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= 0544.0020.p (288 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value A9KK23.1 A9KK23_CLOPH Transcriptional regulator, AraC family 383 e-105 B3KER5.1 B3KER5_9BACI Helix-turn-helix-domain containing protein... 376 e-102 A6LXC7.1 A6LXC7_CLOB8 Helix-turn-helix-domain containing protein... 350 9e-95 C2C456.1 C2C456_LISGR Helix-turn-helix domain protein 251 6e-65 Q97L45.1 Q97L45_CLOAB Putative uncharacterized protein 211 5e-53 >A9KK23.1 A9KK23_CLOPH Transcriptional regulator, AraC family Length = 283 Score = 383 bits (984), Expect = e-105, Method: Compositional matrix adjust. Identities = 182/279 (65%), Positives = 220/279 (78%), Gaps = 7/279 (2%) Query: 1 MPQADRHKKRTVNIEFAAVEDFSILPYPERFTLIFITSGSIKGMLNQRPISVSAPGVLCL 60 MPQ D++K R+V+IEFAAVEDF LPYPERFTLIFIT+G IK LN+RPI +SAPGVLCL Sbjct: 1 MPQYDQYKNRSVDIEFAAVEDFENLPYPERFTLIFITNGIIKAQLNERPIEISAPGVLCL 60 Query: 61 AEDAQVQVIEKINVSAQSFHFHREFLKSVKLSETSETKEYFPAQPRIQTGLSLFYSNE-- 118 + D ++QVI K N+SAQSF FH +F K+ S ET+ Y P+ +IQ GLSLF + Sbjct: 61 SMDDKLQVINKDNISAQSFSFHPDFFKT---SRIFETQTYKPSNLKIQVGLSLFQRDNSQ 117 Query: 119 --VPRVTEKAYPLLLEWFFILGMEVKAQSDELWVCRIKKYLIQILGLLEELNRTREHSPV 176 + +T KA+P L EWFFILG EV A S+ LWVCRIKKYLIQIL LLE+LN E SP+ Sbjct: 118 TGILHITSKAFPQLFEWFFILGTEVYAHSNALWVCRIKKYLIQILRLLEDLNHQIEQSPI 177 Query: 177 DAVLDYIHTNYPQKISLEDLTKCGHLNRVTLNKRFQERCGKTAMGYLLSHRLKVAGELLV 236 D LDYIHTNYP K++LEDLT C HLNR++LN+ FQ+RCG TAMGYLLS+RLKVAG+LLV Sbjct: 178 DLALDYIHTNYPGKVTLEDLTNCAHLNRISLNEMFQKRCGCTAMGYLLSYRLKVAGDLLV 237 Query: 237 HTDMSLNEVARATGFEYDTYFIKQFTARRGMSPTTYRTA 275 HTDM+L+E+AR+ GF+YDTYFIKQFTA+R MSPT +R Sbjct: 238 HTDMTLDEIARSIGFQYDTYFIKQFTAKREMSPTAFRNT 276 >B3KER5.1 B3KER5_9BACI Helix-turn-helix-domain containing protein AraC type Length = 261 Score = 376 bits (965), Expect = e-102, Method: Compositional matrix adjust. Identities = 179/257 (69%), Positives = 208/257 (80%), Gaps = 7/257 (2%) Query: 24 ILPYPERFTLIFITSGSIKGMLNQRPISVSAPGVLCLAEDAQVQVIEKINVSAQSFHFHR 83 +LPYPER TL+ ITSGS G+LN+RPI +SAPGVLCLAE+ +++V+E+ NV+AQSF FH Sbjct: 1 MLPYPERLTLVLITSGSFSGILNERPIKISAPGVLCLAEEDEMKVVERQNVAAQSFRFHP 60 Query: 84 EFLKSVKLSETSETKEYFPAQPRIQTGLSLFYSNE----VPRVTEKAYPLLLEWFFILGM 139 FL +V LSET + Y P P IQ GLSLF N+ VPRVTEKAYPL+ EWFFILG Sbjct: 61 AFLNTVTLSET---QSYIPTGPSIQRGLSLFQRNDRNSGVPRVTEKAYPLIFEWFFILGT 117 Query: 140 EVKAQSDELWVCRIKKYLIQILGLLEELNRTREHSPVDAVLDYIHTNYPQKISLEDLTKC 199 EV+AQSDE WVCRIKKYLIQILGLLE+LN E SPVD VL+YIHTNYP+KISLEDLT C Sbjct: 118 EVQAQSDERWVCRIKKYLIQILGLLEDLNHNSEQSPVDLVLEYIHTNYPKKISLEDLTNC 177 Query: 200 GHLNRVTLNKRFQERCGKTAMGYLLSHRLKVAGELLVHTDMSLNEVARATGFEYDTYFIK 259 HLNRVTLNK FQERCG TA+GYLLS+RL VA +LL HT M L+E+AR TGFEYDTYFIK Sbjct: 178 AHLNRVTLNKLFQERCGNTAIGYLLSYRLNVACDLLTHTGMKLDEIARDTGFEYDTYFIK 237 Query: 260 QFTARRGMSPTTYRTAS 276 QF A++G+SPT YR + Sbjct: 238 QFQAKKGISPTKYRNMT 254 >A6LXC7.1 A6LXC7_CLOB8 Helix-turn-helix-domain containing protein, AraC type Length = 284 Score = 350 bits (898), Expect = 9e-95, Method: Compositional matrix adjust. Identities = 171/280 (61%), Positives = 206/280 (73%), Gaps = 7/280 (2%) Query: 1 MPQADRHKKRTVNIEFAAVEDFSILPYPERFTLIFITSGSIKGMLNQRPISVSAPGVLCL 60 MPQ DRHK RTV IEF A E+F LPY ER T+ FITSGS+ LN RP+ + AP +LCL Sbjct: 1 MPQMDRHKNRTVYIEFIANENFVSLPYKERLTITFITSGSLNLQLNGRPVKIVAPSILCL 60 Query: 61 AEDAQVQVIEKINVSAQSFHFHREFLKSVKLSETSETKEYFPAQPRIQTGLSLFYSNE-- 118 + + ++QV+EK NVS+QSF FH +F + SE + Y +I+TGL LF ++ Sbjct: 61 SVEDKIQVLEKQNVSSQSFCFHPDFFNTAHFSENTG---YLSTNLKIKTGLLLFGKDKIH 117 Query: 119 --VPRVTEKAYPLLLEWFFILGMEVKAQSDELWVCRIKKYLIQILGLLEELNRTREHSPV 176 V V EK Y L EWFFI+G EV AQSD LWVCRIKKYLIQILGL+EELN E SPV Sbjct: 118 TRVYAVDEKIYLKLYEWFFIMGTEVYAQSDSLWVCRIKKYLIQILGLIEELNHHSEESPV 177 Query: 177 DAVLDYIHTNYPQKISLEDLTKCGHLNRVTLNKRFQERCGKTAMGYLLSHRLKVAGELLV 236 + VL+YIH NY KI+LEDLT+C HLNRV+LNK FQ+ CG TAM YLL++RLKV+ LL Sbjct: 178 NLVLEYIHINYSDKITLEDLTRCAHLNRVSLNKSFQDLCGCTAMAYLLAYRLKVSESLLT 237 Query: 237 HTDMSLNEVARATGFEYDTYFIKQFTARRGMSPTTYRTAS 276 HTDMSLNE+ARATGFEYDTYFIKQF A++GM+PT +R S Sbjct: 238 HTDMSLNEIARATGFEYDTYFIKQFLAKKGMTPTAFRKNS 277 >C2C456.1 C2C456_LISGR Helix-turn-helix domain protein Length = 285 Score = 251 bits (640), Expect = 6e-65, Method: Compositional matrix adjust. Identities = 130/275 (47%), Positives = 180/275 (65%), Gaps = 7/275 (2%) Query: 3 QADRHKKRTVNIEFAAVEDFSILPYPERFTLIFITSGSIKGMLNQRPISVSAPGVLCLAE 62 Q D +KKR V I+F A E + E + ++FIT+G ++ LNQ + + +LCL Sbjct: 2 QFDPYKKRNVPIDFTAAESCQFVWEEEEYRILFITNGKLEISLNQVSMKLRKGDILCLTN 61 Query: 63 DAQVQVIEKINVSAQSFHFHREFLKSVKLSETSETKEYFPAQPRIQTGLSLFYSNE---- 118 I ++A SF F FLK+++LS+ +ET F P I+TG LF + Sbjct: 62 QDSFTFISSAELAAASFRFEPSFLKTIQLSQKNET---FSMAPEIKTGSILFKRDSRHSG 118 Query: 119 VPRVTEKAYPLLLEWFFILGMEVKAQSDELWVCRIKKYLIQILGLLEELNRTREHSPVDA 178 V + Y LLE+FF++G EV A+SD LWVCRIKKYLIQ L LLEE + E +D Sbjct: 119 VYHASNAVYTQLLEYFFVMGTEVFAKSDSLWVCRIKKYLIQFLYLLEETSNREEQVYLDQ 178 Query: 179 VLDYIHTNYPQKISLEDLTKCGHLNRVTLNKRFQERCGKTAMGYLLSHRLKVAGELLVHT 238 +L YIHTNY +KI+L +LT+ + NRVTLN++F+ER G TAM YLL++RLKVA +LL HT Sbjct: 179 LLSYIHTNYRKKITLVELTELTNSNRVTLNQKFRERFGCTAMAYLLNYRLKVAADLLTHT 238 Query: 239 DMSLNEVARATGFEYDTYFIKQFTARRGMSPTTYR 273 +++NE+A +TGF Y+TYFIKQF+A++ +SPTTYR Sbjct: 239 GLTVNEIAASTGFGYETYFIKQFSAKKKVSPTTYR 273 >Q97L45.1 Q97L45_CLOAB Putative uncharacterized protein Length = 178 Score = 211 bits (538), Expect = 5e-53, Method: Compositional matrix adjust. Identities = 104/181 (57%), Positives = 129/181 (71%), Gaps = 7/181 (3%) Query: 1 MPQADRHKKRTVNIEFAAVEDFSILPYPERFTLIFITSGSIKGMLNQRPISVSAPGVLCL 60 MPQ DR+K R+V IEF A EDF+ LPY RFT++F+T+GS+ LN PI V AP +LCL Sbjct: 1 MPQMDRYKNRSVYIEFNAEEDFNKLPYKARFTIVFVTNGSVNLKLNAYPIKVVAPSILCL 60 Query: 61 AEDAQVQVIEKINVSAQSFHFHREFLKSVKLSETSETKEYFPAQPRIQTGLSLF----YS 116 ++D ++Q+ EK N+++QSF FH +F + SE + Y +I+TGLSLF + Sbjct: 61 SKDDKIQIFEKNNLASQSFSFHPDFFNTAYFSEET---GYMSNSLKIETGLSLFKKDNKN 117 Query: 117 NEVPRVTEKAYPLLLEWFFILGMEVKAQSDELWVCRIKKYLIQILGLLEELNRTREHSPV 176 N V VTEKAYP L EWFFI+G EV AQSD LWVCRIKKYLIQILGLLEELN+ E SPV Sbjct: 118 NGVYTVTEKAYPKLYEWFFIMGTEVHAQSDSLWVCRIKKYLIQILGLLEELNKNGEQSPV 177 Query: 177 D 177 D Sbjct: 178 D 178 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 0.322 0.136 0.396 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: 1,537,445,432 Number of extensions: 56462769 Number of successful extensions: 137049 Number of sequences better than 1.0e-05: 1339 Number of HSP's gapped: 138049 Number of HSP's successfully gapped: 1339 Length of query: 288 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 154 Effective length of database: 1,798,280,193 Effective search space: 276935149722 Effective search space used: 276935149722 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 (21.9 bits) S2: 130 (54.7 bits)