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= 0247.0021.p (252 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KL67.1 B3KL67_9BACI Pseudouridine synthase EC=5.4.99.- 412 e-113 B1DJ96.1 B1DJ96_9BACL Pseudouridine synthase EC=5.4.99.- 368 e-100 A1HTX2.1 A1HTX2_9FIRM Pseudouridine synthase EC=5.4.99.- 286 2e-75 B8CW11.1 B8CW11_HALOH Pseudouridine synthase EC=5.4.99.- 275 3e-72 A5D1T3.1 A5D1T3_PELTS Pseudouridine synthase EC=5.4.99.- 274 5e-72 >B3KL67.1 B3KL67_9BACI Pseudouridine synthase EC=5.4.99.- Length = 251 Score = 412 bits (1060), Expect = e-113, Method: Compositional matrix adjust. Identities = 196/237 (82%), Positives = 218/237 (91%) Query: 1 MERLQKILAQAGVASRRKCEEMILAGKVEVNGELVTTLGTKVDPATDIIKVAGRLIRGEN 60 MERLQKI+AQAGVASRRKCEE+IL GKV+VNGE VT LGTK DPA DII V+G+ I+ E Sbjct: 1 MERLQKIMAQAGVASRRKCEELILEGKVQVNGETVTELGTKADPAQDIITVSGKPIKNEK 60 Query: 61 KIYIMFNKPKGVITSASDDKGRKVVTDYLKGIKERVYPVGRLDYDTEGLLLLTNDGEFAN 120 K+Y+M NKPKGVITSASD +GRK+V+DYLKGIKERVYP+GRLDYDTEGLLLLTNDGEFAN Sbjct: 61 KVYVMLNKPKGVITSASDPEGRKIVSDYLKGIKERVYPIGRLDYDTEGLLLLTNDGEFAN 120 Query: 121 LLTHPKHHVPKTYLATVKGVPHGTALDKLKAGIKLEDGMTAPAEVEYKDVDEENKESVIS 180 LL+HPK+HVPKTYLATVKGVPHGT LDKL+ GI LEDGMT+PAEVEYKDVD +NK+SVIS Sbjct: 121 LLSHPKYHVPKTYLATVKGVPHGTELDKLRQGIMLEDGMTSPAEVEYKDVDPDNKQSVIS 180 Query: 181 ITIHEGRNRQVRRMFEAISHPVIRLKRISFGDILLQNLKRGSYRHLTKDEINHLQQI 237 ITIHEGRNRQVRRMFEAISHPV+RLKRIS+GD+LLQNLKRG YRHLT DEIN L Q+ Sbjct: 181 ITIHEGRNRQVRRMFEAISHPVLRLKRISYGDLLLQNLKRGLYRHLTADEINQLLQM 237 >B1DJ96.1 B1DJ96_9BACL Pseudouridine synthase EC=5.4.99.- Length = 250 Score = 368 bits (944), Expect = e-100, Method: Compositional matrix adjust. Identities = 176/239 (73%), Positives = 202/239 (84%) Query: 1 MERLQKILAQAGVASRRKCEEMILAGKVEVNGELVTTLGTKVDPATDIIKVAGRLIRGEN 60 +ERLQKILAQAGVASRRKCEE+ILAG VEVNGE VTTLG K DPATD I V G+ IR E Sbjct: 4 LERLQKILAQAGVASRRKCEELILAGAVEVNGEKVTTLGVKADPATDEITVNGKPIRSEK 63 Query: 61 KIYIMFNKPKGVITSASDDKGRKVVTDYLKGIKERVYPVGRLDYDTEGLLLLTNDGEFAN 120 KIY+M NKPKGVITSA D +GRKVV D+L GI+ERVYPVGRLDYDTEGLLLLTNDGEFAN Sbjct: 64 KIYLMLNKPKGVITSAKDPQGRKVVADFLPGIRERVYPVGRLDYDTEGLLLLTNDGEFAN 123 Query: 121 LLTHPKHHVPKTYLATVKGVPHGTALDKLKAGIKLEDGMTAPAEVEYKDVDEENKESVIS 180 LLTHP HHVPKTY ATVKGVPHG+ LD+LK G+ LEDG+TAPAEVEY+D+DEE S I Sbjct: 124 LLTHPSHHVPKTYYATVKGVPHGSLLDQLKKGVMLEDGLTAPAEVEYQDIDEEKNMSTIR 183 Query: 181 ITIHEGRNRQVRRMFEAISHPVIRLKRISFGDILLQNLKRGSYRHLTKDEINHLQQIAK 239 ITI+EGRNRQVRRMF+AI HPV++L+R+ FG++ L+ L RG +RHLT E+ L+ A+ Sbjct: 184 ITIYEGRNRQVRRMFDAIKHPVLKLRRVKFGELGLRTLARGQFRHLTPVEVKELRDQAR 242 >A1HTX2.1 A1HTX2_9FIRM Pseudouridine synthase EC=5.4.99.- Length = 241 Score = 286 bits (731), Expect = 2e-75, Method: Compositional matrix adjust. Identities = 139/239 (58%), Positives = 175/239 (73%) Query: 2 ERLQKILAQAGVASRRKCEEMILAGKVEVNGELVTTLGTKVDPATDIIKVAGRLIRGENK 61 ERLQKIL+QAG+ASRR E++IL G+V VNG+++T LG KVD D + V G+ I E Sbjct: 3 ERLQKILSQAGIASRRAAEKLILDGRVAVNGKIITELGAKVDWPRDRVTVDGKPIAAEAP 62 Query: 62 IYIMFNKPKGVITSASDDKGRKVVTDYLKGIKERVYPVGRLDYDTEGLLLLTNDGEFANL 121 +YI+ NKPKGVITS D +GRK V D LK + ERVYPVGRLDY+TEGLLLLTNDG+ + Sbjct: 63 VYILLNKPKGVITSLKDPRGRKTVIDLLKDVPERVYPVGRLDYNTEGLLLLTNDGDLTHA 122 Query: 122 LTHPKHHVPKTYLATVKGVPHGTALDKLKAGIKLEDGMTAPAEVEYKDVDEENKESVISI 181 LTHP H + KTY++ + G+P+ LD+L+AGIKL DGMT+PA V D D + +V+ I Sbjct: 123 LTHPSHEIKKTYVSKIAGLPNEEQLDRLRAGIKLSDGMTSPAAVRLLDFDPVKQVAVVEI 182 Query: 182 TIHEGRNRQVRRMFEAISHPVIRLKRISFGDILLQNLKRGSYRHLTKDEINHLQQIAKA 240 TIHEGRNRQVRRMFEAI HPV LKR + + L LKRG YR LT DE+ L+++A+ Sbjct: 183 TIHEGRNRQVRRMFEAIGHPVKSLKRTKYAFLTLTGLKRGEYRRLTPDEVASLKKLAQG 241 >B8CW11.1 B8CW11_HALOH Pseudouridine synthase EC=5.4.99.- Length = 237 Score = 275 bits (702), Expect = 3e-72, Method: Compositional matrix adjust. Identities = 136/237 (57%), Positives = 172/237 (72%), Gaps = 2/237 (0%) Query: 1 MERLQKILAQAGVASRRKCEEMILAGKVEVNGELVTTLGTKVDPATDIIKVAGRLIRGEN 60 MERLQK +A AGVASRRK E++I G+V+VNG++VT LGTK+DP DI++V GR+I E Sbjct: 1 MERLQKYMAHAGVASRRKSEKIITQGRVKVNGKIVTELGTKIDPDKDIVEVDGRVISKEK 60 Query: 61 KIYIMFNKPKGVITSASDDKGRKVVTDYLKGIKERVYPVGRLDYDTEGLLLLTNDGEFAN 120 +YI+ NKP G ITS SD GRK VT +KG+ +R+YPVGRLDYDT GLL+LTNDGE Sbjct: 61 YVYILLNKPVGYITSVSDPHGRKTVTGLIKGVSQRIYPVGRLDYDTSGLLILTNDGELTY 120 Query: 121 LLTHPKHHVPKTYLATVKGVPHGTALDKLKAGIKLEDGMTAPAEVEYKDVDEENKESVIS 180 +LTHP H V KTY VKG P L KL+ G+KL+DG+TAPA V V + K ++ + Sbjct: 121 VLTHPSHMVEKTYRVEVKGFPSDEVLKKLETGVKLKDGLTAPARVS--AVKRKEKNTIFN 178 Query: 181 ITIHEGRNRQVRRMFEAISHPVIRLKRISFGDILLQNLKRGSYRHLTKDEINHLQQI 237 +TIHEGRNRQVRRM + I PV+ LKRI+FG + L+ LK G YR LT+ E+ L+ I Sbjct: 179 LTIHEGRNRQVRRMCDKIGFPVVNLKRIAFGPLNLKGLKTGQYRFLTEKEVKALKNI 235 >A5D1T3.1 A5D1T3_PELTS Pseudouridine synthase EC=5.4.99.- Length = 252 Score = 274 bits (701), Expect = 5e-72, Method: Compositional matrix adjust. Identities = 137/242 (56%), Positives = 175/242 (72%), Gaps = 3/242 (1%) Query: 1 MERLQKILAQAGVASRRKCEEMILAGKVEVNGELVTTLGTKVDPATDIIKVAGRLIR-GE 59 +ERLQK++A+AGVASRR CE +I AG V+VNG++VT +G KVDPA D I+V R I Sbjct: 13 VERLQKVMARAGVASRRHCERLIAAGAVKVNGKVVTEVGCKVDPARDKIQVGNRTISLFP 72 Query: 60 NKIYIMFNKPKGVITSASDDKGRKVVTDYLKGIKERVYPVGRLDYDTEGLLLLTNDGEFA 119 + YI+ KP+G +T+ SD+KGRK VTD LKG+ RVYPVGRLDYD+EGLLLLTNDGE Sbjct: 73 RRYYILLYKPRGYVTTLSDEKGRKKVTDLLKGVAGRVYPVGRLDYDSEGLLLLTNDGELT 132 Query: 120 NLLTHPKHHVPKTYLATVKGVPHGTALDKLKAGIKLEDGMTAPAEVEYKDVDEENKESVI 179 LTHPKH VPKTY+ +VKG+P L+K+ G+ LEDG TAPA V + K ++ Sbjct: 133 YALTHPKHRVPKTYVVSVKGLPGREKLEKMAGGLMLEDGPTAPARVRL--IGRRGKNVLL 190 Query: 180 SITIHEGRNRQVRRMFEAISHPVIRLKRISFGDILLQNLKRGSYRHLTKDEINHLQQIAK 239 ITI EGRNRQ+RRM ++I HPV+RLKR G + + NL+ G YRHLT++EI L++ A Sbjct: 191 EITISEGRNRQIRRMCDSIGHPVVRLKRTKLGSLSIGNLRPGQYRHLTREEIKKLKEDAG 250 Query: 240 AG 241 G Sbjct: 251 MG 252 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 0.317 0.136 0.379 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: 1,459,151,198 Number of extensions: 61648938 Number of successful extensions: 220301 Number of sequences better than 1.0e-05: 3582 Number of HSP's gapped: 213023 Number of HSP's successfully gapped: 3584 Length of query: 252 Length of database: 3,060,696,203 Length adjustment: 132 Effective length of query: 120 Effective length of database: 1,817,122,223 Effective search space: 218054666760 Effective search space used: 218054666760 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 129 (54.3 bits)