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= 0578.0007.p (169 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KC01.1 B3KC01_9BACI Regulatory protein MarR 172 1e-41 Q6ZE66.1 Q6ZE66_SYNY3 MarR family transcriptional regulatory pro... 75 2e-12 O31541.1 YETL_BACSU Uncharacterized HTH-type transcriptional reg... 73 1e-11 C0ZJP3.1 C0ZJP3_BREBN Putative transcriptional regulator 71 3e-11 Q63FH6.1 Q63FH6_BACCZ Transcriptional regulator, MarR family 71 3e-11 >B3KC01.1 B3KC01_9BACI Regulatory protein MarR Length = 154 Score = 172 bits (435), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 84/131 (64%), Positives = 102/131 (77%) Query: 21 NIDGLQQFVLDLPLANEAFFALVETTAGLVAVSEKYWQAQGLNGARIRVLVEIAKQGGAI 80 +D LQ +VLDLPL AFF LVETTA LV VSE YW++QGLNGARIR+LVE+ K+GG + Sbjct: 6 TLDDLQHYVLDLPLPALAFFTLVETTAKLVDVSESYWKSQGLNGARIRILVELMKEGGTM 65 Query: 81 LPSGLASRIGVTKANISLLLTPLEKDGYISRTEHIRDGRKSVISLTEAGRALLSRHLPGN 140 LPS LA +IGVTK NISLLLTPLE++G I R H RDGRKSVI++T G+ LL +LP N Sbjct: 66 LPSKLAQKIGVTKPNISLLLTPLEQEGLIRRDPHPRDGRKSVITITSEGKHLLLHNLPAN 125 Query: 141 RETVAGKMNRL 151 R+ ++ KMN L Sbjct: 126 RQRISEKMNVL 136 >Q6ZE66.1 Q6ZE66_SYNY3 MarR family transcriptional regulatory protein Length = 174 Score = 74.7 bits (182), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 49/152 (32%), Positives = 78/152 (51%), Gaps = 2/152 (1%) Query: 16 PKREANIDGLQQFV-LDLPLANEAFFALVETTAGLVAVSEKYWQAQGLNGARIRVLVEIA 74 P+REA + F DL A ++TT + A +K+++ GL+ + +L+++ Sbjct: 5 PRREAFHELECDFSSFDLEAVGTCL-AFLDTTGEVYAAFDKHFERFGLSAGKFTILMQLY 63 Query: 75 KQGGAILPSGLASRIGVTKANISLLLTPLEKDGYISRTEHIRDGRKSVISLTEAGRALLS 134 + PS A+R VT+A I+ LL LE++G + R H D R I+LTE G+ L+ Sbjct: 64 TAKRGLSPSEFANRANVTRATITGLLDRLEREGLVERKAHSNDRRMLTITLTEQGKKLVE 123 Query: 135 RHLPGNRETVAGKMNRLDTDELRQLMALLHKL 166 R LP + G M L + E + + LL KL Sbjct: 124 RVLPEHFCRTKGLMTNLTSTEKKTFIKLLDKL 155 >O31541.1 YETL_BACSU Uncharacterized HTH-type transcriptional regulator yetL Length = 167 Score = 72.8 bits (177), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 41/128 (32%), Positives = 68/128 (53%), Gaps = 1/128 (0%) Query: 37 EAFFALVETTAGLVAVSEKYWQAQGLNGARIRVLVEIAK-QGGAILPSGLASRIGVTKAN 95 E F +L + + + V E Y+ +GL+ + ++L+ + + + P+ LA R VTKA Sbjct: 28 ELFLSLFDISKKMNHVMEHYFAGRGLSEGKFKILMLLFDAKDHRLSPTELAKRSNVTKAT 87 Query: 96 ISLLLTPLEKDGYISRTEHIRDGRKSVISLTEAGRALLSRHLPGNRETVAGKMNRLDTDE 155 I+ LL L +DG++SR H D RK I LT G+A L + LPG+ ++ M +E Sbjct: 88 ITGLLDGLARDGFVSRRHHTEDKRKISIELTTEGKARLEQFLPGHFSKISAVMENYSDEE 147 Query: 156 LRQLMALL 163 + +L Sbjct: 148 KDMFVKML 155 >C0ZJP3.1 C0ZJP3_BREBN Putative transcriptional regulator Length = 176 Score = 71.2 bits (173), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 50/161 (31%), Positives = 84/161 (52%), Gaps = 3/161 (1%) Query: 10 RQEDNKPKREANIDGLQQFVLDLPLANEAFFA--LVETTAGLVAVSEKYWQAQGLNGARI 67 +QED P + + ++ LD+ A A L+E A L +E ++ GL+ R Sbjct: 9 KQEDAIPSLVQSQRQIDRYGLDVD-AQAILVAARLMEAGAKLGHAAEIHFARFGLSTGRY 67 Query: 68 RVLVEIAKQGGAILPSGLASRIGVTKANISLLLTPLEKDGYISRTEHIRDGRKSVISLTE 127 R+L ++ GG +LPS LA +GVT+A ++ L+ LE+DG +SR +DGR+ + LTE Sbjct: 68 RLLADLEDNGGEVLPSQLAEHLGVTRATVTGLIDILERDGLVSRRASAKDGRQKSVMLTE 127 Query: 128 AGRALLSRHLPGNRETVAGKMNRLDTDELRQLMALLHKLNK 168 G + L P + + + L+T E + LL ++ + Sbjct: 128 LGASKLREMAPEHFARLEAMVGLLNTQERSVFLDLLGRVTQ 168 >Q63FH6.1 Q63FH6_BACCZ Transcriptional regulator, MarR family Length = 167 Score = 70.9 bits (172), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 39/128 (30%), Positives = 71/128 (55%), Gaps = 1/128 (0%) Query: 37 EAFFALVETTAGLVAVSEKYWQAQGLNGARIRVLVEIAK-QGGAILPSGLASRIGVTKAN 95 E F +L + + + V E+Y+ +GL+ + ++L+ + + ++ P+ LA + VTKA Sbjct: 28 ELFLSLFDISKKMNHVMERYFAGRGLSEGKFKILMLLFDAKDHSLSPTELAKQSNVTKAT 87 Query: 96 ISLLLTPLEKDGYISRTEHIRDGRKSVISLTEAGRALLSRHLPGNRETVAGKMNRLDTDE 155 I+ LL L +DG++SRT +D RK I LT+ G+ L + LPG+ ++ M +E Sbjct: 88 ITGLLDGLVRDGFVSRTHQNKDKRKISIELTKEGKEQLKQFLPGHFSKISAVMENYSDEE 147 Query: 156 LRQLMALL 163 + +L Sbjct: 148 KEMFINIL 155 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 0.316 0.134 0.367 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: 906,213,820 Number of extensions: 33633177 Number of successful extensions: 108645 Number of sequences better than 1.0e-05: 254 Number of HSP's gapped: 109213 Number of HSP's successfully gapped: 254 Length of query: 169 Length of database: 3,060,696,203 Length adjustment: 125 Effective length of query: 44 Effective length of database: 1,883,069,328 Effective search space: 82855050432 Effective search space used: 82855050432 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 (21.6 bits) S2: 126 (53.1 bits)