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= 0172.0004.p (364 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KG62.1 B3KG62_9BACI Cell envelope-related function transcripti... 387 e-105 B1DBV7.1 B1DBV7_9BACL Cell envelope-related transcriptional atte... 250 2e-64 C0ZGY2.1 C0ZGY2_BREBN Putative regulatory protein 191 1e-46 A9U6J3.1 A9U6J3_PHYPA Predicted protein 188 6e-46 C0ZG79.1 C0ZG79_BREBN Putative regulatory protein 148 8e-34 >B3KG62.1 B3KG62_9BACI Cell envelope-related function transcriptional attenuator, LytR/CpsA family Length = 367 Score = 387 bits (993), Expect = e-105, Method: Compositional matrix adjust. Identities = 187/300 (62%), Positives = 233/300 (77%), Gaps = 10/300 (3%) Query: 62 GYAGYLYWKFDH--GSFGVDKPVQAGHSAAERPITMLLLGTDNRPKHPSNLTDVIMVAAL 119 GYAGYL++K + G+DKPV GHSA E+PIT+LLLGTD+RP+ + LTDV+MVA++ Sbjct: 51 GYAGYLFFKGNQVIEKSGIDKPVAPGHSAKEKPITVLLLGTDHRPETGTYLTDVVMVASM 110 Query: 120 NPTTQSATVVSLPRDTYVELSGYKKTKINEFYARFKSKEKT-------SGIPAEDEMKKM 172 +P T ++T+VSLPRDT +EL GYK TK+N +Y RFK+ K SGIPAE+EMK M Sbjct: 111 HPETNTSTLVSLPRDTLIELEGYKATKLNAYYPRFKAAYKAAEKKEPGSGIPAEEEMKVM 170 Query: 173 MGKYLDIDVDYATVLDFQGFRDVVDELGGVDVNISENMCYTDSVDGTDINLTKGPARLDG 232 M KYL +++DY TV+DFQGFRDVVD GGVDVN+ NMC+ DSVDGTDINLT GP +LDG Sbjct: 171 MSKYLGVNIDYVTVIDFQGFRDVVDTFGGVDVNVQYNMCHRDSVDGTDINLTVGPQKLDG 230 Query: 233 DDALDYVRYRKS-NCRPKTKASDDFDRNKRQNEVLNSLVGQMQSLGGVLKIGKVLDAVDD 291 ALDYVRYRKS NC PKTK S+DFDRN RQ+EVL+SL+ +M+S GGV K+G LDAV D Sbjct: 231 KKALDYVRYRKSMNCNPKTKESNDFDRNARQSEVLHSLLDKMKSFGGVTKVGNALDAVSD 290 Query: 292 NMKTDIENEQIKNIISAYWKISKENIEFKPVTGTWRSPYVYINDKELEAAKQSLHDRIAG 351 NM TD E EQI+N+++ Y+ I KE+++F P+TG WRSP VYIN EL AAKQ+L D +AG Sbjct: 291 NMTTDFEQEQIRNLLATYYDIGKEDVKFMPITGEWRSPNVYINANELNAAKQALQDELAG 350 >B1DBV7.1 B1DBV7_9BACL Cell envelope-related transcriptional attenuator Length = 348 Score = 250 bits (638), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 125/280 (44%), Positives = 190/280 (67%), Gaps = 10/280 (3%) Query: 79 DKPVQAGHSAAERPITMLLLGTDNRPKHPSNLTDVIMVAALNPTTQSATVVSLPRDTYVE 138 D + S ++ + M+LLG D R K TDV+MVA NP T+SATV+S+PRD+ + Sbjct: 70 DVKIPTAESVKKKAVGMVLLGLDTRAKGGGMNTDVMMVAVFNPNTKSATVISIPRDSLLM 129 Query: 139 LSGYKKTKINEFYARFKSKEKTS-GI---PAEDEMKK----MMGKYLDIDVDYATVLDFQ 190 L GY + K N YA F S+ ++ G+ AE++ K+ M+GKY +D+ Y V++F+ Sbjct: 130 LDGYGERKANANYATFFSQARSEKGLDKEAAEEDAKRAIRDMLGKYFGVDLKYTAVVNFK 189 Query: 191 GFRDVVDELGGVDVNISENMCYTDSVDGTDINLTKGPARLDGDDALDYVRYRKSNCRPKT 250 GF DVVD LGG++VN+ +M Y D+ DGT+INL KG +L+GD ALD+VRYRKSN Sbjct: 190 GFEDVVDALGGIEVNVDMDMKYVDNYDGTNINLKKGFQKLNGDQALDFVRYRKSN--DGK 247 Query: 251 KASDDFDRNKRQNEVLNSLVGQMQSLGGVLKIGKVLDAVDDNMKTDIENEQIKNIISAYW 310 S DFDRNKR++EV+ +V +M+SL G+ K+G+V+DAV DNM+ D+ ++I+N++ Y+ Sbjct: 248 NMSSDFDRNKRESEVVAKIVDKMKSLNGITKMGEVIDAVGDNMEIDMPPKEIQNLMKTYF 307 Query: 311 KISKENIEFKPVTGTWRSPYVYINDKELEAAKQSLHDRIA 350 IS +++F P+ G W+SPYVY+++ +L A+ +L ++A Sbjct: 308 GISSSDVQFIPLEGVWKSPYVYLDEAKLSEARAALQAKMA 347 >C0ZGY2.1 C0ZGY2_BREBN Putative regulatory protein Length = 478 Score = 191 bits (484), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 115/343 (33%), Positives = 182/343 (53%), Gaps = 24/343 (6%) Query: 27 ARTVQKKKPVKKRGALARTGKMXXXXXXXXXXXXXGYAGYLYWKFDHGSFGVDKPVQAGH 86 A +KK+P + R + K+ G AG +YWK + V P +G Sbjct: 10 ASASRKKQPSRNR----KIRKLVVSITLMTLLLVGGVAGAIYWKIEDTLTEVTNPANSGF 65 Query: 87 SA-----------AERPITMLLLGTDNRPKHPSNLTDVIMVAALNPTTQSATVVSLPRDT 135 ++ +++P++ +LLG+D+RP+ S TDV++VA NP T+ T+VS+PRDT Sbjct: 66 TSPVSQNTDPVYYSDKPMSFVLLGSDSRPETGSMNTDVMIVAVANPKTKKVTMVSIPRDT 125 Query: 136 YVELSGYKK-TKINEFYARFKSK----EKTSGIPAEDEM---KKMMGKYLDIDVDYATVL 187 V++ GY+ KIN YA +++ E+ + ED + KK + + L I +++ + Sbjct: 126 RVKIPGYRDYHKINSVYANGEAERRQAERKNQTVTEDGISLTKKTLNEILGIPIEHFVAI 185 Query: 188 DFQGFRDVVDELGGVDVNISENMCYTDSVDGTDINLTKGPARLDGDDALDYVRYRKSNCR 247 DF GF+ V+DELGGV+VN+ + Y D D T INL G +L+G+ AL YVR+R N R Sbjct: 186 DFDGFKAVIDELGGVEVNVDRRLVYDDPTDDTHINLQPGLQKLNGEQALGYVRHRHDN-R 244 Query: 248 PKTKASDDFDRNKRQNEVLNSLVGQMQSLGGVLKIGKVLDAVDDNMKTDIENEQIKNIIS 307 S DFDRN+RQ EV+ ++V + SL G+ KI V+D N+ TD+ +QIK + Sbjct: 245 GTKYYSSDFDRNRRQQEVIKAVVDKTASLEGLTKIFNVMDVGAKNIHTDLSKDQIKGLAY 304 Query: 308 AYWKISKENIEFKPVTGTWRSPYVYINDKELEAAKQSLHDRIA 350 + + + W Y Y+ ++LE + SL + Sbjct: 305 DFKGFNSSTVTALDNGAYWSGGYTYLEKEKLETVRNSLQSEMG 347 >A9U6J3.1 A9U6J3_PHYPA Predicted protein Length = 1020 Score = 188 bits (478), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 112/312 (35%), Positives = 175/312 (56%), Gaps = 21/312 (6%) Query: 62 GYAGYLYWKFDHGSFGVDKPVQAGHSAA----------ERPITMLLLGTDNRPKHPSNLT 111 G AG +YWK + V +P S ++P++ ++LG+D+RP+ S T Sbjct: 80 GAAGAIYWKINDTLDTVTQPKDNFTSTVSQNIDPEYHNDKPMSFIILGSDSRPETGSMNT 139 Query: 112 DVIMVAALNPTTQSATVVSLPRDTYVELSGYKK-TKINEFYARFKSK----EKTSGIPAE 166 DV++VA NP+T+ T+VS+PRDT V++ GY+ KIN YA +++ E+ + P E Sbjct: 140 DVMIVAVANPSTKKVTMVSIPRDTRVKIPGYRDYHKINSVYANGEAERRQAERNNQTPTE 199 Query: 167 DEM---KKMMGKYLDIDVDYATVLDFQGFRDVVDELGGVDVNISENMCYTDSVDGTDINL 223 D + KK M + L I +++ +DF GF+ V+DELGGV+VN+ + Y D D T INL Sbjct: 200 DGISLTKKTMNEILGIPIEHYVAIDFDGFKAVIDELGGVEVNVDRKLVYDDPTDDTHINL 259 Query: 224 TKGPARLDGDDALDYVRYRKSNCRPKTKASDDFDRNKRQNEVLNSLVGQMQSLGGVLKIG 283 +G L+G+ AL YVR+R N R S DFDRN+RQ EV+ ++V + SL G+ KI Sbjct: 260 NEGLQTLNGEQALGYVRHRHDN-RGTKYYSSDFDRNRRQQEVIKAVVDKAASLEGLTKIF 318 Query: 284 KVLDAVDDNMKTDIENEQIKNIISAYWKISKENIEFKPVTGTWRSPYVYINDKELEAAKQ 343 ++D N+ TD+ +QIK + + S + W+ Y ++ +LE ++ Sbjct: 319 NIMDVGAKNIHTDLSKDQIKGLAFDFKGFSASMVNALDNGAYWQGGYTFLEKDKLEVIRE 378 Query: 344 SLHDR--IAGAV 353 SL I+G+V Sbjct: 379 SLQSEMGISGSV 390 >C0ZG79.1 C0ZG79_BREBN Putative regulatory protein Length = 451 Score = 148 bits (374), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 90/279 (32%), Positives = 146/279 (52%), Gaps = 9/279 (3%) Query: 79 DKPVQAGHSAAERPITMLLLGTDNRPKHPSNLTDVIMVAALNPTTQSATVVSLPRDTYVE 138 D+P ++ I +++G D R TDV++VA NP TQ ++VSLPRDT V+ Sbjct: 68 DQPAVEKPYEQKKSIAFVIVGVDTRKNIGMLNTDVLIVAVANPVTQKLSMVSLPRDTRVQ 127 Query: 139 LSGYKK-TKINEFYA---RFKSKEKTSGIPAEDE----MKKMMGKYLDIDVDYATVLDFQ 190 + GY K+NE +A + + G P + +KK + L I V++ LDF+ Sbjct: 128 IPGYPGYHKVNEVFALGENIRKDAEIKGKPVTENGMTMLKKTLNHMLGISVEHYVQLDFE 187 Query: 191 GFRDVVDELGGVDVNISENMCYTDSVDGTDINLTKGPARLDGDDALDYVRYRKSNCRPKT 250 GF V+D+LGG+ V++ ++ Y G NL KG L+G+ AL +VR+R + R Sbjct: 188 GFTAVIDKLGGITVDVDRDLVYELPKQGVYRNLKKGKQVLNGEQALGFVRHR-IDRRGDA 246 Query: 251 KASDDFDRNKRQNEVLNSLVGQMQSLGGVLKIGKVLDAVDDNMKTDIENEQIKNIISAYW 310 S DFDRN+RQ +V+ ++ + S+ G+ + VLD V ++KTD+ +QIK + + Sbjct: 247 YNSSDFDRNRRQQQVIRAVAEKSMSMDGLSSLTVVLDTVGQHIKTDLSKDQIKGLALDFA 306 Query: 311 KISKENIEFKPVTGTWRSPYVYINDKELEAAKQSLHDRI 349 S N+ W SPY + ++A + +L + Sbjct: 307 SFSSSNMVTLNNGAIWSSPYSLWPRENMQAVRTALQTEV 345 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 0.313 0.132 0.380 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: 2,088,312,098 Number of extensions: 86052126 Number of successful extensions: 179658 Number of sequences better than 1.0e-05: 1855 Number of HSP's gapped: 176555 Number of HSP's successfully gapped: 1855 Length of query: 364 Length of database: 3,060,696,203 Length adjustment: 137 Effective length of query: 227 Effective length of database: 1,770,017,148 Effective search space: 401793892596 Effective search space used: 401793892596 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 132 (55.5 bits)