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= 0019.0007.p (237 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... 301 6e-82 ZyjbC [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase ... 266 2e-71 yjbC [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase a... 266 2e-71 ZyjbC [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase ... 264 9e-71 ECs5005 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthas... 264 9e-71 >VC2223 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases Length = 211 Score = 301 bits (771), Expect = 6e-82, Method: Compositional matrix adjust. Identities = 0/229 (0%), Positives = 0/229 (0%) Query: 4 EVRINKFISETGFCSRREADKLVEGGRVTINGERAVLGSQAEPGDDVRIDGKRLETGSKV 63 + + F + V++N A L A + G Sbjct: 18 PHPTTELNFSSPFELLIAVLLSAQATDVSVNKATAKLYPVANTPAAMLELGVEGVKTYIK 77 Query: 64 VYIALNKPVGITSTTEAHIQGNIVDFVGHHERIFPIGRLDKDSEGLILLTNDGDIVNKIL 123 N T + V ++L + Sbjct: 78 TIGLYNSKAENIIKTCRILLEQHNGEVPEDRAALEALPGVGRKTANVVLNTAFGWPTIAV 137 Query: 124 RAEGKHEKEYIVTVDRPVTPSFVTGMSSGVKILGSRTLPCQVTRISERVFRIILTEGKNR 183 + V + + Sbjct: 138 DTHIFRVCNRTQFAPGKNVEQVEEKLLKVVPAEFKVDCHHWLILHGRYTCIARKPRCGSC 197 Query: 184 QIRRMCAAFGYEVRRLQRIRVMNIHLGSLQTGEWRELTAPEKMELGAML 232 Sbjct: 198 246 >ZyjbC [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases Length = 290 Score = 266 bits (680), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 133/230 (57%), Positives = 174/230 (75%), Gaps = 2/230 (0%) Query: 5 VRINKFISETGFCSRREADKLVEGGRVTINGERAVLGSQAEPGDDVRIDGKRLET--GSK 62 VR+NK+ISE+G CSRREAD+ +E G V +NG+RA +G Q +PGD V+++G+ +E Sbjct: 7 VRLNKYISESGICSRREADRYIEQGNVFLNGKRATIGDQVKPGDVVKVNGQLIEPREAED 66 Query: 63 VVYIALNKPVGITSTTEAHIQGNIVDFVGHHERIFPIGRLDKDSEGLILLTNDGDIVNKI 122 +V IALNKPVGI STTE + NIVDFV H +R+FPIGRLDKDS+GLI LTN GD+VNKI Sbjct: 67 LVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVNKI 126 Query: 123 LRAEGKHEKEYIVTVDRPVTPSFVTGMSSGVKILGSRTLPCQVTRISERVFRIILTEGKN 182 LRA HEKEY+VTVD+P+T F+ GMS+GV ILG+ T C+V + + VFRI L +G N Sbjct: 127 LRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPILGTVTKKCKVKKEAPFVFRITLVQGLN 186 Query: 183 RQIRRMCAAFGYEVRRLQRIRVMNIHLGSLQTGEWRELTAPEKMELGAML 232 RQIRRMC FGYEV++L+R R+MN+ L + GEWR+LT E ++L ++ Sbjct: 187 RQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLI 236 >yjbC [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases Length = 290 Score = 266 bits (680), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 133/230 (57%), Positives = 174/230 (75%), Gaps = 2/230 (0%) Query: 5 VRINKFISETGFCSRREADKLVEGGRVTINGERAVLGSQAEPGDDVRIDGKRLET--GSK 62 VR+NK+ISE+G CSRREAD+ +E G V +NG+RA +G Q +PGD V+++G+ +E Sbjct: 7 VRLNKYISESGICSRREADRYIEQGNVFLNGKRATIGDQVKPGDVVKVNGQLIEPREAED 66 Query: 63 VVYIALNKPVGITSTTEAHIQGNIVDFVGHHERIFPIGRLDKDSEGLILLTNDGDIVNKI 122 +V IALNKPVGI STTE + NIVDFV H +R+FPIGRLDKDS+GLI LTN GD+VNKI Sbjct: 67 LVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVNKI 126 Query: 123 LRAEGKHEKEYIVTVDRPVTPSFVTGMSSGVKILGSRTLPCQVTRISERVFRIILTEGKN 182 LRA HEKEY+VTVD+P+T F+ GMS+GV ILG+ T C+V + + VFRI L +G N Sbjct: 127 LRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPILGTVTKKCKVKKEAPFVFRITLVQGLN 186 Query: 183 RQIRRMCAAFGYEVRRLQRIRVMNIHLGSLQTGEWRELTAPEKMELGAML 232 RQIRRMC FGYEV++L+R R+MN+ L + GEWR+LT E ++L ++ Sbjct: 187 RQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLI 236 Score = 264 bits (674), Expect = 9e-71, Method: Compositional matrix adjust. Identities = 133/230 (57%), Positives = 174/230 (75%), Gaps = 2/230 (0%) Query: 5 VRINKFISETGFCSRREADKLVEGGRVTINGERAVLGSQAEPGDDVRIDGKRLET--GSK 62 VR+NK+ISE+G CSRREAD+ +E G V +NG+RA +G Q +PGD V+++G+ +E Sbjct: 7 VRLNKYISESGICSRREADRYIEQGNVFLNGKRATIGDQVKPGDVVKVNGQLIEPREAED 66 Query: 63 VVYIALNKPVGITSTTEAHIQGNIVDFVGHHERIFPIGRLDKDSEGLILLTNDGDIVNKI 122 +V IALNKPVGI STTE + NIVDFV H +R+FPIGRLDKDS+GLI LTN GD+VNKI Sbjct: 67 LVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVNKI 126 Query: 123 LRAEGKHEKEYIVTVDRPVTPSFVTGMSSGVKILGSRTLPCQVTRISERVFRIILTEGKN 182 LRA HEKEY+VTVD+P+T F+ GMS+GV ILG+ T C+V + + VFRI L +G N Sbjct: 127 LRAGNDHEKEYLVTVDKPITEEFIRGMSAGVPILGTVTKKCKVKKEAPFVFRITLVQGLN 186 Query: 183 RQIRRMCAAFGYEVRRLQRIRVMNIHLGSLQTGEWRELTAPEKMELGAML 232 RQIRRMC FGYEV++L+R R+MN+ L + GEWR+LT E ++L ++ Sbjct: 187 RQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLI 236 >ECs5005 [J] COG1187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases Length = 290 Score = 264 bits (674), Expect = 9e-71, Method: Compositional matrix adjust. Identities = 132/230 (57%), Positives = 173/230 (75%), Gaps = 2/230 (0%) Query: 5 VRINKFISETGFCSRREADKLVEGGRVTINGERAVLGSQAEPGDDVRIDGKRLET--GSK 62 VR+NK+ISE+G CSRREAD+ +E G V +NG+RA +G Q +PGD V+++G+ +E Sbjct: 7 VRLNKYISESGICSRREADRYIEQGNVFLNGKRATIGDQVKPGDVVKVNGQLIEPREAED 66 Query: 63 VVYIALNKPVGITSTTEAHIQGNIVDFVGHHERIFPIGRLDKDSEGLILLTNDGDIVNKI 122 +V IALNKPVGI STTE + NIVDFV H +R+FPIGRLDKDS+GLI LTN GD+VNKI Sbjct: 67 LVLIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVNKI 126 Query: 123 LRAEGKHEKEYIVTVDRPVTPSFVTGMSSGVKILGSRTLPCQVTRISERVFRIILTEGKN 182 LRA HEKEY+VTVD+P+T F+ GM +GV ILG+ T C+V + + VFRI L +G N Sbjct: 127 LRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTKKCKVKKEAPFVFRITLVQGLN 186 Query: 183 RQIRRMCAAFGYEVRRLQRIRVMNIHLGSLQTGEWRELTAPEKMELGAML 232 RQIRRMC FGYEV++L+R R+MN+ L + GEWR+LT E ++L ++ Sbjct: 187 RQIRRMCEHFGYEVKKLERTRIMNVSLSGIPLGEWRDLTDDELIDLFKLI 236 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 0.395 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: 17,915,876 Number of extensions: 784245 Number of successful extensions: 2143 Number of sequences better than 1.0e-05: 85 Number of HSP's gapped: 1987 Number of HSP's successfully gapped: 85 Length of query: 237 Length of database: 38,378,431 Length adjustment: 103 Effective length of query: 134 Effective length of database: 26,499,029 Effective search space: 3550869886 Effective search space used: 3550869886 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)