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= 0016.0007.p (168 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K916.1 B3K916_9BACI Transcription elongation factor 248 1e-64 B1DIC8.1 B1DIC8_9BACL Transcription elongation factor 247 3e-64 B0YJD8.1 B0YJD8_PAEPO Transcription elongation factor 241 2e-62 C0ZIE0.1 C0ZIE0_BREBN Transcription elongation factor 221 2e-56 C1PWT3.1 C1PWT3_ALIAC Transcription elongation factor GreA 217 3e-55 >B3K916.1 B3K916_9BACI Transcription elongation factor Length = 158 Score = 248 bits (633), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 127/157 (80%), Positives = 138/157 (87%) Query: 10 MSDKEVILTPDGXXXXXXXXXXXXSVKRREVAERIKVAIGYGDISENSEYEDAKNEQAFI 69 MSDKEVILT DG SVKRREVAERIKVAIGYGDISENSEYEDAKNEQAFI Sbjct: 1 MSDKEVILTQDGLKKLEDELENLKSVKRREVAERIKVAIGYGDISENSEYEDAKNEQAFI 60 Query: 70 EGRIITLEKMLRNARIINSDEIVTDVVSIGVTVSVEDLEYGDVMEYTIVGTAESDPLNNK 129 EGRIITLEKMLRNARIIN+D+I TDVV +G TV VEDLE+GD MEYTIVGTAESDPLNNK Sbjct: 61 EGRIITLEKMLRNARIINNDDINTDVVGVGNTVIVEDLEFGDTMEYTIVGTAESDPLNNK 120 Query: 130 ISNESPVGRAIIGKKVGTIVDVSVPAGVIQYKILDIR 166 ISNESPVG+AIIGK+ G++VDV+VPAGVIQYKI+DI+ Sbjct: 121 ISNESPVGKAIIGKQKGSVVDVNVPAGVIQYKIVDIK 157 >B1DIC8.1 B1DIC8_9BACL Transcription elongation factor Length = 158 Score = 247 bits (630), Expect = 3e-64, Method: Compositional matrix adjust. Identities = 125/157 (79%), Positives = 136/157 (86%) Query: 10 MSDKEVILTPDGXXXXXXXXXXXXSVKRREVAERIKVAIGYGDISENSEYEDAKNEQAFI 69 MSDKE+ILT DG SVKRREVAERIKVAIGYGDISENSEYEDAKNEQAFI Sbjct: 1 MSDKEIILTQDGLKKLEEELENLKSVKRREVAERIKVAIGYGDISENSEYEDAKNEQAFI 60 Query: 70 EGRIITLEKMLRNARIINSDEIVTDVVSIGVTVSVEDLEYGDVMEYTIVGTAESDPLNNK 129 EGRIITLEKMLRNARIIN+DEI TD VSIG V+VEDLE+GD MEY IVG+AESDPL NK Sbjct: 61 EGRIITLEKMLRNARIINNDEIDTDTVSIGSVVTVEDLEFGDTMEYAIVGSAESDPLRNK 120 Query: 130 ISNESPVGRAIIGKKVGTIVDVSVPAGVIQYKILDIR 166 ISNESPVG+AI+GKK GT+VDVSVPAG+IQYKI+DI+ Sbjct: 121 ISNESPVGKAILGKKRGTVVDVSVPAGIIQYKIVDIK 157 >B0YJD8.1 B0YJD8_PAEPO Transcription elongation factor Length = 165 Score = 241 bits (615), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 129/163 (79%), Positives = 143/163 (87%) Query: 4 TGESVEMSDKEVILTPDGXXXXXXXXXXXXSVKRREVAERIKVAIGYGDISENSEYEDAK 63 TGESV+MSDKEVILT +G SVKRREVAERIKVAIGYGDISENSEYEDAK Sbjct: 2 TGESVKMSDKEVILTQEGLRKLEDELENLKSVKRREVAERIKVAIGYGDISENSEYEDAK 61 Query: 64 NEQAFIEGRIITLEKMLRNARIINSDEIVTDVVSIGVTVSVEDLEYGDVMEYTIVGTAES 123 NEQAFIEGR+ITLEKMLRNARIINSDEI TDVV +G TV+VEDLE+GD+ EY IVG+AES Sbjct: 62 NEQAFIEGRVITLEKMLRNARIINSDEIDTDVVGVGATVTVEDLEFGDITEYAIVGSAES 121 Query: 124 DPLNNKISNESPVGRAIIGKKVGTIVDVSVPAGVIQYKILDIR 166 DPL NKISNESPVG+AI+GKK GT+VDV+VPAGVIQYKI+DI+ Sbjct: 122 DPLQNKISNESPVGKAILGKKKGTVVDVTVPAGVIQYKIVDIK 164 >C0ZIE0.1 C0ZIE0_BREBN Transcription elongation factor Length = 158 Score = 221 bits (563), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 109/158 (68%), Positives = 133/158 (84%) Query: 10 MSDKEVILTPDGXXXXXXXXXXXXSVKRREVAERIKVAIGYGDISENSEYEDAKNEQAFI 69 MS+KEVILTP+G +VKR+EVA RIK AI +GDISENSEYE+AKNEQAFI Sbjct: 1 MSEKEVILTPEGLTKLEQELEDLKTVKRKEVAARIKEAISFGDISENSEYEEAKNEQAFI 60 Query: 70 EGRIITLEKMLRNARIINSDEIVTDVVSIGVTVSVEDLEYGDVMEYTIVGTAESDPLNNK 129 EGRI+TLEKMLRNARII ++++ T VVS+G V ++DLE+GDVM+YTIVG+AESDP+NNK Sbjct: 61 EGRILTLEKMLRNARIITNEDVDTGVVSVGSRVKLKDLEFGDVMDYTIVGSAESDPMNNK 120 Query: 130 ISNESPVGRAIIGKKVGTIVDVSVPAGVIQYKILDIRM 167 ISNESPVG+A++GK G IVDV+VPAGVIQY+ILDI + Sbjct: 121 ISNESPVGQALLGKAKGAIVDVNVPAGVIQYEILDINL 158 >C1PWT3.1 C1PWT3_ALIAC Transcription elongation factor GreA Length = 158 Score = 217 bits (553), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 108/157 (68%), Positives = 133/157 (84%) Query: 10 MSDKEVILTPDGXXXXXXXXXXXXSVKRREVAERIKVAIGYGDISENSEYEDAKNEQAFI 69 M+DKEV+LTP+G SVKRREVAERIKVAI YGDISENSEYEDAKNEQAFI Sbjct: 1 MADKEVLLTPEGLRKLEEELELLKSVKRREVAERIKVAISYGDISENSEYEDAKNEQAFI 60 Query: 70 EGRIITLEKMLRNARIINSDEIVTDVVSIGVTVSVEDLEYGDVMEYTIVGTAESDPLNNK 129 EGRI+TLEK LRNAR+IN DE+ T+VVSIG TV V DL+ + +EYTIVG+AE++P NK Sbjct: 61 EGRIMTLEKQLRNARVINEDEVDTNVVSIGSTVKVLDLDLDEEVEYTIVGSAEANPAENK 120 Query: 130 ISNESPVGRAIIGKKVGTIVDVSVPAGVIQYKILDIR 166 ISNESPVG+A++GK++G+IV+V+VPAGVI++KIL+I+ Sbjct: 121 ISNESPVGKALLGKQIGSIVEVNVPAGVIKFKILEIK 157 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.312 0.133 0.349 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 861,598,009 Number of extensions: 31388995 Number of successful extensions: 69136 Number of sequences better than 1.0e-05: 1936 Number of HSP's gapped: 68099 Number of HSP's successfully gapped: 1936 Length of query: 168 Length of database: 3,060,696,203 Length adjustment: 125 Effective length of query: 43 Effective length of database: 1,883,069,328 Effective search space: 80971981104 Effective search space used: 80971981104 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.8 bits) S2: 126 (53.1 bits)