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: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1HNP4.1 B1HNP4_LYSSC Pseudouridine synthase EC=5.4.99.- 296 1e-78 B8KE46.1 B8KE46_VIBPA Pseudouridine synthase EC=5.4.99.- 293 1e-77 A8VS89.1 A8VS89_9BACI Pseudouridine synthase EC=5.4.99.- 284 4e-75 A8TB14.1 A8TB14_9VIBR Pseudouridine synthase EC=5.4.99.- 283 8e-75 A7MY75.1 A7MY75_VIBHB Pseudouridine synthase EC=5.4.99.- 283 1e-74 >B1HNP4.1 B1HNP4_LYSSC Pseudouridine synthase EC=5.4.99.- Length = 233 Score = 296 bits (757), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 138/232 (59%), Positives = 181/232 (78%), Gaps = 1/232 (0%) Query: 1 MRINKYISESGLYPRRETDRLIAAGRITINGQPCTKGAQVEPGDLVAVDGEPVTTVTKKL 60 MRINKY+SE+G+ RR D+ IA G++TING+P T G+QV+ GD+V +DG+ V ++L Sbjct: 1 MRINKYLSETGIISRRGADKWIAEGKVTINGEPATVGSQVQDGDIVCIDGKEVKK-EQQL 59 Query: 61 VYLALNKPAGITCTSSREVEGNIIDFVGYPSRIFAVGRLDKYSEGLILLTNDGSIVNRMM 120 VY+ALNKP GIT T+ R ++GN++DFV +P RIF +GRLDK SEGL+LLTNDG IVN+++ Sbjct: 60 VYIALNKPVGITSTTERHIKGNVVDFVNHPLRIFHIGRLDKESEGLLLLTNDGDIVNKIL 119 Query: 121 RAENGHEKEYSVAVDKPVTDEFLHRMAAGVDILGTRTLPCETGRLSETEFRIVLKQGLNL 180 RAEN HEKEY V VDKP+T++F+++M+AGVDIL T TLPC ++S+ F+I+L+QGLN Sbjct: 120 RAENHHEKEYIVQVDKPITEQFINKMSAGVDILDTTTLPCYVEKISDKVFKIILEQGLNR 179 Query: 181 QIRRMCKELGYRVLRLERIRIMNIVLSGLERGQWRHLEQAELAGLFALLNHS 232 QIRRMC LGY V RL+RIRIMNI L L+ GQWR L E LF LLN++ Sbjct: 180 QIRRMCSALGYSVKRLQRIRIMNIKLGNLKVGQWRDLTDKEQTELFKLLNYT 231 >B8KE46.1 B8KE46_VIBPA Pseudouridine synthase EC=5.4.99.- Length = 345 Score = 293 bits (749), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 136/233 (58%), Positives = 175/233 (75%) Query: 2 RINKYISESGLYPRRETDRLIAAGRITINGQPCTKGAQVEPGDLVAVDGEPVTTVTKKLV 61 R+NK+ISE+G RRE DRLI GR+TINGQ G +V PGD V VD +P+ VT K V Sbjct: 8 RLNKFISETGFCSRREADRLIEQGRVTINGQVPEMGTKVMPGDDVRVDDKPINAVTDKPV 67 Query: 62 YLALNKPAGITCTSSREVEGNIIDFVGYPSRIFAVGRLDKYSEGLILLTNDGSIVNRMMR 121 Y+ALNKP GITCT+ R++ GNI+DFVG+ RIF +GRLDK S+GLI LTNDG IVN+++R Sbjct: 68 YIALNKPTGITCTTERDIPGNIVDFVGHKKRIFPIGRLDKPSDGLIFLTNDGDIVNKILR 127 Query: 122 AENGHEKEYSVAVDKPVTDEFLHRMAAGVDILGTRTLPCETGRLSETEFRIVLKQGLNLQ 181 A N HEKEY V VDKP++D+F+ +M++GV+IL T TLPC+ + ++ FRIVL QGLN Q Sbjct: 128 AGNNHEKEYVVRVDKPISDDFIKKMSSGVNILDTITLPCKVTKETKFSFRIVLTQGLNRQ 187 Query: 182 IRRMCKELGYRVLRLERIRIMNIVLSGLERGQWRHLEQAELAGLFALLNHSED 234 IRRMC+ LGY V +L R+RIMNI L G+ GQWR+L AE+A + A+ S + Sbjct: 188 IRRMCEALGYEVFKLRRVRIMNISLDGIPNGQWRYLTDAEVAEILAMCEGSSN 240 >A8VS89.1 A8VS89_9BACI Pseudouridine synthase EC=5.4.99.- Length = 237 Score = 284 bits (727), Expect = 4e-75, Method: Compositional matrix adjust. Identities = 144/231 (62%), Positives = 170/231 (73%), Gaps = 1/231 (0%) Query: 1 MRINKYISESGLYPRRETDRLIAAGRITINGQPCTKGAQVEPGDLVAVDGEPVTTVTKKL 60 +RINKY+SE+G RR D+LI G++TING+P G QVEPGD V V+GEPV V K+ Sbjct: 3 VRINKYVSETGKTSRRGADKLIQEGKVTINGKPAQLGDQVEPGDDVIVNGEPVHIV-KEN 61 Query: 61 VYLALNKPAGITCTSSREVEGNIIDFVGYPSRIFAVGRLDKYSEGLILLTNDGSIVNRMM 120 VY+ALNKP GIT T+ R+V+GNIID V +P RIF +GRLDK SEGLILLTNDG IVN ++ Sbjct: 62 VYIALNKPVGITSTTERKVKGNIIDLVNHPLRIFHIGRLDKDSEGLILLTNDGDIVNEIL 121 Query: 121 RAENGHEKEYSVAVDKPVTDEFLHRMAAGVDILGTRTLPCETGRLSETEFRIVLKQGLNL 180 RAEN HEKEY V V+KP+T EFL +M+ GVDIL T TLPC+ +LS+ EF I L QGLN Sbjct: 122 RAENKHEKEYIVTVNKPITPEFLKQMSEGVDILDTTTLPCKVKKLSKYEFNITLTQGLNR 181 Query: 181 QIRRMCKELGYRVLRLERIRIMNIVLSGLERGQWRHLEQAELAGLFALLNH 231 QIRRMC LGY V RL R RIMNI L L GQWR L + E LF LN+ Sbjct: 182 QIRRMCDALGYDVQRLLRTRIMNIHLGKLPPGQWRDLSKKERTQLFTDLNY 232 >A8TB14.1 A8TB14_9VIBR Pseudouridine synthase EC=5.4.99.- Length = 383 Score = 283 bits (724), Expect = 8e-75, Method: Compositional matrix adjust. Identities = 133/231 (57%), Positives = 171/231 (74%), Gaps = 1/231 (0%) Query: 2 RINKYISESGLYPRRETDRLIAAGRITINGQPCTKGAQVEPGDLVAVDGEPVTTVTKKLV 61 R+NK+ISE+G RRE DRLI GR+TINGQ G +V+PGD V VDG PV +K + Sbjct: 8 RLNKFISETGFCSRREADRLIEQGRVTINGQQPEMGTKVQPGDDVCVDGNPVA-AKEKPI 66 Query: 62 YLALNKPAGITCTSSREVEGNIIDFVGYPSRIFAVGRLDKYSEGLILLTNDGSIVNRMMR 121 Y+ALNKP GITCT+ R++ GNI+DF+G+ RIF +GRLDK S+GLI LTNDG IVN+++R Sbjct: 67 YIALNKPTGITCTTERDIPGNIVDFIGHKKRIFPIGRLDKPSDGLIFLTNDGDIVNKILR 126 Query: 122 AENGHEKEYSVAVDKPVTDEFLHRMAAGVDILGTRTLPCETGRLSETEFRIVLKQGLNLQ 181 A N HEKEY V VDKP+T EFL +M++GV IL T TLPC+ + ++ FRIVL QGLN Q Sbjct: 127 AGNNHEKEYVVRVDKPITGEFLKQMSSGVKILDTVTLPCKVEKETKFSFRIVLTQGLNRQ 186 Query: 182 IRRMCKELGYRVLRLERIRIMNIVLSGLERGQWRHLEQAELAGLFALLNHS 232 IRRMC+ LGY V +L R+RIMNI L G+ G+WR+L E++ + A+ S Sbjct: 187 IRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDNEVSEILAMCEGS 237 >A7MY75.1 A7MY75_VIBHB Pseudouridine synthase EC=5.4.99.- Length = 384 Score = 283 bits (723), Expect = 1e-74, Method: Compositional matrix adjust. Identities = 135/231 (58%), Positives = 170/231 (73%), Gaps = 1/231 (0%) Query: 2 RINKYISESGLYPRRETDRLIAAGRITINGQPCTKGAQVEPGDLVAVDGEPVTTVTKKLV 61 R+NKYISE+G RRE DRLI GR+TINGQ G +V PGD V VDG PV +K + Sbjct: 8 RLNKYISETGFCSRREADRLIEQGRVTINGQQPEMGTKVLPGDDVCVDGSPVA-AKEKPI 66 Query: 62 YLALNKPAGITCTSSREVEGNIIDFVGYPSRIFAVGRLDKYSEGLILLTNDGSIVNRMMR 121 Y+ALNKP GITCT+ R++ GNI+DF+G+ RIF +GRLDK S+GLI LTNDG IVN+++R Sbjct: 67 YIALNKPTGITCTTERDIPGNIVDFIGHKKRIFPIGRLDKPSDGLIFLTNDGDIVNKILR 126 Query: 122 AENGHEKEYSVAVDKPVTDEFLHRMAAGVDILGTRTLPCETGRLSETEFRIVLKQGLNLQ 181 A N HEKEY V VDKP+T EFL +M++GV IL T TLPC+ + ++ FRIVL QGLN Q Sbjct: 127 AGNNHEKEYVVRVDKPITGEFLKQMSSGVKILDTVTLPCKVEKETKFSFRIVLTQGLNRQ 186 Query: 182 IRRMCKELGYRVLRLERIRIMNIVLSGLERGQWRHLEQAELAGLFALLNHS 232 IRRMC+ LGY V +L R+RIMNI L G+ G+WR+L E+A + A+ S Sbjct: 187 IRRMCEALGYEVFKLRRVRIMNISLDGIPNGKWRYLSDDEVAEILAMCEGS 237 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 0.320 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: 9421015 Number of Hits to DB: 1,311,078,497 Number of extensions: 52738440 Number of successful extensions: 131488 Number of sequences better than 1.0e-05: 3495 Number of HSP's gapped: 125525 Number of HSP's successfully gapped: 3498 Length of query: 234 Length of database: 3,060,696,203 Length adjustment: 131 Effective length of query: 103 Effective length of database: 1,826,543,238 Effective search space: 188133953514 Effective search space used: 188133953514 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: 129 (54.3 bits)