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= 0153.0050.p (287 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|NP_812679.1| transcriptional regulator [Bacteroides thetaiot... 96 1e-18 ref|NP_811822.1| transcriptional regulator [Bacteroides thetaiot... 82 1e-14 ref|NP_561686.1| probable transcriptional regulator [Clostridium... 71 3e-11 ref|NP_388045.1| alternate gene name: yzbC~similar to transcript... 70 5e-11 ref|NP_563003.1| two-component response regulator [Clostridium p... 70 6e-11 >ref|NP_812679.1| transcriptional regulator [Bacteroides thetaiotaomicron VPI-5482] gb|AAO78873.1| transcriptional regulator [Bacteroides thetaiotaomicron VPI-5482] Length = 299 Score = 95.5 bits (236), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 69/240 (28%), Positives = 111/240 (46%), Gaps = 11/240 (4%) Query: 53 VFEHWALVFILSGNGTYMENGGRIQQVRAGSLFFFRPGCSYSFGPAPGCNWDEYYINFNG 112 V + LV+I G G + + +QV G L PG +++ P W EYYI F G Sbjct: 59 VLREYQLVYITKGRGLFSSDSTPERQVCKGRLMVLFPGQWHTYYPLRQTGWTEYYIGFEG 118 Query: 113 TRVAEWVESGLL-EGGTVFDAHASQELASVFEQVLALMEGGVPADADRAAAMLEGLLLEC 171 + V L + + + ++EL S+F + L + E AD A L G++L Sbjct: 119 PAIDTIVGDAFLSQERQILEVGINEELVSLFSRALEVAE----ADKISAQQYLSGIVLHM 174 Query: 172 S---LITEGHHRTRQPDLFPLIREE---LNACIYGLPDLQGIAAKHHISMSTLRRLVRHS 225 L + D+ I + +N + G D + +A + +IS S RR+ + Sbjct: 175 IGMILSISKNKVFEMSDVDQKIEQAKILMNENVSGNIDPEELAMRLNISYSWFRRVFKEY 234 Query: 226 SGYPLHEYIHRLKMAEAKHLLLNTSLQVKAIAGMLHYADSFYFSRLFKKYMGVSPLICRN 285 +GY +Y LK+ +AK +L+ TS VK I+ L + + YF FKK G++PL R+ Sbjct: 235 TGYAPAKYFQELKLRKAKQMLVGTSQSVKEISFFLGFQSTEYFFSFFKKRTGLTPLEYRS 294 >ref|NP_811822.1| transcriptional regulator [Bacteroides thetaiotaomicron VPI-5482] gb|AAO78016.1| transcriptional regulator [Bacteroides thetaiotaomicron VPI-5482] Length = 293 Score = 82.0 bits (201), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 65/242 (26%), Positives = 103/242 (42%), Gaps = 11/242 (4%) Query: 53 VFEHWALVFILSGNGTYMENGGRIQQVRAGSLFFFRPGCSYSFGPAPGCNWDEYYINFNG 112 + + L++I G G G + ++ G +F PG +++ P W Y+I F G Sbjct: 53 ILTEYQLIYITEGEGVLETRSGGVFTIKRGMIFVLFPGEWHTYYPNYQTGWSHYWIGFCG 112 Query: 113 TRVAEWVESGLLEGGT-VFDAHASQELASVFEQVLALMEGGVPADADRAAAMLEGLL--L 169 V W+ + + VF + E+ S+F + + + P R + L L L Sbjct: 113 PEVDSWMTNEYCSKESPVFKVGINDEIVSLFRKAIDVA-NEEPTLYQRVLSGLVTYLVAL 171 Query: 170 ECS----LITEGHHRTRQPDLFPLIREELNACIYGLPDLQGIAAKHHISMSTLRRLVRHS 225 CS L E + + D ++ +EL I +Q IA K + S R+L + Sbjct: 172 MCSIDKNLQVENDDFSSKIDYACVLMKEL---IDQPVSMQEIAKKAGMGYSLFRKLFKEQ 228 Query: 226 SGYPLHEYIHRLKMAEAKHLLLNTSLQVKAIAGMLHYADSFYFSRLFKKYMGVSPLICRN 285 Y +Y LK+ +A LL T++ VK IA L + YFS FKK G SP+ R Sbjct: 229 KNYAPVQYFQNLKIQKAIELLTTTTIPVKEIAYRLDFESPAYFSARFKKQTGKSPIEYRE 288 Query: 286 SL 287 Sbjct: 289 EF 290 >ref|NP_561686.1| probable transcriptional regulator [Clostridium perfringens] dbj|BAB80476.1| probable transcriptional regulator [Clostridium perfringens str. 13] Length = 279 Score = 70.9 bits (172), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 55/239 (23%), Positives = 110/239 (46%), Gaps = 6/239 (2%) Query: 53 VFEHWALVFILSGNGTYMENGGRIQQVRAGSLFFFRPGCSYSFGPAPGCNWDEYYINFNG 112 V ++ + ++ G GT+ NG ++ ++ G +F G + + W+ Y+I F+G Sbjct: 35 VLKNAVIHYVTKGYGTFKFNG-KVYNLKQGDIFILLKGMQVEYVASIDDPWEYYWIGFSG 93 Query: 113 TRVAEWVESGLLEGGTVFDAHASQELASVFEQVLALMEGGVPADADRAAAMLEGLLLECS 172 + E++ + V + + ++ + + + + P+ +D + E L + Sbjct: 94 SNANEYLNRTSITNSCVANCEENSKIPQIILNMCEISKTYNPSRSDDILLLKELYSLLYA 153 Query: 173 LITE--GHHRTRQPDLFPLIREELN---ACIYGLPDLQGIAAKHHISMSTLRRLVRHSSG 227 LI E + +L I++ LN + +Q IA ++S S L ++ + G Sbjct: 154 LIEEFPKPFEYKDKELHTYIQDALNFINSNYMHSITVQEIADYVNLSRSYLYKMFIKNLG 213 Query: 228 YPLHEYIHRLKMAEAKHLLLNTSLQVKAIAGMLHYADSFYFSRLFKKYMGVSPLICRNS 286 Y+ L+M +A LL +T L + +A + Y+DS FS+ F K+ +SPL RN+ Sbjct: 214 ISPQRYLINLRMYKATLLLKSTKLPIGEVASSVGYSDSLLFSKTFSKHFSMSPLNYRNN 272 >ref|NP_388045.1| alternate gene name: yzbC~similar to transcriptional regulator (AraC/XylS family) [Bacillus subtilis] sp|P40408|YBBB_BACSU Putative HTH-type transcriptional regulator ybbB pir||I39841 transcription regulator AraC/XylS family homolog ybbB - Bacillus subtilis gb|AAA64353.1| putative initiation codon GUG. Homology with transcriptional regulators (Salmonella typhimurium AraC, Bacillus subtilis AdaA).; putative dbj|BAA19497.1| YbbB [Bacillus subtilis] emb|CAB11940.1| ybbB [Bacillus subtilis subsp. subtilis str. 168] Length = 529 Score = 70.1 bits (170), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 56/244 (22%), Positives = 102/244 (41%), Gaps = 18/244 (7%) Query: 48 FRSNVVFEHWALVFILSGNGTYMENGGRIQQVRAGSLFFFRPGCSYSFGPAPGCNWDE-- 105 F + + + L+F L GNG Y+ G ++ +L+ P ++ F PA + D Sbjct: 22 FSEQQLADSFVLIFHLKGNG-YISIGTNTNPLQKKTLYVCPPNETFGFTPAADGHIDACI 80 Query: 106 ----YYINFNGTRVAEWVESGLLEGGTVFDAHASQELASVFEQVLALMEGGVPADADRAA 161 YI G + L + + + LA +++ AL + Sbjct: 81 IRLLSYIKETGQDIFTPCTESELAKLKLMNVSHIENLAVRLQELAALWNESSQLSQLKCV 140 Query: 162 AMLEGLLLEC-----SLITEGHHRTRQPDLFPLIREELNACIYGLPDLQGIAAKHHISMS 216 ++ L+ + S T+ H + + + + L + GI+AKH+ Sbjct: 141 IEVQSLIYDLFTASLSDQTDTHSAIEKTKHYIETHADTKITLAQLSQMAGISAKHY---- 196 Query: 217 TLRRLVRHSSGYPLHEYIHRLKMAEAKHLLLNTSLQVKAIAGMLHYADSFYFSRLFKKYM 276 + +G + E+I + ++ +AK L+ ++ ++K IA Y D FYFSR+FKKY Sbjct: 197 --SESFKKWTGQSVTEFITKTRITKAKRLMAKSNCKLKEIAHQTGYQDEFYFSRIFKKYT 254 Query: 277 GVSP 280 G SP Sbjct: 255 GCSP 258 >ref|NP_563003.1| two-component response regulator [Clostridium perfringens] dbj|BAB81793.1| two-component response regulator [Clostridium perfringens str. 13] Length = 507 Score = 69.7 bits (169), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 35/92 (38%), Positives = 53/92 (57%) Query: 194 LNACIYGLPDLQGIAAKHHISMSTLRRLVRHSSGYPLHEYIHRLKMAEAKHLLLNTSLQV 253 +N Y L+ +A K+HI+ S L ++ G EY+++ K +AK L+LNT++++ Sbjct: 412 VNENYYEEVSLKTLAQKYHINTSYLGQVFTKEVGCSFSEYLNKTKNMKAKELILNTNMKI 471 Query: 254 KAIAGMLHYADSFYFSRLFKKYMGVSPLICRN 285 IA + Y D+ YF R FKKY GV P RN Sbjct: 472 NDIAKKVGYLDTSYFYRKFKKYYGVCPSTLRN 503 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.325 0.140 0.432 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 433,308,669 Number of extensions: 17843618 Number of successful extensions: 47926 Number of sequences better than 1.0e-05: 59 Number of HSP's gapped: 48003 Number of HSP's successfully gapped: 59 Length of query: 287 Length of database: 757,237,578 Length adjustment: 124 Effective length of query: 163 Effective length of database: 420,565,302 Effective search space: 68552144226 Effective search space used: 68552144226 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 125 (52.8 bits)