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: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value CAC3198 [K] COG0782 Transcription elongation factor 165 2e-41 NMA1643 [K] COG0782 Transcription elongation factor 109 2e-24 NMB1430 [K] COG0782 Transcription elongation factor 108 5e-24 CC2848 [K] COG0782 Transcription elongation factor 96 3e-20 mll2568 [K] COG0782 Transcription elongation factor 89 3e-18 >CAC3198 [K] COG0782 Transcription elongation factor Length = 158 Score = 165 bits (418), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 79/156 (50%), Positives = 116/156 (74%) Query: 11 SDKEVILTPDGXXXXXXXXXXXXSVKRREVAERIKVAIGYGDISENSEYEDAKNEQAFIE 70 +K+ ++T G + KR+E+ E+IKVA+ +GD+SENSEY++AKN+QAF+E Sbjct: 3 QEKKYVITYKGVKKLEEELEYLKTTKRKEITEKIKVALSFGDLSENSEYDEAKNDQAFVE 62 Query: 71 GRIITLEKMLRNARIINSDEIVTDVVSIGVTVSVEDLEYGDVMEYTIVGTAESDPLNNKI 130 GRI +E ML+NA +I+ E+ DVVS+G V V+D ++ + +E++IVG+AE+DP+ NKI Sbjct: 63 GRIAQIENMLKNANVIDESELKNDVVSVGSKVMVKDYQFDEEIEFSIVGSAEADPIENKI 122 Query: 131 SNESPVGRAIIGKKVGTIVDVSVPAGVIQYKILDIR 166 SNESPVG A+IGKKVG ++V+VP GV +YKIL I+ Sbjct: 123 SNESPVGSALIGKKVGDEIEVNVPDGVDKYKILAIK 158 >NMA1643 [K] COG0782 Transcription elongation factor Length = 232 Score = 109 bits (272), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 13/155 (8%), Positives = 24/155 (15%), Gaps = 1/155 (0%) Query: 13 KEVILTPDGXXXXXXXXXXXXSVKRREVAERIKVAIGYGDISENSEYEDAKNEQAFIEGR 72 L + D+ + E + +E Sbjct: 2 TTDKLFESLEKIVEKSQDYLVIGSLSFLPLLKNYREPGIDLDISIEKGLFYRRKNIVEAI 61 Query: 73 IITLEKMLRNARIINSDEIVTD-VVSIGVTVSVEDLEYGDVMEYTIVGTAESDPLNNKIS 131 L + N + D+ Y + L S Sbjct: 62 GNIQVLRLNEIAVANKSFVSKLISPKTDFIHLETKEGLLDIQLYEHKKESIEIKLGMGFS 121 Query: 132 NESPVGRAIIGKKVGTIVDVSVPAGVIQYKILDIR 166 P K + A + Sbjct: 122 LSLPNSIIKRSKILKWKGHSYRAAPLEWMFATKSV 156 >NMB1430 [K] COG0782 Transcription elongation factor Length = 158 Score = 108 bits (269), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 67/155 (43%), Positives = 88/155 (56%), Gaps = 1/155 (0%) Query: 13 KEVILTPDGXXXXXXXXXXXXSVKRREVAERIKVAIGYGDISENSEYEDAKNEQAFIEGR 72 +++ LT G SV R EV E I A +GD+SEN+EYE AK Q FIEGR Sbjct: 2 QKIPLTVRGAELLKQELQQLKSVARPEVIEAIAEARSHGDLSENAEYEAAKERQGFIEGR 61 Query: 73 IITLEKMLRNARIINSDEIVTD-VVSIGVTVSVEDLEYGDVMEYTIVGTAESDPLNNKIS 131 I LE L A IIN EI + + G TV++EDLE + + Y IVG E+D KI Sbjct: 62 ISELEHKLSVAHIINPTEIHAEGKIVFGTTVTLEDLETEEHVIYQIVGEDEADIKQGKIY 121 Query: 132 NESPVGRAIIGKKVGTIVDVSVPAGVIQYKILDIR 166 SP+ RA+IGK+ G +V P GV +Y I+++R Sbjct: 122 VGSPIARALIGKEEGDTAEVQAPGGVREYDIIEVR 156 >CC2848 [K] COG0782 Transcription elongation factor Length = 157 Score = 95.5 bits (236), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 54/134 (40%), Positives = 81/134 (60%) Query: 34 SVKRREVAERIKVAIGYGDISENSEYEDAKNEQAFIEGRIITLEKMLRNARIINSDEIVT 93 +V+R V I A +GD+SEN+EY AK Q +IEG+I +E + A++I+ ++ Sbjct: 23 TVERPAVIAAIAEARSHGDLSENAEYHAAKERQGWIEGQIAEIEDKIARAQVIDVTKLSG 82 Query: 94 DVVSIGVTVSVEDLEYGDVMEYTIVGTAESDPLNNKISNESPVGRAIIGKKVGTIVDVSV 153 V G TVSV D + + Y IVG E+D + +IS SP+ RA+IGK+VG +V+V+ Sbjct: 83 KQVKFGATVSVVDEDTEEEARYQIVGDHEADVKSGRISLSSPLSRAMIGKEVGEVVEVNT 142 Query: 154 PAGVIQYKILDIRM 167 P GV Y+IL + Sbjct: 143 PGGVKAYEILKVEW 156 >mll2568 [K] COG0782 Transcription elongation factor Length = 784 Score = 89.0 bits (219), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 2/153 (1%), Positives = 29/153 (18%) Query: 15 VILTPDGXXXXXXXXXXXXSVKRREVAERIKVAIGYGDISENSEYEDAKNEQAFIEGRII 74 + + +I + + + + + Q Sbjct: 4 ERSERIEIPVLPLRDVVVYPHMVIPLFVGREKSIRCLEAAMDHDKKIMLVAQKEASTDEP 63 Query: 75 TLEKMLRNARIINSDEIVTDVVSIGVTVSVEDLEYGDVMEYTIVGTAESDPLNNKISNES 134 + + + + +++ + + + Sbjct: 64 GVNDLFTVGTVASILQMLKLPDGTVKVLVEGLQRARISALSDNGEHFSAKAEYLESPTID 123 Query: 135 PVGRAIIGKKVGTIVDVSVPAGVIQYKILDIRM 167 + ++ + + + + + + Sbjct: 124 EREQEVLVRTAISQFEGYIKLNKKIPPEVLTSL 156 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 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: 115334 Number of Hits to DB: 11,175,348 Number of extensions: 407782 Number of successful extensions: 637 Number of sequences better than 1.0e-05: 37 Number of HSP's gapped: 619 Number of HSP's successfully gapped: 37 Length of query: 168 Length of database: 38,378,431 Length adjustment: 99 Effective length of query: 69 Effective length of database: 26,960,365 Effective search space: 1860265185 Effective search space used: 1860265185 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: 112 (47.8 bits)