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= 0342.0042.p (226 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KBY2.1 B3KBY2_9BACI Response regulator receiver 299 1e-79 A9VMP2.1 A9VMP2_BACWK Two component transcriptional regulator, w... 297 4e-79 C2SMV0.1 C2SMV0_BACCE DNA-binding response regulator 297 4e-79 C2PYI2.1 C2PYI2_BACCE DNA-binding response regulator 297 6e-79 C3FVV9.1 C3FVV9_BACTB DNA-binding response regulator 296 7e-79 >B3KBY2.1 B3KBY2_9BACI Response regulator receiver Length = 224 Score = 299 bits (765), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 141/223 (63%), Positives = 179/223 (80%), Gaps = 1/223 (0%) Query: 1 MVKILIVDDDPHIRALMRLYLKNEGFDLAEADNGIDAHAIVKGSGIDLVILDIMMPHMDG 60 M IL+ DDD +IR L+ L+L+N+GF EA +G +A ++ + +DLV+LDIMMP MDG Sbjct: 1 MPTILVADDDANIRELVCLFLRNDGFTTVEAADGKEALSVYGSTPVDLVVLDIMMPMMDG 60 Query: 61 WELCQAIRISDPDIPLLMVTAKGESAQKIKGFQLGTDDYMTKPFDPVELVMRVKALLRRS 120 W LC+ +R ++PD+PLLM+TA+GE+ +K+KGF+LGTDDY+TKPFDP+EL +RVKALL+R Sbjct: 61 WTLCKELRRANPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELTVRVKALLKRY 120 Query: 121 RIASSQVIALGEIVLNRKTYKVMRGDEELTLPLKEFELLFVLAGHPGQIFTREQLITQIW 180 RI S+Q I G ++L+R+TYKV G E LTLPLKEFELL+ LAG PGQ++TREQLI QIW Sbjct: 121 RIGSTQTIQFGNVILDRQTYKVSSGPETLTLPLKEFELLYKLAGTPGQVYTREQLIDQIW 180 Query: 181 GMDYEGDDRTVDVHIKRLRERFAGDVRHFRIETARSVGYRLAV 223 G+DY GDDRTVDVHIKRLRERFA FRIET R +GYRL V Sbjct: 181 GIDYAGDDRTVDVHIKRLRERFA-TTPDFRIETVRGLGYRLEV 222 >A9VMP2.1 A9VMP2_BACWK Two component transcriptional regulator, winged helix family Length = 224 Score = 297 bits (761), Expect = 4e-79, Method: Compositional matrix adjust. Identities = 141/223 (63%), Positives = 181/223 (81%), Gaps = 1/223 (0%) Query: 1 MVKILIVDDDPHIRALMRLYLKNEGFDLAEADNGIDAHAIVKGSGIDLVILDIMMPHMDG 60 M IL+ DDD +IR L+ L+L+N+GF AEA +G +A A+ + +DLV+LDIMMP MDG Sbjct: 1 MPTILVADDDANIRELVCLFLRNDGFATAEAADGKEALAVYISTNVDLVVLDIMMPIMDG 60 Query: 61 WELCQAIRISDPDIPLLMVTAKGESAQKIKGFQLGTDDYMTKPFDPVELVMRVKALLRRS 120 W L + +R ++PD+PLLM+TA+GE+ +K+KGF+LGTDDY+TKPFDP+EL +RV+ALL+R Sbjct: 61 WTLSKELRRANPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELTVRVRALLKRY 120 Query: 121 RIASSQVIALGEIVLNRKTYKVMRGDEELTLPLKEFELLFVLAGHPGQIFTREQLITQIW 180 +I S+Q I LG ++L+R+TYKVM+G E LTLPLKEFELL+ LAG PGQ++TR QLI QIW Sbjct: 121 KIGSTQTIHLGNVILDRQTYKVMKGTESLTLPLKEFELLYKLAGTPGQVYTRVQLIDQIW 180 Query: 181 GMDYEGDDRTVDVHIKRLRERFAGDVRHFRIETARSVGYRLAV 223 G+DY GDDRTVDVHIKRLRERFA FRIET R +GYRL V Sbjct: 181 GIDYAGDDRTVDVHIKRLRERFA-TTHDFRIETVRGLGYRLEV 222 >C2SMV0.1 C2SMV0_BACCE DNA-binding response regulator Length = 233 Score = 297 bits (761), Expect = 4e-79, Method: Compositional matrix adjust. Identities = 141/223 (63%), Positives = 181/223 (81%), Gaps = 1/223 (0%) Query: 1 MVKILIVDDDPHIRALMRLYLKNEGFDLAEADNGIDAHAIVKGSGIDLVILDIMMPHMDG 60 M IL+ DDD +IR L+ L+L+N+GF AEA +G +A A+ + +DLV+LDIMMP MDG Sbjct: 10 MPTILVADDDANIRELVCLFLRNDGFATAEAADGKEALAVYISTNVDLVVLDIMMPIMDG 69 Query: 61 WELCQAIRISDPDIPLLMVTAKGESAQKIKGFQLGTDDYMTKPFDPVELVMRVKALLRRS 120 W L + +R ++PD+PLLM+TA+GE+ +K+KGF+LGTDDY+TKPFDP+EL +RV+ALL+R Sbjct: 70 WTLSKELRRANPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELTVRVRALLKRY 129 Query: 121 RIASSQVIALGEIVLNRKTYKVMRGDEELTLPLKEFELLFVLAGHPGQIFTREQLITQIW 180 +I S+Q I LG ++L+R+TYKVM+G E LTLPLKEFELL+ LAG PGQ++TR QLI QIW Sbjct: 130 KIGSTQTIHLGNVILDRQTYKVMKGTESLTLPLKEFELLYKLAGTPGQVYTRVQLIDQIW 189 Query: 181 GMDYEGDDRTVDVHIKRLRERFAGDVRHFRIETARSVGYRLAV 223 G+DY GDDRTVDVHIKRLRERFA FRIET R +GYRL V Sbjct: 190 GIDYAGDDRTVDVHIKRLRERFAT-THDFRIETVRGLGYRLEV 231 >C2PYI2.1 C2PYI2_BACCE DNA-binding response regulator Length = 233 Score = 297 bits (760), Expect = 6e-79, Method: Compositional matrix adjust. Identities = 141/223 (63%), Positives = 181/223 (81%), Gaps = 1/223 (0%) Query: 1 MVKILIVDDDPHIRALMRLYLKNEGFDLAEADNGIDAHAIVKGSGIDLVILDIMMPHMDG 60 M IL+ DDD +IR L+ L+L+N+GF AEA +G +A A+ + +DLV+LDIMMP MDG Sbjct: 10 MPTILVADDDANIRELVCLFLRNDGFATAEAADGKEALAVYISTNVDLVVLDIMMPIMDG 69 Query: 61 WELCQAIRISDPDIPLLMVTAKGESAQKIKGFQLGTDDYMTKPFDPVELVMRVKALLRRS 120 W L + +R ++PD+PLLM+TA+GE+ +K+KGF+LGTDDY+TKPFDP+EL +RV+ALL+R Sbjct: 70 WTLSKELRRANPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELTVRVRALLKRY 129 Query: 121 RIASSQVIALGEIVLNRKTYKVMRGDEELTLPLKEFELLFVLAGHPGQIFTREQLITQIW 180 +I S+Q I LG ++L+R+TYKVM+G E LTLPLKEFELL+ LAG PGQ++TR QLI QIW Sbjct: 130 KIGSTQTIHLGNVILDRQTYKVMKGTESLTLPLKEFELLYKLAGTPGQVYTRVQLIDQIW 189 Query: 181 GMDYEGDDRTVDVHIKRLRERFAGDVRHFRIETARSVGYRLAV 223 G+DY GDDRTVDVHIKRLRERFA FRIET R +GYRL V Sbjct: 190 GIDYAGDDRTVDVHIKRLRERFAT-TPDFRIETVRGLGYRLEV 231 >C3FVV9.1 C3FVV9_BACTB DNA-binding response regulator Length = 233 Score = 296 bits (759), Expect = 7e-79, Method: Compositional matrix adjust. Identities = 142/223 (63%), Positives = 180/223 (80%), Gaps = 1/223 (0%) Query: 1 MVKILIVDDDPHIRALMRLYLKNEGFDLAEADNGIDAHAIVKGSGIDLVILDIMMPHMDG 60 M IL+ DDD +IR L+ L+L+N+GF AEA +G +A A+ IDLV+LDIMMP MDG Sbjct: 10 MPTILVADDDANIRELVCLFLRNDGFATAEAADGKEALAVYISKNIDLVVLDIMMPIMDG 69 Query: 61 WELCQAIRISDPDIPLLMVTAKGESAQKIKGFQLGTDDYMTKPFDPVELVMRVKALLRRS 120 W L + +R ++PD+PLLM+TA+GE+ +K+KGF+LGTDDY+TKPFDP+EL +RV+ALL+R Sbjct: 70 WTLSKELRRANPDLPLLMLTARGETWEKVKGFELGTDDYLTKPFDPLELTVRVRALLKRY 129 Query: 121 RIASSQVIALGEIVLNRKTYKVMRGDEELTLPLKEFELLFVLAGHPGQIFTREQLITQIW 180 +I S+Q I LG ++L+R+TYKVM+G E LTLPLKEFELL+ LAG PGQ++TR QLI QIW Sbjct: 130 KIGSTQTIHLGNVILDRQTYKVMKGTESLTLPLKEFELLYKLAGTPGQVYTRVQLIDQIW 189 Query: 181 GMDYEGDDRTVDVHIKRLRERFAGDVRHFRIETARSVGYRLAV 223 G+DY GDDRTVDVHIKRLRERFA FRIET R +GYRL V Sbjct: 190 GIDYAGDDRTVDVHIKRLRERFAT-TPDFRIETVRGLGYRLEV 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 0.324 0.142 0.416 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: 1,314,432,274 Number of extensions: 52630098 Number of successful extensions: 213970 Number of sequences better than 1.0e-05: 33828 Number of HSP's gapped: 182250 Number of HSP's successfully gapped: 34032 Length of query: 226 Length of database: 3,060,696,203 Length adjustment: 131 Effective length of query: 95 Effective length of database: 1,826,543,238 Effective search space: 173521607610 Effective search space used: 173521607610 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: 41 (22.0 bits) S2: 129 (54.3 bits)