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= 0541.0068.p (192 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Q8EMX0.1 Q8EMX0_OCEIH Transcriptional antiterminator of glycerol... 169 1e-40 B0K641.1 B0K641_THEPX Glycerol-3-phosphate responsive antitermin... 162 1e-38 B0K752.1 B0K752_THEP3 Glycerol-3-phosphate responsive antitermin... 162 2e-38 Q8R8J3.1 Q8R8J3_THETN Glycerol-3-phosphate responsive antitermin... 155 2e-36 B7R8Z7.1 B7R8Z7_9THEO Glycerol-3-phosphate responsive antitermin... 155 2e-36 >Q8EMX0.1 Q8EMX0_OCEIH Transcriptional antiterminator of glycerol uptake operon Length = 188 Score = 169 bits (427), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 79/175 (45%), Positives = 120/175 (68%) Query: 13 RIIPAVRKAEDLQKACDSEWPMIFLLIGDLFTVKQYVRQGLEAGKKVFLHVDFIGGLGSD 72 ++I +V+K +DLQKA S +IFLL GDL + K+Y+ + EA K F+H+DFI GL + Sbjct: 11 QVIASVKKEQDLQKAVTSNANVIFLLTGDLLSTKKYIDRLKEANKSTFIHLDFIDGLTNS 70 Query: 73 PLVVKYIAEKIGPTGIISTKNHMVKQAKKSGLLAIQRLFLIDTSALEHGINNVRQNESDA 132 ++YIA + P GI++TK++++K AK+ L IQR+F+ID +AL G+ DA Sbjct: 71 RNAIQYIAREWKPLGIVTTKSNLIKYAKEENLATIQRIFVIDKNALAKGVEIANSVRPDA 130 Query: 133 LEVMPGLIPRVITELSSSTSRPIIAGGLIKDHQEIEAALQAGASAVSMGNPELWH 187 +E++PGL+P++I +++ T P+IAGGLI D QEI L+AGA A+S G+P LW+ Sbjct: 131 IEILPGLMPKIIDQITKQTHLPVIAGGLISDKQEIMNGLKAGALAISSGDPSLWN 185 >B0K641.1 B0K641_THEPX Glycerol-3-phosphate responsive antiterminator Length = 189 Score = 162 bits (410), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 83/186 (44%), Positives = 120/186 (64%) Query: 1 VKNGLFAGSGNHRIIPAVRKAEDLQKACDSEWPMIFLLIGDLFTVKQYVRQGLEAGKKVF 60 +K + + II AVR+A+DL A S +IFLL GD+ + + V++ K VF Sbjct: 1 MKEKILDAMRDFPIIAAVREAKDLNTALSSNAQVIFLLTGDIMNISEIVQEVKRHDKIVF 60 Query: 61 LHVDFIGGLGSDPLVVKYIAEKIGPTGIISTKNHMVKQAKKSGLLAIQRLFLIDTSALEH 120 +H D + GLG D V+Y+AEKI P GIIST+N+++ AK+ L IQRLF++D+ AL+ Sbjct: 61 VHFDLLEGLGKDNKAVEYLAEKIKPHGIISTRNNILIHAKQFDLFCIQRLFILDSQALKT 120 Query: 121 GINNVRQNESDALEVMPGLIPRVITELSSSTSRPIIAGGLIKDHQEIEAALQAGASAVSM 180 G + +Q DA+EVMPG+IP VI+E+S +P+IAGGL+K +E+ AL++GA AVS Sbjct: 121 GFASTKQIVPDAIEVMPGIIPSVISEISVDVHQPVIAGGLVKTKEEVINALKSGAIAVST 180 Query: 181 GNPELW 186 LW Sbjct: 181 SEKSLW 186 >B0K752.1 B0K752_THEP3 Glycerol-3-phosphate responsive antiterminator, GlpP Length = 189 Score = 162 bits (409), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 82/173 (47%), Positives = 116/173 (67%) Query: 14 IIPAVRKAEDLQKACDSEWPMIFLLIGDLFTVKQYVRQGLEAGKKVFLHVDFIGGLGSDP 73 II AVR+A+DL A S +IFLL GD+ + + V++ K VF+H D + GLG D Sbjct: 14 IIAAVREAKDLNTALSSNAQVIFLLTGDIMNISEIVQEVKRHDKIVFVHFDLLEGLGKDN 73 Query: 74 LVVKYIAEKIGPTGIISTKNHMVKQAKKSGLLAIQRLFLIDTSALEHGINNVRQNESDAL 133 V+Y+AEKI P GIIST+N+++ AK+ L IQRLF++D+ AL+ G + +Q DA+ Sbjct: 74 KAVEYLAEKIKPHGIISTRNNILIHAKQFDLFCIQRLFILDSQALKTGFASAKQIVPDAI 133 Query: 134 EVMPGLIPRVITELSSSTSRPIIAGGLIKDHQEIEAALQAGASAVSMGNPELW 186 EVMPG+IP VI+E+S +P+IAGGL+K +E+ AL++GA AVS LW Sbjct: 134 EVMPGIIPSVISEISVDVHQPVIAGGLVKTKEEVINALKSGAIAVSTSEKNLW 186 >Q8R8J3.1 Q8R8J3_THETN Glycerol-3-phosphate responsive antiterminator (MRNA-binding) Length = 189 Score = 155 bits (392), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 77/186 (41%), Positives = 121/186 (65%) Query: 1 VKNGLFAGSGNHRIIPAVRKAEDLQKACDSEWPMIFLLIGDLFTVKQYVRQGLEAGKKVF 60 +K+ + II AVR+ +D+++A S +IFLL GD+ + V + GK F Sbjct: 1 MKDKILETMTEFPIIAAVREIKDVKEAVSSNTQVIFLLSGDIMNICDLVDFIKKNGKIAF 60 Query: 61 LHVDFIGGLGSDPLVVKYIAEKIGPTGIISTKNHMVKQAKKSGLLAIQRLFLIDTSALEH 120 +H D I GLG D V+YIAE+I P GIIST+N+++ AK GL +IQRLF++D+ AL+ Sbjct: 61 VHFDLIEGLGKDTKAVEYIAERIKPHGIISTRNNILDHAKDFGLFSIQRLFMLDSQALKT 120 Query: 121 GINNVRQNESDALEVMPGLIPRVITELSSSTSRPIIAGGLIKDHQEIEAALQAGASAVSM 180 G+++ +Q DA+E++PG++P +I E+++ P+IAGGL++ +E+ A++AGA AVS Sbjct: 121 GLSSAKQIRPDAVEILPGIMPSIIKEVANDVLMPVIAGGLVRTKEEVINAIKAGAIAVST 180 Query: 181 GNPELW 186 LW Sbjct: 181 SEKSLW 186 >B7R8Z7.1 B7R8Z7_9THEO Glycerol-3-phosphate responsive antiterminator subfamily Length = 189 Score = 155 bits (392), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 77/186 (41%), Positives = 121/186 (65%) Query: 1 VKNGLFAGSGNHRIIPAVRKAEDLQKACDSEWPMIFLLIGDLFTVKQYVRQGLEAGKKVF 60 +K+ + II AVR+ +D+++A S +IFLL GD+ + V + GK F Sbjct: 1 MKDKILETMTEFPIIAAVREIKDVKEAVSSNTQVIFLLSGDIMNICDLVDFIKKNGKIAF 60 Query: 61 LHVDFIGGLGSDPLVVKYIAEKIGPTGIISTKNHMVKQAKKSGLLAIQRLFLIDTSALEH 120 +H D I GLG D V+YIAE+I P GIIST+N+++ AK GL +IQRLF++D+ AL+ Sbjct: 61 VHFDLIEGLGKDTKAVEYIAERIKPHGIISTRNNILDHAKDFGLFSIQRLFMLDSQALKT 120 Query: 121 GINNVRQNESDALEVMPGLIPRVITELSSSTSRPIIAGGLIKDHQEIEAALQAGASAVSM 180 G+++ +Q DA+E++PG++P +I E+++ P+IAGGL++ +E+ A++AGA AVS Sbjct: 121 GLSSAKQIRPDAVEILPGIMPSIIKEVANDVLMPVIAGGLVRTKEEVINAIKAGAIAVST 180 Query: 181 GNPELW 186 LW Sbjct: 181 SEKSLW 186 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 0.319 0.136 0.390 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: 1,083,131,613 Number of extensions: 40832685 Number of successful extensions: 106733 Number of sequences better than 1.0e-05: 367 Number of HSP's gapped: 106579 Number of HSP's successfully gapped: 367 Length of query: 192 Length of database: 3,060,696,203 Length adjustment: 128 Effective length of query: 64 Effective length of database: 1,854,806,283 Effective search space: 118707602112 Effective search space used: 118707602112 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 (21.7 bits) S2: 127 (53.5 bits)