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= 0334.0002.p (207 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value C3AF23.1 C3AF23_BACMY Two component transcriptional regulator, LuxR 145 3e-33 C2ZYG7.1 C2ZYG7_BACCE Two component transcriptional regulator, LuxR 144 4e-33 C2Z9I8.1 C2Z9I8_BACCE Two component transcriptional regulator, LuxR 144 4e-33 C5D3Y5.1 C5D3Y5_9BACI Two component transcriptional regulator, L... 144 4e-33 B7GMR0.1 B7GMR0_ANOFW DNA-binding response regulator, NarL famil... 129 1e-28 >C3AF23.1 C3AF23_BACMY Two component transcriptional regulator, LuxR Length = 188 Score = 145 bits (365), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 73/179 (40%), Positives = 118/179 (65%), Gaps = 1/179 (0%) Query: 24 LEQEQDIRVIEAFADPRHLLEQIGVLKPDVLVLDVSLPHLDGFSLAKLLKKDYGSSLKII 83 LE E+DI VI DP L++ + +PDV+V D+ + +G L K L + +K++ Sbjct: 8 LESEEDIEVINTVHDPSILIKTVEDTRPDVIVTDIRMKQYNGIELTKDLLSKF-PDVKVV 66 Query: 84 MLSGYTYDEFYRKAYELGVNAYLSKQASYAQIINAIRQSMSGHLLVPERIFNTSAQDKLT 143 +LSGY ++E+Y A+E G +AY++K+ S + NAIRQS G++L + + + LT Sbjct: 67 ILSGYDHEEYYNAAFEAGASAYITKERSAFDLANAIRQSHMGYILFSKNQIMGNNIEALT 126 Query: 144 PVEREVLLRVAREMNNREIARDLAISQRTVEYHLTAILQKLGVKSRVGAVAKGYELGVL 202 E+ +LL ++++ N EI+ DL+IS+RTVEYH+++I++KLGV SRVGAV KG + G++ Sbjct: 127 SAEQRILLLISKDKTNYEISTDLSISKRTVEYHISSIIRKLGVDSRVGAVVKGIKKGLI 185 >C2ZYG7.1 C2ZYG7_BACCE Two component transcriptional regulator, LuxR Length = 188 Score = 144 bits (364), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 73/179 (40%), Positives = 118/179 (65%), Gaps = 1/179 (0%) Query: 24 LEQEQDIRVIEAFADPRHLLEQIGVLKPDVLVLDVSLPHLDGFSLAKLLKKDYGSSLKII 83 LE E+DI VI DP L++ + +PDV+V D+ + +G L K L + +K++ Sbjct: 8 LESEEDIEVINTVHDPSILIKTVEDTRPDVIVTDIRMKQYNGIELTKDLLSKF-PDVKVV 66 Query: 84 MLSGYTYDEFYRKAYELGVNAYLSKQASYAQIINAIRQSMSGHLLVPERIFNTSAQDKLT 143 +LSGY ++E+Y A+E G +AY++K+ S + NAIRQS G++L + + + LT Sbjct: 67 ILSGYDHEEYYNAAFEAGASAYITKERSAFDLANAIRQSHMGYILFSKNQIIGNNIEALT 126 Query: 144 PVEREVLLRVAREMNNREIARDLAISQRTVEYHLTAILQKLGVKSRVGAVAKGYELGVL 202 E+ +LL ++++ N EI+ DL+IS+RTVEYH+++I++KLGV SRVGAV KG + G++ Sbjct: 127 SAEQRILLLISKDKTNYEISTDLSISKRTVEYHISSIIRKLGVDSRVGAVVKGIKKGLI 185 >C2Z9I8.1 C2Z9I8_BACCE Two component transcriptional regulator, LuxR Length = 188 Score = 144 bits (364), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 73/179 (40%), Positives = 118/179 (65%), Gaps = 1/179 (0%) Query: 24 LEQEQDIRVIEAFADPRHLLEQIGVLKPDVLVLDVSLPHLDGFSLAKLLKKDYGSSLKII 83 LE E+DI VI DP L++ + +PDV+V D+ + +G L K L + +K++ Sbjct: 8 LESEEDIEVINTVHDPSILIKTVEDTRPDVIVTDIRMKQYNGIELTKDLLSKF-PDVKVV 66 Query: 84 MLSGYTYDEFYRKAYELGVNAYLSKQASYAQIINAIRQSMSGHLLVPERIFNTSAQDKLT 143 +LSGY ++E+Y A+E G +AY++K+ S + NAIRQS G++L + + + LT Sbjct: 67 ILSGYDHEEYYNAAFEAGASAYITKERSAFDLANAIRQSHMGYILFSKNQIIGNNIEALT 126 Query: 144 PVEREVLLRVAREMNNREIARDLAISQRTVEYHLTAILQKLGVKSRVGAVAKGYELGVL 202 E+ +LL ++++ N EI+ DL+IS+RTVEYH+++I++KLGV SRVGAV KG + G++ Sbjct: 127 SAEQRILLLISKDKTNYEISTDLSISKRTVEYHISSIIRKLGVDSRVGAVVKGIKKGLI 185 >C5D3Y5.1 C5D3Y5_9BACI Two component transcriptional regulator, LuxR family Length = 199 Score = 144 bits (364), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 81/199 (40%), Positives = 126/199 (63%), Gaps = 4/199 (2%) Query: 5 IRVILIDDHPLVMDSLRARLEQEQDIRVIEAFADPRHLLEQIGVLKPDVLVLDVSLPHLD 64 I+V+L+DDH LVM ++ LE E D+ V+ P L E+I PDV+V+D+ + + + Sbjct: 3 IKVLLVDDHLLVMLGIQQLLENEADLEVVNTICHPARLEEEIIKHNPDVIVMDIRMKNDN 62 Query: 65 GFSLAKLLKKDYGSSLKIIMLSGYTYDEFYRKAYELGVNAYLSKQASYAQIINAIRQSMS 124 G K + + Y + K+++LSGY YDE+ AYE G A+++K+ S ++ NAIRQS Sbjct: 63 GIEWTKKIAETY-PTCKVVILSGYDYDEYIHAAYEAGAYAFVTKENSAFELANAIRQSHL 121 Query: 125 GHLLVP-ERIFNTSAQDKLTPVEREVLLRVAREMNNREIARDLAISQRTVEYHLTAILQK 183 G P +R+ N ++ LT +E +L ++ + N EI+ L IS+RTVE+H+++IL+K Sbjct: 122 GIKSFPIDRLSNYNS--PLTKIELNILQLISEDKTNTEISELLNISRRTVEHHVSSILRK 179 Query: 184 LGVKSRVGAVAKGYELGVL 202 L V SRVGAV K +LG+L Sbjct: 180 LDVDSRVGAVVKAMKLGIL 198 >B7GMR0.1 B7GMR0_ANOFW DNA-binding response regulator, NarL family (REC-HTH domains) Length = 206 Score = 129 bits (324), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 72/200 (36%), Positives = 116/200 (58%), Gaps = 2/200 (1%) Query: 5 IRVILIDDHPLVMDSLRARLEQEQDIRVIEAFADPRHLLEQIGVLKPDVLVLDVSLPHLD 64 I+V+L+DDH L+++ ++ L +E+D+ V+ L E I L P V+V+D+ L + Sbjct: 9 IKVLLVDDHALMIEGVKELLGREEDMHVVGTVLHLSQLQESIETLNPHVIVMDIRLKDGN 68 Query: 65 GFSLAKLLKKDYGSSLKIIMLSGYTYDEFYRKAYELGVNAYLSKQASYAQIINAIRQSMS 124 G K +K Y K+++LSGY Y E+ R A G +A++ K+ S Q+ NAIR + Sbjct: 69 GLEWTKKMKMLY-PDCKVVILSGYNYSEYIRAAKHAGASAFVVKEESILQLANAIRGAYE 127 Query: 125 GHLLVPERIFNTSAQDKLTPVEREVLLRVAREMNNREIARDLAISQRTVEYHLTAILQKL 184 G P + + LT +E +L +A++ N I+ L IS+RTVE+H++ I++KL Sbjct: 128 GFAFFPNDV-DEEENISLTKMELVILKLIAQDKTNENISHSLNISRRTVEHHVSTIIKKL 186 Query: 185 GVKSRVGAVAKGYELGVLGP 204 V SRVGAV K + G++ P Sbjct: 187 RVDSRVGAVVKAIKEGIIEP 206 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 0.377 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: 1,126,847,574 Number of extensions: 42352916 Number of successful extensions: 214649 Number of sequences better than 1.0e-05: 8733 Number of HSP's gapped: 215554 Number of HSP's successfully gapped: 8734 Length of query: 207 Length of database: 3,060,696,203 Length adjustment: 129 Effective length of query: 78 Effective length of database: 1,845,385,268 Effective search space: 143940050904 Effective search space used: 143940050904 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 (21.8 bits) S2: 128 (53.9 bits)