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= 0001.2321.p (120 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312139|ref|YP_003776231.1| hypothetical protein Hsero_2831... 229 6e-62 gi|300313139|ref|YP_003777231.1| hypothetical protein Hsero_3845... 167 3e-43 gi|300312140|ref|YP_003776232.1| transcription regulator protein... 73 5e-15 gi|300312442|ref|YP_003776534.1| hypothetical protein Hsero_3142... 68 3e-13 >gi|300312139|ref|YP_003776231.1| hypothetical protein Hsero_2831 [Herbaspirillum seropedicae SmR1] Length = 118 Score = 229 bits (583), Expect = 6e-62, Method: Compositional matrix adjust. Identities = 115/120 (95%), Positives = 117/120 (97%), Gaps = 2/120 (1%) Query: 1 MSDTDIDTITADAPLIFTDSAVAKVSELISEEGNADLKLRIYVSGGGCSGFEYGFAFDDA 60 MSDTD +ITADAPLIFTDSAVAKVSELISEEGN +LKLRIYVSGGGCSGFEYGFAFDDA Sbjct: 1 MSDTD--SITADAPLIFTDSAVAKVSELISEEGNTELKLRIYVSGGGCSGFEYGFAFDDA 58 Query: 61 VNEDDFCIERNGVSLLVDAMSMQYLNGAEIGYEEGLEGSRFIIKNPNATTTCGCGSSFSV 120 VNEDDFCIERNGVSLLVDAMSMQYLNGAEIGYEEGLEGSRFIIKNPNATTTCGCGSSFSV Sbjct: 59 VNEDDFCIERNGVSLLVDAMSMQYLNGAEIGYEEGLEGSRFIIKNPNATTTCGCGSSFSV 118 >gi|300313139|ref|YP_003777231.1| hypothetical protein Hsero_3845 [Herbaspirillum seropedicae SmR1] Length = 121 Score = 167 bits (422), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 76/108 (70%), Positives = 93/108 (86%) Query: 13 APLIFTDSAVAKVSELISEEGNADLKLRIYVSGGGCSGFEYGFAFDDAVNEDDFCIERNG 72 AP+ F+DSA AKV++LI EEGN DLKLR++V GGGCSGF+YGF FD+ VNEDD + +NG Sbjct: 14 APINFSDSAAAKVAQLIEEEGNPDLKLRVFVQGGGCSGFQYGFTFDEIVNEDDTTMSKNG 73 Query: 73 VSLLVDAMSMQYLNGAEIGYEEGLEGSRFIIKNPNATTTCGCGSSFSV 120 V LL+D+MS QYL GAEI Y++ LEG++F+IKNPNATTTCGCGSSFSV Sbjct: 74 VQLLIDSMSYQYLVGAEIDYKDDLEGAQFVIKNPNATTTCGCGSSFSV 121 >gi|300312140|ref|YP_003776232.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 106 Score = 73.2 bits (178), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 40/108 (37%), Positives = 60/108 (55%), Gaps = 6/108 (5%) Query: 15 LIFTDSAVAKVSELISEEGNADLKLRIYVSGGGCSGFEYGFAFDDAVNEDDFCIERNGVS 74 + T++A +V +++ L+L + SG CSG Y + D D E +GV+ Sbjct: 3 ITLTENAARRVHAFLAKRSAVGLRLAVKTSG--CSGMAYALEYADVAEPQDVRFESHGVT 60 Query: 75 LLVDAMSMQYLNGAEIGY-EEGL-EGSRFIIKNPNATTTCGCGSSFSV 120 +L+D S+ YL+G E+ + EGL EG +F NPNA CGCG SF+V Sbjct: 61 VLIDPKSLPYLDGTELDFVREGLNEGFKF--NNPNAKNQCGCGESFAV 106 >gi|300312442|ref|YP_003776534.1| hypothetical protein Hsero_3142 [Herbaspirillum seropedicae SmR1] Length = 107 Score = 67.8 bits (164), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 38/108 (35%), Positives = 57/108 (52%), Gaps = 5/108 (4%) Query: 15 LIFTDSAVAKVSELISEEGNADLKLRIYVSGGGCSGFEYGFAFDDAVNEDDFCIERNGVS 74 + T+ A +S + G + LR+ V GCSG Y + D + +D E +GV Sbjct: 3 ITLTEKAAKHISRYMERRGKG-IGLRLGVRTTGCSGLAYKLEYVDEQSSEDTVFESHGVR 61 Query: 75 LLVDAMSMQYLNGAEIGY-EEGL-EGSRFIIKNPNATTTCGCGSSFSV 120 + VD S+ Y++G E+ + EGL EG +F +NPN CGCG SF + Sbjct: 62 VFVDPKSLPYIDGTELDFAREGLNEGFKF--QNPNVKDECGCGESFRI 107 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 0.316 0.135 0.390 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: 322,971 Number of extensions: 12064 Number of successful extensions: 25 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 25 Number of HSP's successfully gapped: 4 Length of query: 120 Length of database: 1,619,870 Length adjustment: 74 Effective length of query: 46 Effective length of database: 1,269,480 Effective search space: 58396080 Effective search space used: 58396080 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 125 (52.8 bits)