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= 0599.0084.p (181 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Q2B657.1 Q2B657_9BACI YwkC 84 4e-15 Q65DU9.1 RACA_BACLD Chromosome-anchoring protein racA 78 3e-13 Q5WGB8.1 RACA_BACSK Chromosome-anchoring protein racA 77 9e-13 C5D7Q8.1 C5D7Q8_9BACI Transcriptional regulator, MerR family 74 5e-12 C3J1M4.1 C3J1M4_9BACI Transcriptional regulator, MerR family 73 1e-11 >Q2B657.1 Q2B657_9BACI YwkC Length = 171 Score = 84.3 bits (207), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 53/175 (30%), Positives = 94/175 (53%), Gaps = 8/175 (4%) Query: 4 LKTKDAAELLSVSQTTIKRWAAMFPDYFPKDRFGHYIFSEQEISLLKSIKERINHGEVLE 63 + T AA L VS +TI+RW F ++ GHY F E ++ +LK I+ +I +G ++ Sbjct: 3 MNTNKAASSLGVSPSTIQRWVKQFGLEVGRNELGHYHFEEDQLEILKDIQSQIQNGALVH 62 Query: 64 YMNLGSAAGIQPPVSQQENPLHHTQDWPMGDMLSRIDYIERSLDHKADEVVSVQLLQQRA 123 + L + P +Q+N H Q + D ++++D LD KAD+VVS QLLQ R Sbjct: 63 EVKLSVQ---KTPEVKQQNEDHSVQIKELADKVTQLD---SRLDSKADDVVSYQLLQHRR 116 Query: 124 ELEDLRQMIKQLAVSLETIQKPGAPSLSSHDELHPVAAKKLKTPPRKRGLLRNIF 178 E+EDL+ + Q+A + ++ + +++ D+L +K +K+ ++ +F Sbjct: 117 EIEDLKTQLLQMAEKVAQLE--ASSQIAASDQLPVFDHPSIKRSWKKKNIISMLF 169 >Q65DU9.1 RACA_BACLD Chromosome-anchoring protein racA Length = 186 Score = 78.2 bits (191), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 51/150 (34%), Positives = 75/150 (50%), Gaps = 18/150 (12%) Query: 4 LKTKDAAELLSVSQTTIKRWAAMFPDYFPKDRFGHYIFSEQEISLLKSIKERINHGEVLE 63 + T DAA L VS T++RW ++ GHY F+E +I++LK +KE++ +G ++ Sbjct: 1 MNTADAANELGVSTKTVQRWVKQLQLPASRNELGHYFFTEDDIAILKEVKEQLKNGTPMQ 60 Query: 64 YMNLGSAAGI------------QPPVSQQENPLHHTQDWPMGDMLSR------IDYIERS 105 + + +P + E Q + + L R I +ER Sbjct: 61 DVTVKRPKKTFFIKKNEMIQTKEPALQLNERLEERLQRFLEHEQLERELLQKKIAELERK 120 Query: 106 LDHKADEVVSVQLLQQRAELEDLRQMIKQL 135 L+ KADEVVS QLLQQR ELE+ RQ IK L Sbjct: 121 LEQKADEVVSYQLLQQRRELEEERQQIKHL 150 >Q5WGB8.1 RACA_BACSK Chromosome-anchoring protein racA Length = 171 Score = 76.6 bits (187), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 59/183 (32%), Positives = 97/183 (53%), Gaps = 20/183 (10%) Query: 4 LKTKDAAELLSVSQTTIKRWAAMFPDYFPKDRFGHYIFSEQEISLLKSIKERINHGEVLE 63 +KTK+ +E + V+ TTI+RW F GH++++E+ + L K IK ++ G+ ++ Sbjct: 1 MKTKEMSEAIGVNPTTIQRWTKYFKIDCDVTEQGHFLYTEKHLQLFKKIKRELDEGKRMK 60 Query: 64 YMNLGSAAGI-QP--PVSQQENPLHHTQDWPMGDMLSRIDYIERSLDHKADEVVSVQLLQ 120 +NL G +P P Q E L ML ++D +E L KAD+VVS QLL+ Sbjct: 61 DINLNERQGQGEPSVPTKQYEAKLE--------KMLVQVDALEEKLATKADDVVSYQLLK 112 Query: 121 QRAELEDLRQMIKQLAVSLETIQKPGAPSLSSHDELHPVAAKKLKTPPR-KRGLLR---N 176 R+EL+++ +++ L L I+K +S H + V + TP + KRG R N Sbjct: 113 HRSELDEMMKLVGTLEDRLLFIEK---RMMSHHHQEKQVVNE--HTPKKIKRGPWRSFMN 167 Query: 177 IFS 179 +F+ Sbjct: 168 LFA 170 >C5D7Q8.1 C5D7Q8_9BACI Transcriptional regulator, MerR family Length = 168 Score = 74.3 bits (181), Expect = 5e-12, Method: Compositional matrix adjust. Identities = 56/181 (30%), Positives = 85/181 (46%), Gaps = 30/181 (16%) Query: 4 LKTKDAAELLSVSQTTIKRWAAMFPDYFPKDRFGHYIFSEQEISLLKSIKERINHGEVLE 63 LKT A+ L VS TI+RW + K+ GHY+F + ++LL+ IK G LE Sbjct: 3 LKTSSVAKRLGVSPKTIQRWVKKYNVPCQKNEAGHYVFDAEAVALLEQIK--FEQGAALE 60 Query: 64 YMNLGSAAGIQPPVSQQENPLH--------HTQDWP-MGDMLSRIDYIERSLDHKADEVV 114 P QENP H + P + + SR+ IE+ L+ KAD++V Sbjct: 61 ------------PCINQENPQHPFSADELFNVYIEPHLNEFTSRLQNIEQKLNEKADDIV 108 Query: 115 SVQLLQQRAELEDLRQMIKQLAVSLETIQKPGAPSLSSHDELHPVAAKKLKTPPRKRGLL 174 SVQLL R E+E+ LA L ++++ A + + + K P++RG+ Sbjct: 109 SVQLLHHRREIEE-------LASQLHSLEQRIARLEEDVNREQAIITENAKQKPKRRGIS 161 Query: 175 R 175 R Sbjct: 162 R 162 >C3J1M4.1 C3J1M4_9BACI Transcriptional regulator, MerR family Length = 172 Score = 72.8 bits (177), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 47/145 (32%), Positives = 74/145 (51%), Gaps = 9/145 (6%) Query: 4 LKTKDAAELLSVSQTTIKRWAAMFPDYFPKDRFGHYIFSEQEISLLKSIKERINHGEVLE 63 LKT D A L VS TI+RW + ++ GHY+F E+ ++LL+ +K G +E Sbjct: 3 LKTSDVAARLGVSPKTIQRWVRKYDIPLRRNEAGHYLFDEKTVALLERVK--FEQGAAME 60 Query: 64 YMNLGSAAGIQPPVSQQENPLHHTQDWPMGDMLSRIDYIERSLDHKADEVVSVQLLQQRA 123 + + LH + + + + SR+D +ER L+ KAD+VVS+QLL R Sbjct: 61 APPTPKRPPTPLRNNIPIDALHESIEPEIARVSSRLDQLERQLEQKADDVVSIQLLHHRQ 120 Query: 124 ELED-------LRQMIKQLAVSLET 141 E+E+ L Q++ +L L T Sbjct: 121 EMEEIVARLTALEQLVARLEQQLNT 145 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 0.317 0.133 0.381 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: 1,018,718,918 Number of extensions: 37429961 Number of successful extensions: 119541 Number of sequences better than 1.0e-05: 25 Number of HSP's gapped: 119516 Number of HSP's successfully gapped: 26 Length of query: 181 Length of database: 3,060,696,203 Length adjustment: 127 Effective length of query: 54 Effective length of database: 1,864,227,298 Effective search space: 100668274092 Effective search space used: 100668274092 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 (21.7 bits) S2: 127 (53.5 bits)