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= 0167.0012.p (386 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KDM3.1 B3KDM3_9BACI ROK family protein 470 e-130 B1D695.1 B1D695_9BACL ROK family protein 362 3e-98 Q9K992.1 Q9K992_BACHD Transcriptional repressor of the xylose op... 318 5e-85 Q8ELU2.1 Q8ELU2_OCEIH Transcriptional repressor of the xylose op... 296 2e-78 Q5WKJ0.1 Q5WKJ0_BACSK Transcriptional repressor of the xylose op... 281 7e-74 >B3KDM3.1 B3KDM3_9BACI ROK family protein Length = 390 Score = 470 bits (1209), Expect = e-130, Method: Compositional matrix adjust. Identities = 230/385 (59%), Positives = 278/385 (72%) Query: 2 KVTGDQALVKKINKSIILHTIRKHSPVSRARVSEMTGLNKATVSNLVSELCGQELVTEAG 61 +TGDQALVKKIN SIIL TIR+H+PVSRA+VS++TGLNKATVSNLV ELC LV E G Sbjct: 3 NITGDQALVKKINTSIILDTIRQHAPVSRAKVSKLTGLNKATVSNLVQELCSNHLVQEIG 62 Query: 62 PGESSGGRKPLMLHFNSMAGSVIGIELQVKQLKAVLCDLGGSTLQELDCPLEVHDLPYVL 121 PGESSGGRKP +L FN AG IG+EL+VKQ+ AVL DL G L E D LE H + V Sbjct: 63 PGESSGGRKPQLLLFNGQAGYAIGVELRVKQITAVLTDLEGRILAEEDTALEAHGVESVT 122 Query: 122 EKMKAIISELIASAPSSPYXXXXXXXXXXXXXDEHGMVLFAPNLGWEMVDLRAILEQSFA 181 M +I L+ AP SPY D G VLFAPNLGW+MV L+ LE Sbjct: 123 RLMVGMIHGLMRQAPPSPYGIIGIGVGVPGMVDGDGTVLFAPNLGWDMVPLQEQLELELG 182 Query: 182 VPVTIDNEANAGAQGELNFGAARDVRHLLYXXXXXXXXXXXXXXXELYKGARGYAGETGH 241 +PVTIDNEANAGAQGEL FGA RD RHLLY ELYKGARGYAGE+GH Sbjct: 183 LPVTIDNEANAGAQGELRFGAGRDARHLLYISAGSGIGSGIIINGELYKGARGYAGESGH 242 Query: 242 MTIEAEGKPCSCGSRGCWELYASERTYDNPGLALPARSTTELVRYAHEGQEDTLRHFTTI 301 M+IEAEG+ CSCG+RGCWELYASE++YD LP+R T+ELV +A G +DT+RHF + Sbjct: 243 MSIEAEGRECSCGNRGCWELYASEKSYDGKDAVLPSRRTSELVHHAELGHKDTIRHFEEL 302 Query: 302 GEYLGIGVTNLINSFNPELIVIGGALSEAEPWLGEPLRRVVAERTLPYHKQQLEITFSRL 361 G YLGIG+TNL+N FNP+ ++IGG LS+A W+ E L++VVA+RTLPYH++++EI F+ L Sbjct: 303 GRYLGIGITNLVNGFNPQSVIIGGPLSDARAWIEETLQQVVAQRTLPYHRERMEIRFAEL 362 Query: 362 GSRGTMIGAGFSAVMHFLGNIRVTL 386 GSR TMIGA +SA+ FLG +RV++ Sbjct: 363 GSRSTMIGAAYSAISQFLGPVRVSM 387 >B1D695.1 B1D695_9BACL ROK family protein Length = 387 Score = 362 bits (930), Expect = 3e-98, Method: Compositional matrix adjust. Identities = 177/383 (46%), Positives = 240/383 (62%) Query: 1 VKVTGDQALVKKINKSIILHTIRKHSPVSRARVSEMTGLNKATVSNLVSELCGQELVTEA 60 V TGD L+KKIN SI+L + K +P+SRA++SE+TGLNKATVSNLV +L +LV E Sbjct: 3 VTTTGDLTLIKKINTSIVLEAVLKQAPLSRAQISELTGLNKATVSNLVQDLIDSDLVVEI 62 Query: 61 GPGESSGGRKPLMLHFNSMAGSVIGIELQVKQLKAVLCDLGGSTLQELDCPLEVHDLPYV 120 GPGESSGGRKP+ML FN AG +GI+L V ++ VL DL G+ + E L+ H L + Sbjct: 63 GPGESSGGRKPVMLLFNGKAGYAVGIDLGVNYIRGVLADLEGNVIAERKRSLKKHQLEFT 122 Query: 121 LEKMKAIISELIASAPSSPYXXXXXXXXXXXXXDEHGMVLFAPNLGWEMVDLRAILEQSF 180 L+++ I ELI AP+SPY D+ G +LFAPNL W V+L+ +LE+ F Sbjct: 123 LKELVQCIEELIGKAPASPYGIVGIGIGVPGIVDDQGSILFAPNLEWRHVELQQMLEEQF 182 Query: 181 AVPVTIDNEANAGAQGELNFGAARDVRHLLYXXXXXXXXXXXXXXXELYKGARGYAGETG 240 +PVTIDNEANAGAQGE +G R + H +Y ELYKGA G++GE G Sbjct: 183 QLPVTIDNEANAGAQGEQKYGIGRGIAHQIYVSVGIGIGTGIILNKELYKGATGFSGELG 242 Query: 241 HMTIEAEGKPCSCGSRGCWELYASERTYDNPGLALPARSTTELVRYAHEGQEDTLRHFTT 300 H++IE GKPC CG+ GCWELYASE L S +L+ A G E+ F Sbjct: 243 HLSIEYNGKPCRCGNEGCWELYASENALLEQAAPLGFDSLEDLLDAAEAGNEEVRALFYK 302 Query: 301 IGEYLGIGVTNLINSFNPELIVIGGALSEAEPWLGEPLRRVVAERTLPYHKQQLEITFSR 360 IGEY+G G++N++N FNP++++IG +S A+ WL E ++ V RTLPYH+++L I F+ Sbjct: 303 IGEYMGAGISNIVNVFNPDVVIIGNRMSRAKTWLEEAVQSSVTRRTLPYHRERLRILFAE 362 Query: 361 LGSRGTMIGAGFSAVMHFLGNIR 383 L + + GA + A+ F I+ Sbjct: 363 LQDQSAVRGAAYYAISKFFTKIK 385 >Q9K992.1 Q9K992_BACHD Transcriptional repressor of the xylose operon Length = 386 Score = 318 bits (815), Expect = 5e-85, Method: Compositional matrix adjust. Identities = 159/381 (41%), Positives = 231/381 (60%), Gaps = 2/381 (0%) Query: 1 VKVTGDQALVKKINKSIILHTIRKHSPVSRARVSEMTGLNKATVSNLVSELCGQELVTEA 60 + VTGDQ +K++NK I+L TIRK +P+SRA+VS TGLNK TVS+LV+EL LV E Sbjct: 1 MSVTGDQRFIKQMNKQIVLQTIRKEAPLSRAQVSLTTGLNKGTVSSLVAELIADNLVYEV 60 Query: 61 GPGESSGGRKPLMLHFNSMAGSVIGIELQVKQLKAVLCDLGGSTLQELDCPLEVHDLPYV 120 GPGESSGGR+P+ML F + A IGI + V L VL DL G+ +++++ L V + +V Sbjct: 61 GPGESSGGRRPVMLMFQNKAAYAIGINIAVNYLSGVLTDLVGNVIEKVEWSLHVKEFDHV 120 Query: 121 LEKMKAIISELIASAPSSPYXXXXXXXXXXXXXDEHGMVLFAPNLGWEMVDLRAILEQSF 180 ++M +I +L+ +AP S Y +E G VLFAPNL W + L+ LE+ F Sbjct: 121 NQQMVQLIEQLMKAAPPSTYGIIGIGVAVPGIVNEEGDVLFAPNLNWREIPLKKQLEEHF 180 Query: 181 AVPVTIDNEANAGAQGELNFGAARDVRHLLYXXXXXXXXXXXXXXXELYKGARGYAGETG 240 +P+ ++NEANAGA GE FG ++ ++++ LY+G GY+GE G Sbjct: 181 QLPIAVENEANAGALGEKVFGKGKESENMIFFSIGIGIGSGIIFGNSLYRGKGGYSGEVG 240 Query: 241 HMTIEAEGKPCSCGSRGCWELYASERTYDNPGLALPARSTT--ELVRYAHEGQEDTLRHF 298 HM+IE G C+CG++GCWEL+ASE+ G AL T +L A +G++ + F Sbjct: 241 HMSIETNGPLCTCGNKGCWELFASEKAVLQQGEALYEEVLTLDDLFEKARKGEQTAIDLF 300 Query: 299 TTIGEYLGIGVTNLINSFNPELIVIGGALSEAEPWLGEPLRRVVAERTLPYHKQQLEITF 358 IG YLG G+ N+IN+ NPEL+V+G + + PWL L++ VA+R L +H +Q+ + F Sbjct: 301 QKIGVYLGTGIANMINALNPELVVVGNRMVKGRPWLEHSLKQTVADRALSFHAEQVLVEF 360 Query: 359 SRLGSRGTMIGAGFSAVMHFL 379 S L G +G + + FL Sbjct: 361 SDLNENGISLGVSYLLIDSFL 381 >Q8ELU2.1 Q8ELU2_OCEIH Transcriptional repressor of the xylose operon Length = 400 Score = 296 bits (759), Expect = 2e-78, Method: Compositional matrix adjust. Identities = 155/385 (40%), Positives = 227/385 (58%), Gaps = 15/385 (3%) Query: 1 VKVTGDQALVKKINKSIILHTIRKHSPVSRARVSEMTGLNKATVSNLVSELCGQELVTEA 60 + T +Q +VK+ NKS++ +TIR++SP+SRA +++ GLNK+TVS+LVSEL +EL+ E Sbjct: 3 INRTWNQYVVKQENKSLVFNTIRQNSPISRADIAQQLGLNKSTVSSLVSELINEELIGEV 62 Query: 61 GPGESSGGRKPLMLHFNSMAGSVIGIELQVKQLKAVLCDLGGSTLQELDCPLEVHDLPYV 120 GPGESSGGR+P+ML FN+ AG IGI+L V + VL DL G+ L++ + + Sbjct: 63 GPGESSGGRRPVMLFFNNTAGYSIGIDLGVNYILGVLTDLQGNILEQEQVTFDNLTYEEI 122 Query: 121 LEKMKAIISELIASAPSSPYXXXXXXXXXXXXXDEHGMVLFAPNLGWEMVDLRAILEQSF 180 L + +I +LI SPY ++ +L APNL W + L+ LE F Sbjct: 123 LVHLNEVIQKLITMTSKSPYGVIGIGVAVPGIVNKEEKILLAPNLNWRNISLKEELENQF 182 Query: 181 AVPVTIDNEANAGAQGELNFGAARDVRHLLYXXXXXXXXXXXXXXXELYKGARGYAGETG 240 +PV I+NEANAGA GE+ FG ++ + ++Y +LYKG G++GE G Sbjct: 183 NIPVIIENEANAGAYGEVQFGIGKENKEIVYVSVGVGIGVGLVLNNQLYKGNNGFSGEMG 242 Query: 241 HMTIEAEGKPCSCGSRGCWELYASERTYDNPGLALPARS---TTE-------LVRYAHEG 290 HMTI+A G CSCGS GCWELYASE+ L L R+ TT+ +++ A Sbjct: 243 HMTIDAHGAKCSCGSEGCWELYASEKAL----LQLAKRNKIYTTDPYDLLDHMIQLAKNN 298 Query: 291 QEDTLRHFTTIGEYLGIGVTNLINSFNPELIVIGGALSEAEPWLGEPLRRVVAERTLPYH 350 L F I +YL IG+ N+INSFNPE ++IG +S A+ W+ +PL + ++L + Sbjct: 299 DSVALEAFNEISKYLAIGINNIINSFNPEQVIIGNRMSAAKKWIEKPLLDSINNQSLWFS 358 Query: 351 KQQLEITFSRLGSRGTMIG-AGFSA 374 ++ L+I FS L + +G A FS+ Sbjct: 359 QKDLKIDFSSLNTHSNALGMAAFSS 383 >Q5WKJ0.1 Q5WKJ0_BACSK Transcriptional repressor of the xylose operon Length = 391 Score = 281 bits (719), Expect = 7e-74, Method: Compositional matrix adjust. Identities = 143/387 (36%), Positives = 221/387 (57%), Gaps = 3/387 (0%) Query: 3 VTGDQALVKKINKSIILHTIRKHSPVSRARVSEMTGLNKATVSNLVSELCGQELVTEAGP 62 +T D +K +NKS + I++H+P+SRA +++ +GLNKATVS LV++L + V E G Sbjct: 2 ITIDHETMKDMNKSTVFRLIQRHAPISRADIAKRSGLNKATVSALVAQLIENQFVYEIGT 61 Query: 63 GESSGGRKPLMLHFNSMAGSVIGIELQVKQLKAVLCDLGGSTLQELDCPLEVHDLPYVLE 122 G+SSGGRKP++L+ N A I +++ V L ++ DL G T+ + + L + VL Sbjct: 62 GDSSGGRKPVLLYCNDRASHAISVDIGVNGLLGIITDLSGKTIAKREMALTSKEFNIVLA 121 Query: 123 KMKAIISELIASAPSSPYXXXXXXXXXXXXXDEHGMVLFAPNLGWEMVDLRAILEQSFAV 182 +AII +LI AP SPY D G +L APNLGWE VD++ LE +F + Sbjct: 122 NTEAIIEQLIHEAPPSPYGICGITASVPGIVDSKGNILLAPNLGWENVDIKTALEHTFKL 181 Query: 183 PVTIDNEANAGAQGELNFGAARDVRHLLYXXXXXXXXXXXXXXXELYKGARGYAGETGHM 242 PV + NEANAGA GE +G + + Y +L+ GA G+AGE GHM Sbjct: 182 PVVVINEANAGALGEKQYGVGKPYSAISYISVSIGIGTGQIIDGKLFTGANGFAGEFGHM 241 Query: 243 TIEAEGKPCSCGSRGCWELYASERT-YDNPGLALPARSTT--ELVRYAHEGQEDTLRHFT 299 +I+ GK C CG++GCWELY+SE+ + + + RS + E++ A G + L F Sbjct: 242 SIDRHGKQCRCGNQGCWELYSSEKALLEIAAINMNRRSISFEEVLAAAETGNQAALDAFA 301 Query: 300 TIGEYLGIGVTNLINSFNPELIVIGGALSEAEPWLGEPLRRVVAERTLPYHKQQLEITFS 359 T+G LGIG+ ++I+S NPE I+IG ++ +P++ P+ +A+ Y+++ +++ FS Sbjct: 302 TVGHSLGIGLVSMIHSMNPEAIIIGNRFAKLKPYIQIPIEETLAKHLPSYYQKAVKLLFS 361 Query: 360 RLGSRGTMIGAGFSAVMHFLGNIRVTL 386 LG ++G A F R+ L Sbjct: 362 ELGQEAPLLGGSLLATSQFFNRHRIHL 388 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 0.317 0.135 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: 2,034,395,284 Number of extensions: 76929612 Number of successful extensions: 181879 Number of sequences better than 1.0e-05: 2749 Number of HSP's gapped: 177613 Number of HSP's successfully gapped: 2777 Length of query: 386 Length of database: 3,060,696,203 Length adjustment: 137 Effective length of query: 249 Effective length of database: 1,770,017,148 Effective search space: 440734269852 Effective search space used: 440734269852 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: 132 (55.5 bits)