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= 0564.0061.p (180 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value C2MMD4.1 C2MMD4_BACCE Transcriptional regulator, MarR 162 1e-38 Q639S8.1 Q639S8_BACCZ Transcriptional regulator, MarR family 161 2e-38 B3KD07.1 B3KD07_9BACI Regulatory protein MarR 160 3e-38 B9J4D0.1 B9J4D0_BACCQ Transcriptional regulator, MarR family 157 5e-37 B7HVP1.1 B7HVP1_BACC7 Transcriptional regulator, MarR family 156 9e-37 >C2MMD4.1 C2MMD4_BACCE Transcriptional regulator, MarR Length = 173 Score = 162 bits (410), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 79/150 (52%), Positives = 106/150 (70%) Query: 9 LQEADYLFRKMVRRFVKERDRVSVEGIALPGMLILQKIIRDGEQRLGDLAEQLDFTSGAI 68 ++E D+LFRKMVR+FVKERD++ +EGI LPG+LIL KIIRDGEQRL DLAE+LDFTSGAI Sbjct: 23 IEETDWLFRKMVRKFVKERDKIKIEGIMLPGILILNKIIRDGEQRLTDLAEELDFTSGAI 82 Query: 69 TALSDKLEAGGHTVRRRKEDDRRTVLMGITEKGREMVERNGSIGERCIXXXXXXXXXXXX 128 TAL DKLE G +R+R ++DRR +L+ ITE G + ++RN I I Sbjct: 83 TALCDKLEERGLAIRKRHQEDRRIILLDITEDGLKFIKRNNKIRTSFISVLFDGFSTEEL 142 Query: 129 XQQSRFYERIIRNLEGFSETLLKLAQQNAE 158 Q+ ++R+ NLE S+T++KL+ +N E Sbjct: 143 QVQTEVFKRLAHNLEHLSDTIMKLSNENTE 172 >Q639S8.1 Q639S8_BACCZ Transcriptional regulator, MarR family Length = 159 Score = 161 bits (408), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 78/150 (52%), Positives = 106/150 (70%) Query: 9 LQEADYLFRKMVRRFVKERDRVSVEGIALPGMLILQKIIRDGEQRLGDLAEQLDFTSGAI 68 ++E D+LFRKMVR+FVKERD++ +EGI LPG+LIL KIIRDGEQRL DLAE+LDFTSGAI Sbjct: 9 IEETDWLFRKMVRKFVKERDKIKIEGIMLPGILILNKIIRDGEQRLTDLAEELDFTSGAI 68 Query: 69 TALSDKLEAGGHTVRRRKEDDRRTVLMGITEKGREMVERNGSIGERCIXXXXXXXXXXXX 128 TAL DKLE G +R+R ++DRR L+ ITE G + ++RN +I + Sbjct: 69 TALCDKLEERGLAIRKRHQEDRRITLLDITEDGLKFIKRNNNIRTSFMSVLFDGFSTEEL 128 Query: 129 XQQSRFYERIIRNLEGFSETLLKLAQQNAE 158 Q+ ++R+ NLE S+T++KL+ +N E Sbjct: 129 QVQTEVFKRLAHNLEHLSDTIMKLSNENTE 158 >B3KD07.1 B3KD07_9BACI Regulatory protein MarR Length = 180 Score = 160 bits (406), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 89/181 (49%), Positives = 125/181 (69%), Gaps = 2/181 (1%) Query: 1 MDDKQWERLQEADYLFRKMVRRFVKERDRVSVEGIALPGMLILQKIIRDGEQRLGDLAEQ 60 M++ W ++EAD+ FRKMVRRFVKERD++S+EG++LPG+LIL I+RDGEQ+LG+LAEQ Sbjct: 1 MEEADWALMEEADWHFRKMVRRFVKERDKISIEGVSLPGLLILNTILRDGEQKLGELAEQ 60 Query: 61 LDFTSGAITALSDKLEAGGHTVRRRKEDDRRTVLMGITEKGREMVERNGSIGERCIXXXX 120 LDFTSGA+TAL DKLEA G VRRR E DRR++++ IT+ GREMV+RN IG R I Sbjct: 61 LDFTSGAVTALCDKLEACGFAVRRRSESDRRSIVLDITDAGREMVKRNEYIGGRSIERIF 120 Query: 121 XXXXXXXXXQQSRFYERIIRNLEGFSETLLKLAQQNAEAPVPQAPEQKPRTAAKKN-YLS 179 ++ER+ +LEGFS+ +L+ + + + P + P + + N ++S Sbjct: 121 GIFSHEELRDLIHYFERLNDHLEGFSDFVLRPPRPSFDTPA-AIDQSNPGSLKRSNKFIS 179 Query: 180 Y 180 Y Sbjct: 180 Y 180 >B9J4D0.1 B9J4D0_BACCQ Transcriptional regulator, MarR family Length = 159 Score = 157 bits (396), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 77/150 (51%), Positives = 104/150 (69%) Query: 9 LQEADYLFRKMVRRFVKERDRVSVEGIALPGMLILQKIIRDGEQRLGDLAEQLDFTSGAI 68 ++E D+LFRKMVR+FVKERD++ +EGI LPG+LIL KIIRDGEQRL DLAE+LDFTSGAI Sbjct: 9 IEETDWLFRKMVRKFVKERDKIKIEGIMLPGILILNKIIRDGEQRLTDLAEELDFTSGAI 68 Query: 69 TALSDKLEAGGHTVRRRKEDDRRTVLMGITEKGREMVERNGSIGERCIXXXXXXXXXXXX 128 TAL DKLE G +R+R ++DRR L+ ITE G + ++RN I + Sbjct: 69 TALCDKLEERGLAIRKRHQEDRRITLLDITEDGLKFIKRNNKIRTSFMSVLFDGFSIEEL 128 Query: 129 XQQSRFYERIIRNLEGFSETLLKLAQQNAE 158 Q+ ++R+ NLE S+ ++KL+ +N E Sbjct: 129 HVQAEIFKRLAYNLEHLSDRIMKLSNENTE 158 >B7HVP1.1 B7HVP1_BACC7 Transcriptional regulator, MarR family Length = 173 Score = 156 bits (394), Expect = 9e-37, Method: Compositional matrix adjust. Identities = 77/150 (51%), Positives = 104/150 (69%) Query: 9 LQEADYLFRKMVRRFVKERDRVSVEGIALPGMLILQKIIRDGEQRLGDLAEQLDFTSGAI 68 ++E D+LFRKMVR+FVKERD++ +EGI LPG+LIL KIIRDGEQRL DLAE+LDFTSGAI Sbjct: 23 IEETDWLFRKMVRKFVKERDKIKIEGIMLPGILILNKIIRDGEQRLTDLAEELDFTSGAI 82 Query: 69 TALSDKLEAGGHTVRRRKEDDRRTVLMGITEKGREMVERNGSIGERCIXXXXXXXXXXXX 128 TAL DKLE G +R+R ++DRR L+ ITE G + ++RN I + Sbjct: 83 TALCDKLEERGLAIRKRHQEDRRITLLDITEDGLKFIKRNNKIRTSFMSVLFDGFSIEEL 142 Query: 129 XQQSRFYERIIRNLEGFSETLLKLAQQNAE 158 Q+ ++R+ NLE S+ ++KL+ +N E Sbjct: 143 HVQAEIFKRLAYNLEHLSDRIMKLSNENTE 172 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 0.318 0.135 0.376 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: 926,091,730 Number of extensions: 31675830 Number of successful extensions: 113763 Number of sequences better than 1.0e-05: 135 Number of HSP's gapped: 113856 Number of HSP's successfully gapped: 135 Length of query: 180 Length of database: 3,060,696,203 Length adjustment: 127 Effective length of query: 53 Effective length of database: 1,864,227,298 Effective search space: 98804046794 Effective search space used: 98804046794 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: 126 (53.1 bits)