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= 0128.0026.p (213 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BS_ydhC [K] COG1802 Transcriptional regulators 90 3e-18 mll6988 [K] COG1802 Transcriptional regulators 87 2e-17 BMEI0106 [K] COG1802 Transcriptional regulators 84 2e-16 BMEII0281 [K] COG1802 Transcriptional regulators 81 1e-15 mll6782 [K] COG1802 Transcriptional regulators 80 2e-15 >BS_ydhC [K] COG1802 Transcriptional regulators Length = 403 Score = 89.7 bits (221), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 11/192 (5%), Positives = 31/192 (16%), Gaps = 1/192 (0%) Query: 1 VYSILKQWVLSGELAPGERIDQDAVASRLGVSKMPVRSALDKLAAQDLVLLHSHRGVTVT 60 V L + A + Q ++ + + + R + Sbjct: 16 VLGFLATDMYLPAFAAIQADLQTPASAVSASLSLFLAGFAAAQLLWGPLSDRYGRKPVLL 75 Query: 61 PLSAQHLEDIYLVRCNLEGLAVQLATELLKPEDVTLLNNMIQKQEDLANHRNPDTEAILA 120 + + + + D + + A Sbjct: 76 IGLTIFALGSLGMLWVENAATLLVLRFVQAVGVCAAAVIWQALVTDYYPSQKVNRI-FAA 134 Query: 121 ANREFHLFIYSLAQRPVLLSIIERLWEQSERYRRILLIQPGMVDGSLNEHRRLVELMTHR 180 L L + I ++ + + Sbjct: 135 IMPLVGLSPALAPLLGSWLLVHFSWQAIFATLFAITVVLILPIFWLKPTTKARNNSQDGL 194 Query: 181 QAEEASRFLVEH 192 + R Sbjct: 195 TFTDLLRSKTYR 206 >mll6988 [K] COG1802 Transcriptional regulators Length = 220 Score = 86.7 bits (213), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 58/191 (30%), Positives = 99/191 (51%), Gaps = 3/191 (1%) Query: 2 YSILKQWVLSGELAPGERIDQDAVASRLGVSKMPVRSALDKLAAQDLVLLHSHRGVTVTP 61 Y+ +++ + G PG+R+ + +A+ +G+S+MPVR A +LA+ LV+L +RG V Sbjct: 17 YNHVQRALRLGRYKPGDRLIPEEIAAEIGMSRMPVREAFRRLASDGLVVLRPNRGCVVAG 76 Query: 62 LSAQHLEDIYLVRCNLEGLAVQLATELLKPEDVTLLNNMIQKQEDLANHRNPDTEAILAA 121 L+ L +I+ +R LEGLAV+LA + E+ L+ ++++ E D + Sbjct: 77 LTVDELFEIFEIRSVLEGLAVRLAVPRIDDEEFEELDRLLERMERAGQSGGGDW---VVR 133 Query: 122 NREFHLFIYSLAQRPVLLSIIERLWEQSERYRRILLIQPGMVDGSLNEHRRLVELMTHRQ 181 ++EFH I +L+QRP L+ I L E Y RI + EH ++ + Sbjct: 134 HQEFHGRICALSQRPKLIHQISALHVVIEPYMRIWFDDCNKPLSAREEHAAVIAALRSGD 193 Query: 182 AEEASRFLVEH 192 A A + + EH Sbjct: 194 AHHAEQVMQEH 204 >BMEI0106 [K] COG1802 Transcriptional regulators Length = 227 Score = 84.0 bits (206), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 66/211 (31%), Positives = 107/211 (50%), Gaps = 14/211 (6%) Query: 1 VYSILKQWVLSGELAPGERIDQDAVASRLGVSKMPVRSALDKLAAQDLVLLHSHRGVTVT 60 V L++ +LSGE+ G+R+ Q+ +A LGVS PVR AL LAA+ LV L + G Sbjct: 21 VADYLRKRMLSGEIRAGDRLKQNHLAEMLGVSSTPVREALRDLAAEGLVRLDARSGCVAR 80 Query: 61 PLSAQHLEDIYLVRCNLEGLAVQLATELLKPEDVTLLNNMIQKQEDLANHRNPDTEAILA 120 L+ Q EDIY R LE + ++ + PE ++++ E + +T+ ++ Sbjct: 81 GLTFQDAEDIYTARLALEPILLKRNFARITPE-------ILEECETINEKMRAETDLVVW 133 Query: 121 A--NREFHLFIYSLAQRPVLLSIIERLWEQSERYRRI-LLIQPGMVDGSLNEHRRLVELM 177 A N EFH+ + + + I+++L+E +E + I L + S +EHR L+E Sbjct: 134 ARLNNEFHMKLLGIDYPSRMTEIVQQLFEYAEPFVAISLYAHEEQLKRSYDEHRLLLE-- 191 Query: 178 THRQ--AEEASRFLVEHNRKTQQVVLSVMHN 206 HRQ E A+ L H R T ++ M + Sbjct: 192 KHRQNDLEAATELLYRHQRMTLSLIEKKMKD 222 >BMEII0281 [K] COG1802 Transcriptional regulators Length = 238 Score = 81.3 bits (199), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 55/196 (28%), Positives = 93/196 (47%), Gaps = 2/196 (1%) Query: 1 VYSILKQWVLSGELAPGERIDQDAVASRLGVSKMPVRSALDKLAAQDLVLLHSHRGVTVT 60 V L++ + +G+ APG + Q+ +A+ G+S+ P+R AL L LV+ RGV V Sbjct: 26 VAEALRERIYAGDYAPGAILRQEHIATEFGISRTPLREALRVLERDGLVIHLPGRGVRVA 85 Query: 61 PLSAQHLEDIYLVRCNLEGLAVQLATELLKPEDVTLLNNMIQKQEDLANHRNPDTEAILA 120 L D Y VR L+G+A + A E D+ L + Q+ + + +P +A Sbjct: 86 SADLTRLIDAYAVREVLDGVAARFAAERASDADIAKLRAHVAGQDKVVDPWDP--KAYTQ 143 Query: 121 ANREFHLFIYSLAQRPVLLSIIERLWEQSERYRRILLIQPGMVDGSLNEHRRLVELMTHR 180 +N +FH+ + + A L++ + L S+ + + ++ EH +VE + R Sbjct: 144 SNVDFHMAVMNTAGNASLIAFVPLLRMTSQVFAPSFSLSVDRARDAIREHAAIVEAIAAR 203 Query: 181 QAEEASRFLVEHNRKT 196 EEA R H R T Sbjct: 204 DGEEAERLARAHIRAT 219 >mll6782 [K] COG1802 Transcriptional regulators Length = 224 Score = 80.5 bits (197), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 55/193 (28%), Positives = 101/193 (52%), Gaps = 4/193 (2%) Query: 1 VYSILKQWVLSGELAPGERIDQDAVASRLGVSKMPVRSALDKLAAQDLVLLHSHRGVTVT 60 +Y ++ ++ G+L PGE I++ A+A LGVS+ PVR A+ +++ + LV + + G V Sbjct: 18 IYHKIRNLIVVGQLKPGEVINEVAIAEALGVSRTPVREAVKRISDEGLVKILAQTGTYVA 77 Query: 61 PLSAQHLEDIYLVRCNLEGLAVQLATELLKPEDVTLL-NNMIQKQEDLANHRNPDTEAIL 119 P+S LE+ Y++R LE + + A L P LL +NM + LA R AI Sbjct: 78 PISRADLEEAYVIRRALEMESARRAAAKLTPASAELLEDNMAAHK--LAISRGRYATAI- 134 Query: 120 AANREFHLFIYSLAQRPVLLSIIERLWEQSERYRRILLIQPGMVDGSLNEHRRLVELMTH 179 + FH I + P++ ++ Q +R R + + +PG + ++ +H +++ + Sbjct: 135 QLDDVFHRTIAEICGLPMIWRAVDISKAQMDRGRYLAIPKPGYGEQTIEQHEAILDALKR 194 Query: 180 RQAEEASRFLVEH 192 AE A++ + H Sbjct: 195 HDAEGAAQAMENH 207 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 0.319 0.133 0.371 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: 14,398,611 Number of extensions: 552957 Number of successful extensions: 1407 Number of sequences better than 1.0e-05: 72 Number of HSP's gapped: 1390 Number of HSP's successfully gapped: 72 Length of query: 213 Length of database: 38,378,431 Length adjustment: 102 Effective length of query: 111 Effective length of database: 26,614,363 Effective search space: 2954194293 Effective search space used: 2954194293 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 113 (48.1 bits)