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= 0249.0008.p (275 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K3A5.1 B3K3A5_9BACI Response regulator receiver 410 e-113 B1D7W6.1 B1D7W6_9BACL Two component transcriptional regulator, A... 246 2e-63 A8RM75.1 A8RM75_9CLOT Putative uncharacterized protein 170 1e-40 B1D6K7.1 B1D6K7_9BACL Two component transcriptional regulator, A... 170 1e-40 A9KJ95.1 A9KJ95_CLOPH Two component transcriptional regulator, A... 159 2e-37 >B3K3A5.1 B3K3A5_9BACI Response regulator receiver Length = 270 Score = 410 bits (1053), Expect = e-113, Method: Compositional matrix adjust. Identities = 202/271 (74%), Positives = 227/271 (83%), Gaps = 8/271 (2%) Query: 1 MWKVLLVEDEVFVRESVREIIAWEELGFTVSGEAGNGAEALDIIRRDVPDLVITDIIMPE 60 MWKVLLVEDEVFVRESVREIIAWEELGF V+GEAGNGAEAL++IR + PDLV+TDI+MPE Sbjct: 1 MWKVLLVEDEVFVRESVREIIAWEELGFKVAGEAGNGAEALEMIRSNPPDLVLTDIVMPE 60 Query: 61 MDGVELLRRTREEGYSSRFVMLTCMSDFEYVRQAMEYGASNYILKLSMSVNSLRETLRKI 120 MDGVELLRRTREEGY+S+FVMLTCMS+FEYVRQAMEYGASNYILKLSMSVN+LRETL K+ Sbjct: 61 MDGVELLRRTREEGYASKFVMLTCMSEFEYVRQAMEYGASNYILKLSMSVNTLRETLHKM 120 Query: 121 SNELLKDGEKRDSSPDPVQAKSGTDERNAKALPPLLH----EEVTSHPEIQKILQYIHAH 176 + EL K + SP+P Q S P H EE+T+HPE+QKILQYIH H Sbjct: 121 NAELTKS----NPSPNPSQPVSIPVASTETVPPQPAHHASPEEITTHPEVQKILQYIHEH 176 Query: 177 YPEDITVKSMSQYVMMGENYVSTLFKKKTGHTLIHYLHQVRVNQAIQYLCHSDLPVYEIG 236 Y +DITVKSMS YVMMGENYVS LFKKKTG TLIHYLHQVRV++AI YL +DLPV+EIG Sbjct: 177 YEQDITVKSMSGYVMMGENYVSALFKKKTGRTLIHYLHQVRVDKAIAYLLQTDLPVHEIG 236 Query: 237 NRVGFVNDNYFIKIFKRLTAQTPSQYRQNNR 267 RVGFVNDNYFIKIFKRLT TPS+YRQ+ + Sbjct: 237 LRVGFVNDNYFIKIFKRLTGFTPSKYRQHGK 267 >B1D7W6.1 B1D7W6_9BACL Two component transcriptional regulator, AraC family Length = 255 Score = 246 bits (628), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 122/267 (45%), Positives = 169/267 (63%), Gaps = 15/267 (5%) Query: 1 MWKVLLVEDEVFVRESVREIIAWEELGFTVSGEAGNGAEALDIIRRDVPDLVITDIIMPE 60 MW+ L+VEDE R S+R++ + ++ F + GEA +G E L +IR PD+VI+DI MP Sbjct: 1 MWRTLIVEDEQHARASLRKLFSKADIPFEIVGEAADGEEGLRMIRELQPDVVISDIFMPV 60 Query: 61 MDGVELLRRTREEGYSSRFVMLTCMSDFEYVRQAMEYGASNYILKLSMSVNSLRETLRKI 120 MDGV LL+ REEG RFVMLT +S+FEY RQA+EYGAS Y++KLS+ + LR+ + K+ Sbjct: 61 MDGVRLLQLAREEGLECRFVMLTAVSEFEYARQAVEYGASGYLMKLSLDLAGLRQAMEKV 120 Query: 121 SNELLKDGEKRDSSPDPVQAKSGTDERNAKALPPLLHEEVTSHPEIQKILQYIHAHYPED 180 + EL + + R + K P +E T HPE+ +I+ YI H+ ED Sbjct: 121 AAELARMEKLRKAD---------------KWFPEKTAQEPTDHPEMNRIIAYIEEHFAED 165 Query: 181 ITVKSMSQYVMMGENYVSTLFKKKTGHTLIHYLHQVRVNQAIQYLCHSDLPVYEIGNRVG 240 IT+KS++ ++ M +YVS LFKKKTG TL HY+ RV A L ++ V +IG VG Sbjct: 166 ITLKSLADWIRMDASYVSDLFKKKTGSTLTHYIQNRRVAAAKMLLAETERTVSDIGRTVG 225 Query: 241 FVNDNYFIKIFKRLTAQTPSQYRQNNR 267 F NDNYFIKIFKR TP++YR+ + Sbjct: 226 FENDNYFIKIFKRWCGVTPNEYRKEQK 252 >A8RM75.1 A8RM75_9CLOT Putative uncharacterized protein Length = 253 Score = 170 bits (431), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 91/269 (33%), Positives = 153/269 (56%), Gaps = 18/269 (6%) Query: 1 MWKVLLVEDEVFVRESVREIIAWEELGFTVSGEAGNGAEALDIIRRDVPDLVITDIIMPE 60 M+KV++VEDE VR + I W L ++GEA NG E ++ R PD+++TD+ MP Sbjct: 1 MYKVIVVEDETMVRRGIILTIDWAALDCVIAGEAANGEEGAELAVRLSPDIIVTDVKMPR 60 Query: 61 MDGVELLRRTREEGYSSRFVMLTCMSDFEYVRQAMEYGASNYILKLSMSVNSLRETLRKI 120 MDGVE++ + RE+G ++F++LT SDF+Y + A+ G S+Y+LK + L + +R I Sbjct: 61 MDGVEMITKLREQGCRAKFIILTAYSDFKYAQSALRLGVSDYLLK-PLRDGDLEQAVRHI 119 Query: 121 SNELLKDGEKRDSSPDPVQAKSGTDERNAKALPPL-LHEEVTSHPE-IQKILQYIHAHYP 178 ++ E+R + E A P L H + S + ++ +YI HY Sbjct: 120 REQM----EERPAK-----------EEETDAAPVLRFHSDKKSKNKYVEAATRYIREHYR 164 Query: 179 EDITVKSMSQYVMMGENYVSTLFKKKTGHTLIHYLHQVRVNQAIQYLCHSDLPVYEIGNR 238 EDIT+ +++ ++ + E Y+S +FKK+T +T +YL R+ A+ L + VYE+ ++ Sbjct: 165 EDITISTVASFLEISEGYLSRVFKKETDYTFTNYLAYYRMQMAMNLLKDCRVKVYEVADQ 224 Query: 239 VGFVNDNYFIKIFKRLTAQTPSQYRQNNR 267 VG+ + YF FK++ +PS+Y+ R Sbjct: 225 VGYSDTAYFSAQFKKILGVSPSEYQDRCR 253 >B1D6K7.1 B1D6K7_9BACL Two component transcriptional regulator, AraC family Length = 245 Score = 170 bits (430), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 90/263 (34%), Positives = 152/263 (57%), Gaps = 23/263 (8%) Query: 1 MWKVLLVEDEVFVRESVREIIAWEELGFTVSGEAGNGAEALDIIRRDVPDLVITDIIMPE 60 M+ +L++ED+ +R + +I++ +L + EA NG EAL+ IR+ VP+L+ITDI+MP Sbjct: 1 MFSMLIIEDDDIIRRGIVKIVSKMDLPISSIEEASNGQEALEKIRQLVPELIITDIMMPF 60 Query: 61 MDGVELLRRTREEGYSSRFVMLTCMSDFEYVRQAMEYGASNYILKLSMSVNSLRETLRKI 120 +DG++LL++ RE SR ++++ +F Y ++A+ YG S Y+LK + + L + L K+ Sbjct: 61 LDGLKLLKQIREWELPSRTIIISGFDEFSYAQEAIAYGVSAYLLK-PVKKDKLYQVLNKM 119 Query: 121 SNELLKDGEKRDSSPDPVQAKSGTDERNAKALPPLLHEEVTSHPEIQKILQYIHAHYPED 180 +EL K+ R PLL H ++ + +Y+ HY ED Sbjct: 120 IHELTKENTNR---------------------KPLLDGSQYGH-DVGFVTRYLEEHYAED 157 Query: 181 ITVKSMSQYVMMGENYVSTLFKKKTGHTLIHYLHQVRVNQAIQYLCHSDLPVYEIGNRVG 240 I + + V M Y S+LFKK TG + IHYL ++RV ++ + L + L +YE+ +VG Sbjct: 158 IDLNKAASLVFMNSTYFSSLFKKMTGVSFIHYLQKIRVEESKKLLLNHQLKIYEVAEKVG 217 Query: 241 FVNDNYFIKIFKRLTAQTPSQYR 263 F ++ YF ++FK T TP+++R Sbjct: 218 FSDEKYFFRVFKNTTGLTPNEFR 240 >A9KJ95.1 A9KJ95_CLOPH Two component transcriptional regulator, AraC family Length = 260 Score = 159 bits (403), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 89/268 (33%), Positives = 158/268 (58%), Gaps = 15/268 (5%) Query: 1 MWKVLLVEDEVFVRESVREIIAWEELGFTVSGEAGNGAEALDIIRRDVPDLVITDIIMPE 60 M KVL+ EDE +R+ + I W +G+ + GEA NG E L+ IR PD+VITDI+MP+ Sbjct: 1 MLKVLIAEDEDIIRKGLAYTIDWLSIGYVLVGEAANGEEGLEKIRELKPDVVITDIMMPK 60 Query: 61 MDGVELLRRTREEGYSSRF--VMLTCMSDFEYVRQAMEYGASNYILKLSMSVNSLRETLR 118 ++G+EL+R+ +E RF V+LT ++F+Y ++A+E A +Y++K + V+ L+E +R Sbjct: 61 LNGLELIRQASKE---VRFKSVILTSYAEFDYAKEAIELKAYDYLMK-PVDVDKLKEVMR 116 Query: 119 KISNELLKDGEKRDSSPDPVQAKSGTDERNAKALPPLLHEEVTSHPEIQKILQYIHAHYP 178 K+ +++ + EK Q G D + L + +P ++K + + Y Sbjct: 117 KLQDDIKLENEKELLFQ---QKSQGMD------IKLLSSSDSYKNPYVKKAIDIMKERYI 167 Query: 179 EDITVKSMSQYVMMGENYVSTLFKKKTGHTLIHYLHQVRVNQAIQYLCHSDLPVYEIGNR 238 E ++++S+S+ + + +Y+S FK+ TGHT + +L+ RV QAI+ L VY++ + Sbjct: 168 EKLSIESISEELKVSSSYLSRKFKEDTGHTYLDFLNMYRVQQAIRLLDEGVYRVYQVSDM 227 Query: 239 VGFVNDNYFIKIFKRLTAQTPSQYRQNN 266 GF + +F +FKR T +P+++ +N Sbjct: 228 TGFTDYKHFCAVFKRYTKTSPTEFIKNK 255 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 0.134 0.385 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: 1,610,958,277 Number of extensions: 65001277 Number of successful extensions: 259118 Number of sequences better than 1.0e-05: 13855 Number of HSP's gapped: 267406 Number of HSP's successfully gapped: 14345 Length of query: 275 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 141 Effective length of database: 1,798,280,193 Effective search space: 253557507213 Effective search space used: 253557507213 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: 130 (54.7 bits)