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= 0341.0010.p (187 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value lin0845 [K] COG1309 Transcriptional regulator 82 7e-16 lin2193 [K] COG1309 Transcriptional regulator 78 7e-15 MA0368 [K] COG1309 Transcriptional regulator 52 4e-07 ECs1259 [K] COG1309 Transcriptional regulator 49 3e-06 ycdC [K] COG1309 Transcriptional regulator 48 7e-06 >lin0845 [K] COG1309 Transcriptional regulator Length = 184 Score = 81.6 bits (200), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 56/181 (30%), Positives = 94/181 (51%), Gaps = 11/181 (6%) Query: 2 QAALSEFAEKGFEGASLAGIAQLVGIKKQSIATYFPKKEDLFIAAFQEMARHYIEFLDQL 61 + AL+ FAEKG++G +L+ IA+ VGIK S+ +FP KE LF+ +Q+ + L ++ Sbjct: 8 EVALTLFAEKGYDGTALSEIAKAVGIKTPSLYAHFPSKEALFMEVYQDSIHTELSELSKV 67 Query: 62 Y-KEILGTPVEARLREIVY-RTYYYRVEYPVLTAFYKRSVQFPAPFFQEMLEQQISMMEQ 119 +E LG E +LR I + T + R P F++R+V +P E L+++ EQ Sbjct: 68 ADEEALGG--EEKLRTIFFVATDFSRS--PDEKKFFQRAVFYPPKSLFEELKEETRTYEQ 123 Query: 120 RSAAFYRAVFEEGMNSGEIRRQHTESLLSAYYCLQDGIAMQMFFYNQEEFGRRLKDIWEI 179 + R E + + R + +Y L DG++++ Y++ EF R K WE+ Sbjct: 124 LTNDILRKTLEPALPEDALTR-----WMHVFYALLDGLSVEHGIYDETEFELRRKSAWEV 178 Query: 180 F 180 Sbjct: 179 L 179 >lin2193 [K] COG1309 Transcriptional regulator Length = 194 Score = 78.2 bits (191), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 57/192 (29%), Positives = 99/192 (51%), Gaps = 18/192 (9%) Query: 2 QAALSEFAEKGFEGASLAGIAQLVGIKKQSIATYFPKKEDLFIAAFQEMARHYIEFLDQL 61 QAAL+ FA GFEG SLA IA +VG+KKQSI ++F K+DLF++ ++ I++ Sbjct: 8 QAALTLFANNGFEGTSLADIAGVVGLKKQSIYSHFKDKDDLFLSIMKDAKSTEIDY---- 63 Query: 62 YKEILGTPVEARLREIVYRTYYYRVE--YPVLTA--FYKRSVQFPAPFFQEMLEQQIS-- 115 Y+ L +R ++V + + V+ Y A F+ R +P ++++ I+ Sbjct: 64 YRAKLRDSDLSR-PDLVLSSLLFGVKELYDTDEAYQFWLRYGFYPPKHLYDIVQADITEN 122 Query: 116 --MMEQRSAAFYRAVFEEGMNSGEIRRQHTESLLSAYYCLQDGIAMQMFFYNQ-EEFGRR 172 MEQ + +F + + I Q E++ AY + D + + + + N E ++ Sbjct: 123 ILQMEQD----FTDLFSDWIEQKLIPMQDVETMKEAYMGILDAVIVDIVYVNDPERTKKK 178 Query: 173 LKDIWEIFWAGI 184 + +W+IFW GI Sbjct: 179 ITALWQIFWRGI 190 >MA0368 [K] COG1309 Transcriptional regulator Length = 192 Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust. Identities = 49/194 (25%), Positives = 89/194 (45%), Gaps = 27/194 (13%) Query: 1 LQAALSEFAEKGFEGASLAGIAQLVGIKKQSIATYFPKKEDLFIAAFQEMARHYIEFLDQ 60 + AAL F E+GF G S A I++ G+ ++ YFP KEDL + Y E + Sbjct: 13 MDAALKLFTERGFHGTSTAQISKDAGVATGTLFNYFPTKEDL-------INSLYFEVKGE 65 Query: 61 LYKEILGTPVEA------RLREIVYRTYYYRVEYPVLTAFYKRSVQF-PAPFFQEMLEQQ 113 L + +G +EA +LR+I + V+ P F QF +P+ + + Sbjct: 66 L-SQAMGKDIEAEGTFQDKLRKIWSNLVKWGVDNPEEFLFVG---QFCSSPYITKFTRDE 121 Query: 114 ISMMEQRSAAFYRAVFEEGMNSGEIRRQHTESLLSAYYCLQDGIAMQMFFYNQE---EFG 170 + + F + +EG+ + EIR E +++ +Y Q A+ F + + + Sbjct: 122 V----MKEYVFLHKLVDEGIKTEEIRDFSAELVIAMFY--QGSRAVVNFILDSDPSLDEN 175 Query: 171 RRLKDIWEIFWAGI 184 + ++D ++I W G+ Sbjct: 176 KIIEDGFQIIWRGL 189 >ECs1259 [K] COG1309 Transcriptional regulator Length = 212 Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 34/123 (27%), Positives = 63/123 (51%), Gaps = 4/123 (3%) Query: 1 LQAALSEFAEKGFEGASLAGIAQLVGIKKQSIATYFPKKEDLFIAAFQEMARHYIEFLDQ 60 L AAL F++ GF G L IA+L G+ K ++ YFP KE L+IA +++ ++ L Sbjct: 24 LSAALDTFSQFGFHGTRLEQIAELAGVSKTNLLYYFPSKEALYIAVLRQILDIWLAPLKA 83 Query: 61 LYKEILGTPVEARLREIVYRTYYYRVEYPVLTAFYKRSVQFPAPFFQEMLEQQI-SMMEQ 119 ++ P+ A ++E + +YP + + + AP + L + S++++ Sbjct: 84 FREDF--APLAA-IKEYIRLKLEVSRDYPQASRLFCMEMLAGAPLLMDELTGDLKSLIDE 140 Query: 120 RSA 122 +SA Sbjct: 141 KSA 143 >ycdC [K] COG1309 Transcriptional regulator Length = 212 Score = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust. Identities = 33/123 (26%), Positives = 63/123 (51%), Gaps = 4/123 (3%) Query: 1 LQAALSEFAEKGFEGASLAGIAQLVGIKKQSIATYFPKKEDLFIAAFQEMARHYIEFLDQ 60 L AAL F++ GF G L IA+L G+ K ++ YFP KE L+IA +++ ++ L Sbjct: 24 LSAALDTFSQFGFHGTRLEQIAELAGVSKTNLLYYFPSKEALYIAVLRQILDIWLAPLKA 83 Query: 61 LYKEILGTPVEARLREIVYRTYYYRVEYPVLTAFYKRSVQFPAPFFQEMLEQQI-SMMEQ 119 ++ P+ A ++E + +YP + + + AP + L + +++++ Sbjct: 84 FREDF--APLAA-IKEYIRLKLEVSRDYPQASRLFCMEMLAGAPLLMDELTGDLKALIDE 140 Query: 120 RSA 122 +SA Sbjct: 141 KSA 143 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 0.325 0.138 0.403 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: 12,643,272 Number of extensions: 440221 Number of successful extensions: 1208 Number of sequences better than 1.0e-05: 6 Number of HSP's gapped: 1208 Number of HSP's successfully gapped: 6 Length of query: 187 Length of database: 38,378,431 Length adjustment: 100 Effective length of query: 87 Effective length of database: 26,845,031 Effective search space: 2335517697 Effective search space used: 2335517697 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 (21.6 bits) S2: 112 (47.8 bits)