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= 0502.0013.p (285 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1DF55.1 B1DF55_9BACL Transcriptional regulator, LacI family 208 4e-52 B3KJN3.1 B3KJN3_9BACI Regulatory protein LacI 167 1e-39 B3KJN2.1 B3KJN2_9BACI Ribose operon repressor 153 2e-35 B1DAP6.1 B1DAP6_9BACL Transcriptional regulator, LacI family EC=... 120 2e-25 A3UQG9.1 A3UQG9_VIBSP Transcriptional regulator 117 2e-24 >B1DF55.1 B1DF55_9BACL Transcriptional regulator, LacI family Length = 300 Score = 208 bits (530), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 106/218 (48%), Positives = 139/218 (63%), Gaps = 5/218 (2%) Query: 39 VLAAARELGYTPXXXXXXXXXXXXGNLGVIMPYLPKARLFSAYYFSEILSGIGSRAXXXX 98 +L AA+ELGY P GN+GVI+P++PK LFS YYF+EILSGIG A Sbjct: 1 MLEAAKELGYVPNSLAQRFARRKSGNVGVILPFVPKVHLFSTYYFAEILSGIGEAAKAC- 59 Query: 99 EEGYDLLMIFRDADEPLDYCGLFRMRKVDACIVXXXXXXXXXXXXXRQLKQEGHPYCLIN 158 YDLL+IFR+ D P DY LFR +KVDACIV +L++EG+P+CL+N Sbjct: 60 --NYDLLLIFREQDSPRDYAKLFRTQKVDACIVLGAQNVAEERAALAELQEEGYPFCLVN 117 Query: 159 QHFAGEGFHEVDADHVEGCQLAVKHLLQQGFTRIAFLNGPLAYSNSRDRLEGYMRAFQEA 218 Q F EG+ VDADH G AV+HL+ GF +IAFLNGP A+S+S DRL GY RA +E+ Sbjct: 118 QRFDEEGYLTVDADHESGSYTAVQHLIANGFKQIAFLNGPDAFSSSGDRLAGYKRALEES 177 Query: 219 GIPADPSLLFEGNFSRRSGIAAAQAIAPQLE--RIEAV 254 GI + +F GN+SR+SG AA + ++ +I+AV Sbjct: 178 GIRHEEKRIFTGNYSRKSGYEAASRLVEGIKSRQIDAV 215 >B3KJN3.1 B3KJN3_9BACI Regulatory protein LacI Length = 133 Score = 167 bits (423), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 84/128 (65%), Positives = 99/128 (77%), Gaps = 3/128 (2%) Query: 4 IASRKEVAELAGVSEATVSRVLNNVGPLKEKTKEKVLAAARELGYTPXXXXXXXXXXXXG 63 IASRKEVA+LAGVSEATVSRVLN VGP+KE+TK++VL AA LGYTP G Sbjct: 3 IASRKEVAQLAGVSEATVSRVLNGVGPIKEETKQRVLEAADRLGYTPSALARSFARRRSG 62 Query: 64 NLGVIMPYLPKARLFSAYYFSEILSGIGSRAXXXXEEGYDLLMIFRDADEPLDYCGLFRM 123 NLGV+MP+LPKAR+FSAYYFSEILSGIGS+A E +DLLM+FR+ +DY LFR Sbjct: 63 NLGVVMPHLPKARIFSAYYFSEILSGIGSKA---LESKHDLLMLFREPGGSMDYLNLFRT 119 Query: 124 RKVDACIV 131 +KVDACI+ Sbjct: 120 QKVDACII 127 >B3KJN2.1 B3KJN2_9BACI Ribose operon repressor Length = 228 Score = 153 bits (386), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 75/110 (68%), Positives = 86/110 (78%) Query: 145 RQLKQEGHPYCLINQHFAGEGFHEVDADHVEGCQLAVKHLLQQGFTRIAFLNGPLAYSNS 204 +QL + PYCLINQ+F GE FH +DADHVEG AV HL+ QGF +IAFLNGP YSNS Sbjct: 19 KQLSEADRPYCLINQYFDGEAFHVMDADHVEGSYQAVHHLIGQGFRQIAFLNGPPQYSNS 78 Query: 205 RDRLEGYMRAFQEAGIPADPSLLFEGNFSRRSGIAAAQAIAPQLERIEAV 254 RDRL+GY RA EAGI D SLLFEGNFSR+SG AAA+ IA +L+RIEAV Sbjct: 79 RDRLKGYTRALNEAGIKPDESLLFEGNFSRKSGYAAAELIAGKLDRIEAV 128 >B1DAP6.1 B1DAP6_9BACL Transcriptional regulator, LacI family EC=5.1.1.1 Length = 344 Score = 120 bits (300), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 81/248 (32%), Positives = 124/248 (50%), Gaps = 14/248 (5%) Query: 8 KEVAELAGVSEATVSRVLNNVGPLKEKTKEKVLAAARELGYTPXXXXXXXXXXXXGNLGV 67 K++A+ AGVS +TVSRV++N + ++T +V E+GY P L + Sbjct: 5 KDIAKAAGVSPSTVSRVVSNHPRISKETSARVKKIMEEMGYHPNVMAKSLVSKTTKTLAI 64 Query: 68 IMPYLPKARLFSAYYFSEILSGIGSRAXXXXEEGYDLLMIFRDA--DEPLDYCGLFRMRK 125 ++P P LF ++F E+L GI + + GYD+L+ + DE L R+ Sbjct: 65 MLPR-PAEELFQDFFFGELLRGILTHST---RAGYDMLLTTATSAHDETETISRLVFGRR 120 Query: 126 VDACIVXXXXXXXXXXXXXRQLKQEGHPYCLINQHFAGEGFHEV---DADHVEGCQLAVK 182 VD I+ R L ++ P LI + AGE + V + D+V+ A + Sbjct: 121 VDGVILLSARVNDPLI---RYLHEQDFPSILIGR--AGEEYSRVMTVNNDNVQAAYDATQ 175 Query: 183 HLLQQGFTRIAFLNGPLAYSNSRDRLEGYMRAFQEAGIPADPSLLFEGNFSRRSGIAAAQ 242 HL++QG +RI F++GP + S DRLEGY +A +EAG+P + EG F + SG A Sbjct: 176 HLIKQGHSRIGFVSGPTNLTVSNDRLEGYKKAMREAGLPMQSEWIVEGEFLQESGFRAMS 235 Query: 243 AIAPQLER 250 I ER Sbjct: 236 FIMGLPER 243 >A3UQG9.1 A3UQG9_VIBSP Transcriptional regulator Length = 335 Score = 117 bits (292), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 80/243 (32%), Positives = 122/243 (50%), Gaps = 14/243 (5%) Query: 4 IASRKEVAELAGVSEATVSRVLNNVGPLKEKTKEKVLAAARELGYTPXXXXXXXXXXXXG 63 +A+ K V+E AGVS+ATVSRV+N + K KV A +ELGY P G Sbjct: 1 MATIKHVSEHAGVSQATVSRVINGTSRVSHDKKLKVEKAIKELGYRPNSIAQALASSRTG 60 Query: 64 NLGVIMPYLPKARLFSAYYFSEILSGIGSRAXXXXEEGYDLLMIFRDADEP--LDYCGLF 121 ++GV++P L ++S IL I GY ++ E + Sbjct: 61 SVGVVVPEL------GGSFYSGILHCIEENLRRF---GYHAVVTAGSNTEQGQRESVEFL 111 Query: 122 RMRKVDACIVXXXXXXXXXXXXXRQLKQEGHPYCLINQHFAGEGFHEVDADHVEGCQLAV 181 R+VDA I+ +L+++G P LIN+ +D D+ G LA Sbjct: 112 LGRRVDALILHTQLLSDDYLI---ELEEQGTPVVLINRFIPEMAMSCIDIDNEVGGLLAT 168 Query: 182 KHLLQQGFTRIAFLNGPLAYSNSRDRLEGYMRAFQEAGIPADPSLLFEGNFSRRSGIAAA 241 +HLLQ+G T IA + GPL +++R RL+GY +A +EAG+P D +L+ E F+ +GI+A Sbjct: 169 QHLLQKGHTDIACITGPLDKADARGRLQGYRKALEEAGVPYDEALVSEAGFTEETGISAM 228 Query: 242 QAI 244 + + Sbjct: 229 KKL 231 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 0.321 0.138 0.401 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: 1,307,273,790 Number of extensions: 45572371 Number of successful extensions: 109942 Number of sequences better than 1.0e-05: 3743 Number of HSP's gapped: 107653 Number of HSP's successfully gapped: 3745 Length of query: 285 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 151 Effective length of database: 1,798,280,193 Effective search space: 271540309143 Effective search space used: 271540309143 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)