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= 0580.0025.p (234 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value VC2223 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase... 270 1e-72 ZyjbC [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase ... 236 3e-62 ECs5005 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthas... 236 3e-62 ZyjbC [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase ... 234 7e-62 yjbC [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase a... 234 7e-62 >VC2223 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases Length = 211 Score = 270 bits (691), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 0/231 (0%), Positives = 0/231 (0%), Gaps = 1/231 (0%) Query: 2 RINKYISESGLYPRRETDRLIAAGRITINGQPCTKGAQVEPGDLVAVDGEPVTTVTKKLV 61 + S A +++N + G T Sbjct: 20 PTTELNFSSPFELLIAVLLSAQATDVSVNKATAKLYPVANTPAAMLELGVEGVK-TYIKT 78 Query: 62 YLALNKPAGITCTSSREVEGNIIDFVGYPSRIFAVGRLDKYSEGLILLTNDGSIVNRMMR 121 N A + R + V ++L + Sbjct: 79 IGLYNSKAENIIKTCRILLEQHNGEVPEDRAALEALPGVGRKTANVVLNTAFGWPTIAVD 138 Query: 122 AENGHEKEYSVAVDKPVTDEFLHRMAAGVDILGTRTLPCETGRLSETEFRIVLKQGLNLQ 181 + ++ ++ V + + Sbjct: 139 THIFRVCNRTQFAPGKNVEQVEEKLLKVVPAEFKVDCHHWLILHGRYTCIARKPRCGSCI 198 Query: 182 IRRMCKELGYRVLRLERIRIMNIVLSGLERGQWRHLEQAELAGLFALLNHS 232 Sbjct: 199 249 >ZyjbC [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases Length = 290 Score = 236 bits (601), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 123/233 (52%), Positives = 160/233 (68%), Gaps = 1/233 (0%) Query: 1 MRINKYISESGLYPRRETDRLIAAGRITINGQPCTKGAQVEPGDLVAVDGEPVTT-VTKK 59 +R+NKYISESG+ RRE DR I G + +NG+ T G QV+PGD+V V+G+ + + Sbjct: 7 VRLNKYISESGICSRREADRYIEQGNVFLNGKRATIGDQVKPGDVVKVNGQLIEPREAED 66 Query: 60 LVYLALNKPAGITCTSSREVEGNIIDFVGYPSRIFAVGRLDKYSEGLILLTNDGSIVNRM 119 LV +ALNKP GI T+ NI+DFV + R+F +GRLDK S+GLI LTN G +VN++ Sbjct: 67 LVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVNKI 126 Query: 120 MRAENGHEKEYSVAVDKPVTDEFLHRMAAGVDILGTRTLPCETGRLSETEFRIVLKQGLN 179 +RA N HEKEY V VDKP+T+EF+ M+AGV ILGT T C+ + + FRI L QGLN Sbjct: 127 LRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPILGTVTKKCKVKKEAPFVFRITLVQGLN 186 Query: 180 LQIRRMCKELGYRVLRLERIRIMNIVLSGLERGQWRHLEQAELAGLFALLNHS 232 QIRRMC+ GY V +LER RIMN+ LSG+ G+WR L EL LF L+ +S Sbjct: 187 RQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIENS 239 >ECs5005 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases Length = 290 Score = 236 bits (601), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 124/233 (53%), Positives = 159/233 (68%), Gaps = 1/233 (0%) Query: 1 MRINKYISESGLYPRRETDRLIAAGRITINGQPCTKGAQVEPGDLVAVDGEPVTT-VTKK 59 +R+NKYISESG+ RRE DR I G + +NG+ T G QV+PGD+V V+G+ + + Sbjct: 7 VRLNKYISESGICSRREADRYIEQGNVFLNGKRATIGDQVKPGDVVKVNGQLIEPREAED 66 Query: 60 LVYLALNKPAGITCTSSREVEGNIIDFVGYPSRIFAVGRLDKYSEGLILLTNDGSIVNRM 119 LV +ALNKP GI T+ NI+DFV + R+F +GRLDK S+GLI LTN G +VN++ Sbjct: 67 LVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVNKI 126 Query: 120 MRAENGHEKEYSVAVDKPVTDEFLHRMAAGVDILGTRTLPCETGRLSETEFRIVLKQGLN 179 +RA N HEKEY V VDKP+TDEF+ M AGV ILGT T C+ + + FRI L QGLN Sbjct: 127 LRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTKKCKVKKEAPFVFRITLVQGLN 186 Query: 180 LQIRRMCKELGYRVLRLERIRIMNIVLSGLERGQWRHLEQAELAGLFALLNHS 232 QIRRMC+ GY V +LER RIMN+ LSG+ G+WR L EL LF L+ +S Sbjct: 187 RQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIENS 239 Score = 234 bits (598), Expect = 7e-62, Method: Compositional matrix adjust. Identities = 123/233 (52%), Positives = 160/233 (68%), Gaps = 1/233 (0%) Query: 1 MRINKYISESGLYPRRETDRLIAAGRITINGQPCTKGAQVEPGDLVAVDGEPVTT-VTKK 59 +R+NKYISESG+ RRE DR I G + +NG+ T G QV+PGD+V V+G+ + + Sbjct: 7 VRLNKYISESGICSRREADRYIEQGNVFLNGKRATIGDQVKPGDVVKVNGQLIEPREAED 66 Query: 60 LVYLALNKPAGITCTSSREVEGNIIDFVGYPSRIFAVGRLDKYSEGLILLTNDGSIVNRM 119 LV +ALNKP GI T+ NI+DFV + R+F +GRLDK S+GLI LTN G +VN++ Sbjct: 67 LVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVNKI 126 Query: 120 MRAENGHEKEYSVAVDKPVTDEFLHRMAAGVDILGTRTLPCETGRLSETEFRIVLKQGLN 179 +RA N HEKEY V VDKP+T+EF+ M+AGV ILGT T C+ + + FRI L QGLN Sbjct: 127 LRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPILGTVTKKCKVKKEAPFVFRITLVQGLN 186 Query: 180 LQIRRMCKELGYRVLRLERIRIMNIVLSGLERGQWRHLEQAELAGLFALLNHS 232 QIRRMC+ GY V +LER RIMN+ LSG+ G+WR L EL LF L+ +S Sbjct: 187 RQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIENS 239 >yjbC [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases Length = 290 Score = 234 bits (598), Expect = 7e-62, Method: Compositional matrix adjust. Identities = 123/233 (52%), Positives = 160/233 (68%), Gaps = 1/233 (0%) Query: 1 MRINKYISESGLYPRRETDRLIAAGRITINGQPCTKGAQVEPGDLVAVDGEPVTT-VTKK 59 +R+NKYISESG+ RRE DR I G + +NG+ T G QV+PGD+V V+G+ + + Sbjct: 7 VRLNKYISESGICSRREADRYIEQGNVFLNGKRATIGDQVKPGDVVKVNGQLIEPREAED 66 Query: 60 LVYLALNKPAGITCTSSREVEGNIIDFVGYPSRIFAVGRLDKYSEGLILLTNDGSIVNRM 119 LV +ALNKP GI T+ NI+DFV + R+F +GRLDK S+GLI LTN G +VN++ Sbjct: 67 LVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVNKI 126 Query: 120 MRAENGHEKEYSVAVDKPVTDEFLHRMAAGVDILGTRTLPCETGRLSETEFRIVLKQGLN 179 +RA N HEKEY V VDKP+T+EF+ M+AGV ILGT T C+ + + FRI L QGLN Sbjct: 127 LRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPILGTVTKKCKVKKEAPFVFRITLVQGLN 186 Query: 180 LQIRRMCKELGYRVLRLERIRIMNIVLSGLERGQWRHLEQAELAGLFALLNHS 232 QIRRMC+ GY V +LER RIMN+ LSG+ G+WR L EL LF L+ +S Sbjct: 187 RQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLIENS 239 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.320 0.139 0.398 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 16,772,683 Number of extensions: 627772 Number of successful extensions: 1375 Number of sequences better than 1.0e-05: 85 Number of HSP's gapped: 1232 Number of HSP's successfully gapped: 85 Length of query: 234 Length of database: 38,378,431 Length adjustment: 103 Effective length of query: 131 Effective length of database: 26,499,029 Effective search space: 3471372799 Effective search space used: 3471372799 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: 114 (48.5 bits)