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= 0443.0031.p (350 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K596.1 B3K596_9BACI Cell envelope-related function transcripti... 408 e-112 B1D8U4.1 B1D8U4_9BACL Cell envelope-related transcriptional atte... 340 1e-91 B3K942.1 B3K942_9BACI Cell envelope-related function transcripti... 296 2e-78 C0ZJY3.1 C0ZJY3_BREBN Putative regulatory protein 265 3e-69 B1I6B7.1 B1I6B7_DESAP Cell envelope-related transcriptional atte... 188 8e-46 >B3K596.1 B3K596_9BACI Cell envelope-related function transcriptional attenuator, LytR/CpsA family Length = 362 Score = 408 bits (1049), Expect = e-112, Method: Compositional matrix adjust. Identities = 196/292 (67%), Positives = 234/292 (80%), Gaps = 1/292 (0%) Query: 35 VYYFAEIYNQMDNLHKTGEDSPFAAIPSPSAETVQPPKWEGTEPVNILLMGVDARGVKKG 94 +YY A Y+ + +L KTGE SPF I A+ PP+WEG E VNILLMGVDARG ++G Sbjct: 25 IYYAASFYDGLQSLQKTGEASPFREIEKVDAKVPAPPEWEGKETVNILLMGVDARGFEEG 84 Query: 95 EVPRSDTMLVASLDPVKKKFYVFSILRDTYVSIPEHGKERINTAITHGPNTAMQTVSELL 154 E+PRSD+MLVAS+DPVKKK ++FSILRDTYV IP + + RINTAITHGPNTAM+ V +LL Sbjct: 85 EIPRSDSMLVASIDPVKKKMHLFSILRDTYVEIPGYDRNRINTAITHGPNTAMKAVGDLL 144 Query: 155 GIPIQYYVYTDFQGFIKLVDAVGGVDYEVEKDMVYKTKADGPEYDIDLKKGFQHLDGSMA 214 GIPIQYYVYTDFQGF+KLVD+VGGVD+ VEKDM Y +KAD EYDIDLK+G QHLDG+ A Sbjct: 145 GIPIQYYVYTDFQGFMKLVDSVGGVDFYVEKDMSYSSKADKNEYDIDLKQGMQHLDGNAA 204 Query: 215 LQYVRFRHDATSDFTRTERQRGFLKAVADKVISTTSIIKLPNILSQVTPYIDTNLDVNDM 274 LQYVRFR+DA DFTRTERQR LKAVA K+ +TTSI+KLP+IL V+PYIDTNLDV DM Sbjct: 205 LQYVRFRYDAMGDFTRTERQRELLKAVAKKMQTTTSIMKLPDILKSVSPYIDTNLDVEDM 264 Query: 275 WKLATVGYDSSMGGSAQIPPMNLLTEEKTSGGSAVLGISSENKLKKFVQDTL 326 WKLA V Y S M GS Q+PPM LL EE GG+AVL + + + LK+++QD + Sbjct: 265 WKLANVAYKSKMSGSEQVPPMKLLKEEHI-GGAAVLTVGNPDTLKQYIQDIM 315 >B1D8U4.1 B1D8U4_9BACL Cell envelope-related transcriptional attenuator Length = 351 Score = 340 bits (872), Expect = 1e-91, Method: Compositional matrix adjust. Identities = 173/294 (58%), Positives = 218/294 (74%), Gaps = 5/294 (1%) Query: 35 VYYFAEIYNQMDNLHKTGEDSPFAAIPSPSAETVQ-PPKWEGTEPVNILLMGVDARGVKK 93 VY+ +Y+ +DN K EDS F + + TV+ PPKWEG E VNILL+G DARG+++ Sbjct: 31 VYWGTGVYSSLDNFSKDKEDSRFGQFENNT--TVEAPPKWEGKERVNILLLGGDARGLEE 88 Query: 94 GEVPRSDTMLVASLDPVKKKFYVFSILRDTYVSIPEHGKERINTAIT-HGPNTAMQTVSE 152 +VPRSD++++AS DPV KK ++FS+LRDTYV I HGK RINTAIT GP AM+TV + Sbjct: 89 NQVPRSDSIMIASFDPVTKKAHLFSVLRDTYVDIEGHGKGRINTAITLGGPQLAMKTVGD 148 Query: 153 LLGIPIQYYVYTDFQGFIKLVDAVGGVDYEVEKDMVYKTKADGPEYDIDLKKGFQHLDGS 212 LLG+ IQYYVYTDF+GF LVD +GGV ++VEKDM Y AD +YDIDLKKG+Q LDG Sbjct: 149 LLGLDIQYYVYTDFEGFKALVDTIGGVYFDVEKDMHYTDNADKNKYDIDLKKGYQLLDGD 208 Query: 213 MALQYVRFRHDATSDFTRTERQRGFLKAVADKVISTTSIIKLPNILSQVTPYIDTNLDVN 272 ALQYVRFRHDA SDFTRTERQR FL AVADK+ S +I+++ IL V+PYI+TNL V Sbjct: 209 KALQYVRFRHDAMSDFTRTERQREFLGAVADKLKSGWNIVQMKKILDSVSPYIETNLQVT 268 Query: 273 DMWKLATVGYDSSMGGSAQIPPMNLLTEEKTSGGSAVLGISSENKLKKFVQDTL 326 DM KL +G DS + G+ QIPPM+ + EE GG+AV+G+ ++LK VQDTL Sbjct: 269 DMLKLGQLGVDSHLAGTQQIPPMDDIAEEHV-GGAAVIGVRDLDELKASVQDTL 321 >B3K942.1 B3K942_9BACI Cell envelope-related function transcriptional attenuator, LytR/CpsA family Length = 318 Score = 296 bits (758), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 154/272 (56%), Positives = 193/272 (70%), Gaps = 8/272 (2%) Query: 56 PFAAIPSPSAETVQPPKWEGTEPVNILLMGVDARGVKKGEVPRSDTMLVASLDPVKKKFY 115 P + + E ++ PKWEG E VNILL+G D+RG G RSDTMLVAS+DPV K + Sbjct: 44 PTGSTGAAQEEVIEIPKWEGKERVNILLIGGDSRGDDAG---RSDTMLVASIDPVTKSAH 100 Query: 116 VFSILRDTYVSIPEHGKERINTAITHGP-NTAMQTVSELLGIPIQYYVYTDFQGFIKLVD 174 +FSILRDTYV IP HGK R+N+A +G QT+S+LL +PI YVYTDF GFI LVD Sbjct: 101 LFSILRDTYVDIPGHGKGRLNSAFAYGGIELTRQTISDLLDLPIHKYVYTDFVGFIALVD 160 Query: 175 AVGGVDYEVEKDMVYKTKADGPEYDIDLKKGFQHLDGSMALQYVRFRHDATSDFTRTERQ 234 A+GGVD EVEKDM Y +KAD YDIDLK+G QHLDG MALQYVRFRHDA SDF RTERQ Sbjct: 161 AIGGVDIEVEKDMYYTSKADKHMYDIDLKQGLQHLDGKMALQYVRFRHDARSDFARTERQ 220 Query: 235 RGFLKAVADKVISTTSIIKLPNILSQVTPYIDTNLDVNDMWKLATVGYDSSMG--GSAQI 292 R + VA K+ +T S+IKLP IL + PYI+T+L +M KL +G+D ++ QI Sbjct: 221 RILMTEVAKKMQTTNSLIKLPGILDSIAPYIETDLSPKEMLKLMALGFDVNLDKVDQQQI 280 Query: 293 PPMNLLTEEKTSGGSAVLGISSENKLKKFVQD 324 PP +LLT EK G + VLG+ +NKL+++V++ Sbjct: 281 PPFSLLTNEKV-GRAQVLGV-DKNKLRQYVKE 310 >C0ZJY3.1 C0ZJY3_BREBN Putative regulatory protein Length = 328 Score = 265 bits (678), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 137/294 (46%), Positives = 191/294 (64%), Gaps = 9/294 (3%) Query: 36 YYFAEIYNQMDNLHKTGEDSPFAAIPSPSAETVQPPKWEGTEPVNILLMGVDARGVKKGE 95 YY Y N+ + P + +AE P+W+G E VNILLMGVD RG+K Sbjct: 21 YYGYSFYQFAQNIQEPNIAPPSGGNSTKAAEI---PEWDGKERVNILLMGVDRRGMKNNG 77 Query: 96 VPRSDTMLVASLDPVKKKFYVFSILRDTYVSIPEHGKERINTAITHG-PNTAMQTVSELL 154 +PRSD+M++ S+DP K++ +FSILRDTYV IP G RIN+AI G P AM+TVS+ Sbjct: 78 LPRSDSMMLVSIDPTGKRYDMFSILRDTYVDIPGRGSSRINSAIVEGGPELAMETVSQFT 137 Query: 155 GIPIQYYVYTDFQGFIKLVDAVGGVDYEVEKDMVYKTKADGPEYDIDLKKGFQHLDGSMA 214 G+ + YV TDF+GF L+DAVGGV +VEK+M Y D YDI+LKKG Q L+G A Sbjct: 138 GLQVDRYVITDFEGFKALIDAVGGVQIDVEKNMYYHDPTDKGVYDINLKKGLQKLNGDKA 197 Query: 215 LQYVRFRHDATSDFTRTERQRGFLKAVADKVISTTSIIKLPNILSQVTPYIDTNLDVNDM 274 LQYVRFRHDATSD+TRTERQR + AV D++ + T++++LP IL +VTPY+ TN+ DM Sbjct: 198 LQYVRFRHDATSDYTRTERQRKLMTAVVDQMKNGTTLMQLPTILKEVTPYVQTNISSVDM 257 Query: 275 WKLATVG--YDSSMGGSAQIPPMNLLTEEKTSGGSAVLGISSENKLKKFVQDTL 326 KL+ +G ++ G+ Q+PPM + E +G V + ++++ F+Q+ + Sbjct: 258 LKLSALGLKLNTLEPGNYQLPPMGMFRESHRAGSVLVPDV---DQVQSFIQEKI 308 >B1I6B7.1 B1I6B7_DESAP Cell envelope-related transcriptional attenuator Length = 411 Score = 188 bits (477), Expect = 8e-46, Method: Compositional matrix adjust. Identities = 93/204 (45%), Positives = 138/204 (67%), Gaps = 5/204 (2%) Query: 79 VNILLMGVDARGVKKGE-VPRSDTMLVASLDPVKKKFYVFSILRDTYVSIPEHGKERINT 137 +N+LL+G+DA +KGE + R+D++L S DP K++ + SI RDT V IP HG ++IN+ Sbjct: 59 MNVLLLGIDA---QKGETIARADSILFVSADPKKQQVAILSIPRDTRVQIPGHGWDKINS 115 Query: 138 AITHG-PNTAMQTVSELLGIPIQYYVYTDFQGFIKLVDAVGGVDYEVEKDMVYKTKADGP 196 A +G P A + VS LLG+P+ YYV T+F+GF +VD +GGV +VE+ M Y+ P Sbjct: 116 ATVYGGPELARKVVSGLLGVPVDYYVMTNFEGFRDIVDVLGGVTIDVERRMYYRDPMASP 175 Query: 197 EYDIDLKKGFQHLDGSMALQYVRFRHDATSDFTRTERQRGFLKAVADKVISTTSIIKLPN 256 IDL+ G Q LDG ALQYVR+R D D TRT+RQ+ FLKA+A++++ +I+KLP Sbjct: 176 PLLIDLQAGVQRLDGDKALQYVRYRSDGQGDITRTQRQQKFLKALAEEMMKPRNIVKLPK 235 Query: 257 ILSQVTPYIDTNLDVNDMWKLATV 280 ++ ++ +DTNL V +M + A + Sbjct: 236 LVPKIDECVDTNLSVREMLRWAAL 259 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 0.388 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: 1,774,056,051 Number of extensions: 72417002 Number of successful extensions: 174663 Number of sequences better than 1.0e-05: 1953 Number of HSP's gapped: 170080 Number of HSP's successfully gapped: 1953 Length of query: 350 Length of database: 3,060,696,203 Length adjustment: 136 Effective length of query: 214 Effective length of database: 1,779,438,163 Effective search space: 380799766882 Effective search space used: 380799766882 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: 132 (55.5 bits)