66.6 bits (161), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 41/120 (34%), Positives = 64/120 (53%), Gaps = 4/120 (3%) Query: 2 GTNNEEQTVLVVEDHAESREMLCDLLRKGGLNVLAAADGVDAIALMQDHAPDLVLTDLRM 61 G + +LVV+D A R +L D+L G V A G+ + + PDLVL D+ M Sbjct: 927 GYAGPSRHILVVDDQASQRRLLKDMLMPLGFTVSEADSGLACMETLGHALPDLVLLDIAM 986 Query: 62 PRMDGMELARYIKSHERYAQIPVVLISAHLPA---ASARIPMIAAFLLKPCSVDHLFGTL 118 P+MDG +AR I++ AQ+P++L+SA+ P++ F++KP S L G + Sbjct: 987 PQMDGWSVARAIRARG-LAQLPILLVSANAFENLHERNEPPLVNDFVVKPVSYHELLGKI 1045 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 0.324 0.136 0.389 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: 419,304 Number of extensions: 15967 Number of successful extensions: 173 Number of sequences better than 1.0e-08: 22 Number of HSP's gapped: 187 Number of HSP's successfully gapped: 22 Length of query: 136 Length of database: 1,619,870 Length adjustment: 76 Effective length of query: 60 Effective length of database: 1,260,010 Effective search space: 75600600 Effective search space used: 75600600 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.5 bits) S2: 125 (52.8 bits)