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= 0359.0008.p (188 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Q5WK45.1 Q5WK45_BACSK Two-component response regulator of nitrat... 259 1e-67 B3KJ67.1 B3KJ67_9BACI Response regulator receiver 254 2e-66 B9E9D8.1 B9E9D8_MACCJ Two-component response regulator NreC 239 1e-61 Q7WZY4.1 NREC_STACT Oxygen regulatory protein nreC 238 3e-61 Q5HLK6.1 NREC_STAEQ Oxygen regulatory protein nreC 234 4e-60 >Q5WK45.1 Q5WK45_BACSK Two-component response regulator of nitrate reduction Length = 215 Score = 259 bits (661), Expect = 1e-67, Method: Compositional matrix adjust. Identities = 121/157 (77%), Positives = 143/157 (91%) Query: 8 MKIVIADDHAMVRSGFSMILNFQDDIEVIGAAADGIEAYAMVAKRRPDILIMDLSMPPGE 67 MKIVIADDHA+VRSGFSMILN+Q D+EV+ AADG+EAYAMVA+ RPD+L+MDLSMPPGE Sbjct: 1 MKIVIADDHAVVRSGFSMILNYQPDMEVVATAADGLEAYAMVARHRPDVLLMDLSMPPGE 60 Query: 68 SGLIATGKIKEDYPDTKILILTMHDDEEYLFHVLKNGASGYVLKSAPDEELLLAIRTIYE 127 SGLIATGKI ++PDTKI+ILTM+DDE+YLFHVLKNGA+GYVLK+APD+ELL AIRT++ Sbjct: 61 SGLIATGKISSEFPDTKIIILTMYDDEDYLFHVLKNGAAGYVLKNAPDDELLSAIRTVHS 120 Query: 128 GGTYIHPKMATSLVREFIKKDKTASTEDLFELLSKRE 164 GGTYIHP+MATSLVREFIKKD + +DLF LS+RE Sbjct: 121 GGTYIHPQMATSLVREFIKKDSERAEQDLFNGLSQRE 157 >B3KJ67.1 B3KJ67_9BACI Response regulator receiver Length = 215 Score = 254 bits (650), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 119/157 (75%), Positives = 143/157 (91%) Query: 8 MKIVIADDHAMVRSGFSMILNFQDDIEVIGAAADGIEAYAMVAKRRPDILIMDLSMPPGE 67 MKIVIADDHA+VRSGFSMILN+Q+D+EV+ AADGIEAYAMVAK RP +L+MDLSMPPGE Sbjct: 1 MKIVIADDHAVVRSGFSMILNYQEDMEVVATAADGIEAYAMVAKHRPHVLLMDLSMPPGE 60 Query: 68 SGLIATGKIKEDYPDTKILILTMHDDEEYLFHVLKNGASGYVLKSAPDEELLLAIRTIYE 127 SGLIATGKI ++P+TKILILTM+DD++YLFHVLKNGASGYVLK+APD+EL+ AIR +++ Sbjct: 61 SGLIATGKISSEFPETKILILTMYDDDDYLFHVLKNGASGYVLKNAPDDELISAIRMVHK 120 Query: 128 GGTYIHPKMATSLVREFIKKDKTASTEDLFELLSKRE 164 GGTYIHP+MATSLVREFIKKD ++ +D F LS+RE Sbjct: 121 GGTYIHPQMATSLVREFIKKDSESAEQDPFNSLSQRE 157 >B9E9D8.1 B9E9D8_MACCJ Two-component response regulator NreC Length = 216 Score = 239 bits (609), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 113/158 (71%), Positives = 139/158 (87%), Gaps = 1/158 (0%) Query: 8 MKIVIADDHAMVRSGFSMILNFQDDIEVIGAAADGIEAYAMVAKRRPDILIMDLSMPPGE 67 MKIVIADDHA+VR+GFSMILN+QD++EV+ AADG+EA+ MV++ +PD+LIMDLSMPPGE Sbjct: 1 MKIVIADDHAVVRTGFSMILNYQDNMEVVATAADGMEAFQMVSQYKPDVLIMDLSMPPGE 60 Query: 68 SGLIATGKIKEDYPDTKILILTMHDDEEYLFHVLKNGASGYVLKSAPDEELLLAIRTIYE 127 SGLIATGKIKE +P+TKILILTM+DDEEYLFHVLKNGA+GY+LK+APDEEL+ A+RT+Y+ Sbjct: 61 SGLIATGKIKEAFPETKILILTMYDDEEYLFHVLKNGANGYILKNAPDEELIKAVRTVYQ 120 Query: 128 GGTYIHPKMATSLVREFIKKDKTASTE-DLFELLSKRE 164 GTYI PKMATSLV E I D S + D ++L+KRE Sbjct: 121 EGTYIDPKMATSLVHELIHHDTEYSAKNDHLKILTKRE 158 >Q7WZY4.1 NREC_STACT Oxygen regulatory protein nreC Length = 217 Score = 238 bits (606), Expect = 3e-61, Method: Compositional matrix adjust. Identities = 113/159 (71%), Positives = 132/159 (83%), Gaps = 2/159 (1%) Query: 8 MKIVIADDHAMVRSGFSMILNFQDDIEVIGAAADGIEAYAMVAKRRPDILIMDLSMPPGE 67 MKIVIADDHA+VR+GFSMILNFQDD+EV+ AADG+EAY V + +PD+LIMDLSMPPGE Sbjct: 1 MKIVIADDHAVVRTGFSMILNFQDDMEVVDTAADGVEAYQKVMQHQPDVLIMDLSMPPGE 60 Query: 68 SGLIATGKIKEDYPDTKILILTMHDDEEYLFHVLKNGASGYVLKSAPDEELLLAIRTIYE 127 SGLIAT KI E +PDTKILILTM+DDEEYLFHVL+NGA GY+LK+APDE+L+ A+RT+Y Sbjct: 61 SGLIATSKIVESFPDTKILILTMYDDEEYLFHVLRNGAKGYILKNAPDEQLISAVRTVYR 120 Query: 128 GGTYIHPKMATSLVREFIKK--DKTASTEDLFELLSKRE 164 G TYI PKM TSLV EF+ ST D F +LSKRE Sbjct: 121 GDTYIDPKMTTSLVNEFVNNTGQDANSTNDPFRILSKRE 159 >Q5HLK6.1 NREC_STAEQ Oxygen regulatory protein nreC Length = 218 Score = 234 bits (596), Expect = 4e-60, Method: Compositional matrix adjust. Identities = 108/160 (67%), Positives = 137/160 (85%), Gaps = 3/160 (1%) Query: 8 MKIVIADDHAMVRSGFSMILNFQDDIEVIGAAADGIEAYAMVAKRRPDILIMDLSMPPGE 67 MKIVIADDHA+VR+GFSMILN+Q+D+EV+ AADG+EAY V + RPD+LI+DLSMPPGE Sbjct: 1 MKIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPPGE 60 Query: 68 SGLIATGKIKEDYPDTKILILTMHDDEEYLFHVLKNGASGYVLKSAPDEELLLAIRTIYE 127 SGLIAT KI E +PDTKILILTM DDEEYLFHVLK+GA GY+LK++PDE+L+LA+RT+Y+ Sbjct: 61 SGLIATSKISESFPDTKILILTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVYQ 120 Query: 128 GGTYIHPKMATSLVREFIKK---DKTASTEDLFELLSKRE 164 G TY+ K+ TSLV EF+ + D+ +S+ D F++LSKRE Sbjct: 121 GETYVDMKLTTSLVNEFVNQSQTDEVSSSSDPFKILSKRE 160 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 0.318 0.137 0.384 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: 1,011,959,303 Number of extensions: 42366983 Number of successful extensions: 151215 Number of sequences better than 1.0e-05: 7866 Number of HSP's gapped: 151631 Number of HSP's successfully gapped: 7867 Length of query: 188 Length of database: 3,060,696,203 Length adjustment: 128 Effective length of query: 60 Effective length of database: 1,854,806,283 Effective search space: 111288376980 Effective search space used: 111288376980 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: 127 (53.5 bits)