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= 0117.0004.p (301 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value C0Z6G9.1 C0Z6G9_BREBN Probable transcriptional regulator 171 1e-40 B3KEU7.1 B3KEU7_9BACI Regulatory protein ArsR 167 9e-40 Q9K7Z5.1 Q9K7Z5_BACHD BH3212 protein 167 1e-39 C3FW28.1 C3FW28_BACTB Putative uncharacterized protein 153 2e-35 C3DAI4.1 C3DAI4_BACTU Putative uncharacterized protein 153 2e-35 >C0Z6G9.1 C0Z6G9_BREBN Probable transcriptional regulator Length = 306 Score = 171 bits (432), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 96/298 (32%), Positives = 154/298 (51%), Gaps = 15/298 (5%) Query: 3 YKVEVDFAPMYECFTSLTAFLGRQNHNALESGKLWVKEVQKRFTTAQLRNMQEFSRENAD 62 Y + V+++P YEC SL ++ ++ G W++E +++ + F+ E AD Sbjct: 5 YSIRVEWSPAYECIISLYTYIYEKDRKHSLLGTAWLEETKQKLPAS-------FADELAD 57 Query: 63 ------FTLTPYIWSCPGDRSVSGFLDWFDGLSPGELFEITARFGSTVPSSLTDMRSQAS 116 L + P +SV FL W + + PGE++E A + T+P +L ++R ++ Sbjct: 58 ERWEVLHRLVLLVAQSPQTKSVEKFLGWLESIPPGEIYERLAPWVETIPLNLGEIRDRSL 117 Query: 117 GVLREWNERYFRDINPAILDSLSREADSRRAGLNGTNALEVYEQATQGMRLHPGERLKQI 176 +L WNE YF ++P IL+SL R AD A T +++ + T G+ + P L+++ Sbjct: 118 SLLTRWNEHYFSKMDPRILESLQRSADELTARAKETPPIDLVDHVTNGIWIEPMADLREV 177 Query: 177 ILIPQYHARPLVTSSLYDEFVFTSYACDALPPEEGRPAPSLLRLTRALSDETRLYILRLL 236 +LIPQYH Y Y + +P LL +T+ L+DE RL ILR L Sbjct: 178 VLIPQYHCAHSSVLDFYRGLATCMYPVKDAATTKPQPLLELLPITQCLADEKRLQILRCL 237 Query: 237 AGKQLGFTEIVRQVGLSKSTIHYHLITLRSAGLVIVHTSGKS--ASYSLRLDALNNLP 292 A K E+ +QV L+KST+H+H+ LR AGL+ H +G + + YSLR + LP Sbjct: 238 AKKTCTLGELQKQVSLAKSTVHHHVTALRRAGLIRAHYTGSTTISYYSLREAFVERLP 295 >B3KEU7.1 B3KEU7_9BACI Regulatory protein ArsR Length = 323 Score = 167 bits (424), Expect = 9e-40, Method: Compositional matrix adjust. Identities = 97/305 (31%), Positives = 155/305 (50%), Gaps = 10/305 (3%) Query: 1 MDYKVEVDFAPMYECFTSLTAFLGRQNHNALESGKLWVKEVQKRFTTAQLRNMQEFSREN 60 + Y++E+ F+P+ E SL +L + H ++ G W + V ++ +++ + Sbjct: 2 LSYQLELSFSPVNELINSLHTYLCKSWHKRIDLGPDWTQNVHASLSSEFADQLEQTGIDL 61 Query: 61 ADFTLTPYIWSCPGDRSVSGFLDWFDGLSPGELFEITARFGSTVPSSLTDMRSQASGVLR 120 L + P SV FL W L+ GEL+ + + + T P +R++ +L Sbjct: 62 EWKLLHLLAYVSPNKNSVEDFLSWLQKLTLGELYAVLSPYVQTFPEDFGAVRNRQHRMLS 121 Query: 121 EWNERYFRDINPAILDSLSREADSRRAGLNGTNALEVYEQA---TQGMRLHPGERLKQII 177 EWNE YF+ I+P I+ +L EA+ + G E YE+A T G P L++++ Sbjct: 122 EWNEVYFKHIDPGIVTALRAEAEEK----TGWGGFEAYEKAAALTNGFCFEPVNGLEKLV 177 Query: 178 LIPQYHARPLVTSSLYDEFVFTSYACDALP--PEEGRPAPSLLRLTRALSDETRLYILRL 235 LIP YH +P Y YA P EE P+ L RL R+LS+++RL IL Sbjct: 178 LIPHYHFQPGNIFYSYGSLTLCHYASRIWPHSEEEDEPSLQLYRLLRSLSEKSRLRILHF 237 Query: 236 LAGKQLGFTEIVRQVGLSKSTIHYHLITLRSAGLVIVHTSGKSAS-YSLRLDALNNLPQQ 294 L + F E+VR +G+SK H H+ LR AGL+ VH G++ S YSLR++ + + Q Sbjct: 238 LRSEPRTFIEVVRHLGISKGITHDHIFNLRCAGLLNVHVVGETVSTYSLRVERIQQIEQG 297 Query: 295 IADYM 299 + DY+ Sbjct: 298 LFDYL 302 >Q9K7Z5.1 Q9K7Z5_BACHD BH3212 protein Length = 298 Score = 167 bits (423), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 92/299 (30%), Positives = 155/299 (51%), Gaps = 5/299 (1%) Query: 3 YKVEVDFAPMYECFTSLTAFLGRQNHNALESGKLWVKEVQKRFTTAQLRNMQEFSRENAD 62 YK+E+D++P YE TSL +L N E G WVK+V+K A N + + Sbjct: 2 YKIEIDYSPAYELITSLYTYLDSSNRQISELGTKWVKQVEKSIN-ADFANELKDQKLEVL 60 Query: 63 FTLTPYIWSCPGDRSVSGFLDWFDGLSPGELFEITARFGSTVPSSLTDMRSQASGVLREW 122 L+ +W CP +++GFL W + L +++E+ + + + +++ +LR W Sbjct: 61 HRLSLLVWQCPHKETITGFLYWLEQLPSEKVYELLVPWVQQISKDMIQIQTYFVSLLRRW 120 Query: 123 NERYFRDINPAILDSLSREADSRRAGLNGTNALEVYEQATQGMRLHPGERLKQIILIPQY 182 NE+YF ++ IL+ L ++A + + + +++ EQ T GM + E + ++L+PQ+ Sbjct: 121 NEQYFCHLSEDILEMLQKDALKKTVLASQIDPVDLVEQCTNGMHIM-AENVDTLLLVPQF 179 Query: 183 HARPLVTSSLYDEFVFTSYACDALPPEEGRPAPSLLRLTRALSDETRLYILRLLAGKQLG 242 H P +D + Y D +G P L R ++L+DE RL ILR L K Sbjct: 180 HQSPFSVIDYFDGLITCLYPVDQ--ELKGEPPKKLERQMKSLADERRLKILRYLQEKPRT 237 Query: 243 FTEIVRQVGLSKSTIHYHLITLRSAGLVIVHTSGKSA-SYSLRLDALNNLPQQIADYME 300 F+EI + GL+K +HYH+ LR+AG + H + K YSLR ++L L + Y++ Sbjct: 238 FSEIQQFTGLAKGNVHYHIKLLRTAGFIRAHHNSKRVEKYSLRDESLVQLQDVLFRYVK 296 >C3FW28.1 C3FW28_BACTB Putative uncharacterized protein Length = 314 Score = 153 bits (387), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 86/301 (28%), Positives = 153/301 (50%), Gaps = 5/301 (1%) Query: 2 DYKVEVDFAPMYECFTSLTAFLGRQNHNALESGKLWVKEVQKRFTTAQLRNMQEFSRENA 61 +Y + ++ +P YE SL ++ + W++E + R + +Q+ R Sbjct: 10 EYSIVIEHSPAYELIISLYNYINNDKMKEVHLKGNWLEETKLRLPERFINELQD-ERWEV 68 Query: 62 DFTLTPYIWSCPGDRSVSGFLDWFDGLSPGELFEITARFGSTVPSSLTDMRSQASGVLRE 121 + I C S+ FL+WF+ LS GE++E A + ++ + L+ +R ++ +L + Sbjct: 69 LHRIVLLISQCEKKSSIPEFLNWFENLSAGEIYERLAPWVESISNDLSVIRDRSVDILYK 128 Query: 122 WNERYFRDINPAILDSLSREADSRRAGLNGTNALEVYEQATQGMRLHPGERLKQIILIPQ 181 WNE YF+ I+P I L ++A S L + +++ E AT G+R+ + L+++IL+PQ Sbjct: 129 WNEYYFKSIDPTIQMQLKQDAISLNEKLTVSRPIDIIETATNGLRIEQQDNLRKVILVPQ 188 Query: 182 YHARPLVTSSLYDEFVFTSYACDALPPEEGRPAPSLLRLTRALSDETRLYILRLLAGKQL 241 YH P +D Y + E+G L+++ + L DETRL IL L+ Sbjct: 189 YHCSPSTVLDYFDGIATCLYPINKTFYEDG--TKELVKVMQCLGDETRLNILIFLSRGPR 246 Query: 242 GFTEIVRQVGLSKSTIHYHLITLRSAGLVIVHTSGKS--ASYSLRLDALNNLPQQIADYM 299 EI + + L+KST+H+H+ L+ G++ H G S A YSLR +A++ + + Sbjct: 247 SLIEIHKHMNLAKSTVHHHITKLKREGIIRSHFIGSSIPAFYSLRKEAISKINNKFMAIF 306 Query: 300 E 300 E Sbjct: 307 E 307 >C3DAI4.1 C3DAI4_BACTU Putative uncharacterized protein Length = 314 Score = 153 bits (387), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 86/301 (28%), Positives = 153/301 (50%), Gaps = 5/301 (1%) Query: 2 DYKVEVDFAPMYECFTSLTAFLGRQNHNALESGKLWVKEVQKRFTTAQLRNMQEFSRENA 61 +Y + ++ +P YE SL ++ + W++E + R + +Q+ R Sbjct: 10 EYSIVIEHSPAYELIISLYNYINNDKMKEVHLKGNWLEETKLRLPERFINELQD-ERWEV 68 Query: 62 DFTLTPYIWSCPGDRSVSGFLDWFDGLSPGELFEITARFGSTVPSSLTDMRSQASGVLRE 121 + I C S+ FL+WF+ LS GE++E A + ++ + L+ +R ++ +L + Sbjct: 69 LHRIVLLISQCEKKSSIPEFLNWFENLSAGEIYERLAPWVESISNDLSVIRDRSVDILYK 128 Query: 122 WNERYFRDINPAILDSLSREADSRRAGLNGTNALEVYEQATQGMRLHPGERLKQIILIPQ 181 WNE YF+ I+P I L ++A S L + +++ E AT G+R+ + L+++IL+PQ Sbjct: 129 WNEYYFKSIDPTIQMQLKQDAISLNEKLTVSRPIDIIETATNGLRIEQQDNLRKVILVPQ 188 Query: 182 YHARPLVTSSLYDEFVFTSYACDALPPEEGRPAPSLLRLTRALSDETRLYILRLLAGKQL 241 YH P +D Y + E+G L+++ + L DETRL IL L+ Sbjct: 189 YHCSPSTVLDYFDGIATCLYPINKTFYEDG--TKELVKVMQCLGDETRLNILIFLSRGPR 246 Query: 242 GFTEIVRQVGLSKSTIHYHLITLRSAGLVIVHTSGKS--ASYSLRLDALNNLPQQIADYM 299 EI + + L+KST+H+H+ L+ G++ H G S A YSLR +A++ + + Sbjct: 247 SLIEIHKHMNLAKSTVHHHITKLKREGIIRSHFIGSSIPAFYSLRKEAISKINNKFMAIF 306 Query: 300 E 300 E Sbjct: 307 E 307 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 0.320 0.135 0.397 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: 1,752,220,552 Number of extensions: 70336410 Number of successful extensions: 184935 Number of sequences better than 1.0e-05: 95 Number of HSP's gapped: 185127 Number of HSP's successfully gapped: 95 Length of query: 301 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 166 Effective length of database: 1,788,859,178 Effective search space: 296950623548 Effective search space used: 296950623548 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: 131 (55.1 bits)