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= 0557.0044.p (162 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K8B9.1 B3K8B9_9BACI RNA polymerase sigma factor, sigma-70 family 209 5e-53 B9E2G5.1 B9E2G5_CLOK1 Putative uncharacterized protein 189 5e-47 A5N927.1 A5N927_CLOK5 Predicted sigma factor 189 5e-47 A6TUR2.1 A6TUR2_ALKMQ RNA polymerase, sigma-24 subunit, ECF subf... 184 3e-45 A5ZN28.1 A5ZN28_9FIRM Putative uncharacterized protein 176 4e-43 >B3K8B9.1 B3K8B9_9BACI RNA polymerase sigma factor, sigma-70 family Length = 162 Score = 209 bits (533), Expect = 5e-53, Method: Compositional matrix adjust. Identities = 100/162 (61%), Positives = 125/162 (77%), Gaps = 1/162 (0%) Query: 1 VADVEQIYEQYFQDVYLFALSLSRDQQIAEEITQETFVKAVKNIDQFKGNCKISVWLCQI 60 + D+ QIY Q+FQDVY F LSLSRD+ +AEE+TQETF KA+K+ID F+G CK+SVWLCQI Sbjct: 1 MTDLHQIYHQHFQDVYRFLLSLSRDEHVAEELTQETFFKALKHIDSFQGTCKLSVWLCQI 60 Query: 61 AKNTYFKYMDKQKRDLGNPQEIMQGNSLSMEQKLIDKTEALRIHKLLHGLKEPYKEVFTL 120 AK+TYF Y+DKQKR PQ I G+ + + +++ EA RIH++LH + EPYKEVFTL Sbjct: 61 AKHTYFSYLDKQKRYEPAPQ-IDHGSGQDIAFQTVERAEAFRIHQILHRMDEPYKEVFTL 119 Query: 121 RVFGELSFDHISEVFGRTESWARVTFHRARNIIQDLLMEENR 162 RVFGELSF IS +FG+TESWARVTF RA+ IQ L E N+ Sbjct: 120 RVFGELSFGEISRLFGKTESWARVTFFRAKQKIQSLYKEGNQ 161 >B9E2G5.1 B9E2G5_CLOK1 Putative uncharacterized protein Length = 159 Score = 189 bits (481), Expect = 5e-47, Method: Compositional matrix adjust. Identities = 94/161 (58%), Positives = 120/161 (74%), Gaps = 4/161 (2%) Query: 1 VADVEQIYEQYFQDVYLFALSLSRDQQIAEEITQETFVKAVKNIDQFKGNCKISVWLCQI 60 + + E+IY YF+DVY F L+LS+++ +AEEITQETF KA+KNID+F+GNCKI VWLCQI Sbjct: 1 MKNFEKIYNLYFEDVYRFILTLSQNKVLAEEITQETFFKALKNIDKFRGNCKIKVWLCQI 60 Query: 61 AKNTYFKYMDKQKRDLGN-PQEIMQGNSLSMEQKLIDKTEALRIHKLLHGLKEPYKEVFT 119 AKNTYF + QKR + + P ++ N E L D+ +A IHK LH + EPYKEVFT Sbjct: 61 AKNTYFSHQKHQKRYVYDEPPKLTDNN---FESILYDREQAFEIHKALHCMDEPYKEVFT 117 Query: 120 LRVFGELSFDHISEVFGRTESWARVTFHRARNIIQDLLMEE 160 LRVFGELSF I E+F +TESWARVTF+RA+ IQ+L+ E Sbjct: 118 LRVFGELSFKQICEIFEKTESWARVTFYRAKQKIQNLMKGE 158 >A5N927.1 A5N927_CLOK5 Predicted sigma factor Length = 159 Score = 189 bits (481), Expect = 5e-47, Method: Compositional matrix adjust. Identities = 94/161 (58%), Positives = 120/161 (74%), Gaps = 4/161 (2%) Query: 1 VADVEQIYEQYFQDVYLFALSLSRDQQIAEEITQETFVKAVKNIDQFKGNCKISVWLCQI 60 + + E+IY YF+DVY F L+LS+++ +AEEITQETF KA+KNID+F+GNCKI VWLCQI Sbjct: 1 MKNFEKIYNLYFEDVYRFILTLSQNKVLAEEITQETFFKALKNIDKFRGNCKIKVWLCQI 60 Query: 61 AKNTYFKYMDKQKRDLGN-PQEIMQGNSLSMEQKLIDKTEALRIHKLLHGLKEPYKEVFT 119 AKNTYF + QKR + + P ++ N E L D+ +A IHK LH + EPYKEVFT Sbjct: 61 AKNTYFSHQKHQKRYVYDEPPKLTDNN---FESILYDREQAFEIHKALHCMDEPYKEVFT 117 Query: 120 LRVFGELSFDHISEVFGRTESWARVTFHRARNIIQDLLMEE 160 LRVFGELSF I E+F +TESWARVTF+RA+ IQ+L+ E Sbjct: 118 LRVFGELSFKQICEIFEKTESWARVTFYRAKQKIQNLMKGE 158 >A6TUR2.1 A6TUR2_ALKMQ RNA polymerase, sigma-24 subunit, ECF subfamily Length = 160 Score = 184 bits (466), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 89/157 (56%), Positives = 115/157 (73%), Gaps = 2/157 (1%) Query: 1 VADVEQIYEQYFQDVYLFALSLSRDQQIAEEITQETFVKAVKNIDQFKGNCKISVWLCQI 60 + D +IY +YF DVY + LS+SRD+ IAEE+TQETF KA++NI+QF G+CK+ VWLCQI Sbjct: 1 MTDFGEIYVEYFSDVYKYVLSMSRDETIAEEVTQETFFKAMQNINQFNGSCKLYVWLCQI 60 Query: 61 AKNTYFKYMDKQKRD-LGNPQEIMQGNS-LSMEQKLIDKTEALRIHKLLHGLKEPYKEVF 118 AKNTYF KQKR LG E + S + +E +DK A R+H LLH L EPYKEVF Sbjct: 61 AKNTYFTLYKKQKRTVLGMDTEFLDRTSNVELETDYLDKEAARRLHVLLHNLNEPYKEVF 120 Query: 119 TLRVFGELSFDHISEVFGRTESWARVTFHRARNIIQD 155 TLRVFGELSF I E++ +T+SWAR+ F+RA+ +Q+ Sbjct: 121 TLRVFGELSFSQIGELYEKTDSWARLIFYRAKKQLQE 157 >A5ZN28.1 A5ZN28_9FIRM Putative uncharacterized protein Length = 164 Score = 176 bits (447), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 85/161 (52%), Positives = 118/161 (73%), Gaps = 1/161 (0%) Query: 3 DVEQIYEQYFQDVYLFALSLSRDQQIAEEITQETFVKAVKNIDQFKGNCKISVWLCQIAK 62 +++++YEQYF VY + LSLS + IAEE+TQETF KA+K +D F+G+C + VWLCQI+K Sbjct: 3 NIQEVYEQYFTVVYRYLLSLSHNTHIAEELTQETFFKALKKVDDFRGDCDLRVWLCQISK 62 Query: 63 NTYFKYMDKQKRDLGNPQEIMQGNSLS-MEQKLIDKTEALRIHKLLHGLKEPYKEVFTLR 121 NTY+ Y+ K K+ Q+ + + S + Q DK AL++HK+LH L EPYKEVF+LR Sbjct: 63 NTYYDYLKKNKKYAPESQDEKEESFPSDLLQNFSDKETALQVHKVLHRLSEPYKEVFSLR 122 Query: 122 VFGELSFDHISEVFGRTESWARVTFHRARNIIQDLLMEENR 162 VFGELSF IS +FG++ESWARVT+HRA I++ L E++ Sbjct: 123 VFGELSFGTISSLFGKSESWARVTYHRACKKIREELDHEDQ 163 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 0.322 0.136 0.391 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: 871,691,293 Number of extensions: 31531134 Number of successful extensions: 91290 Number of sequences better than 1.0e-05: 1549 Number of HSP's gapped: 91549 Number of HSP's successfully gapped: 1549 Length of query: 162 Length of database: 3,060,696,203 Length adjustment: 122 Effective length of query: 40 Effective length of database: 1,911,332,373 Effective search space: 76453294920 Effective search space used: 76453294920 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: 126 (53.1 bits)