Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
Query= Dr_sW_002_O02
(861 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q96PZ0|Y1897_HUMAN Hypothetical pseudouridine synthase K... 167 5e-41
sp|Q08647|YO7T_YEAST Hypothetical pseudouridine synthase YO... 126 9e-29
sp|O74343|YH2X_SCHPO Hypothetical pseudouridine synthase C1... 113 6e-25
sp|Q17426|YQ4B_CAEEL Hypothetical pseudouridine synthase in... 86 1e-16
sp|O27572|TRUD_METTH Probable tRNA pseudouridine synthase D... 60 8e-09
sp|Q8EBR4|TRUD_SHEON tRNA pseudouridine synthase D (tRNA-ur... 60 8e-09
sp|Q58008|TRUD1_METJA Probable tRNA pseudouridine synthase ... 60 8e-09
sp|Q5JDB6|TRUD_PYRKO Probable tRNA pseudouridine synthase D... 59 2e-08
sp|P60347|TRUD_GEOSL tRNA pseudouridine synthase D (tRNA-ur... 57 5e-08
sp|Q6LZL0|TRUD2_METMP Probable tRNA pseudouridine synthase ... 56 1e-07
>sp|Q96PZ0|Y1897_HUMAN Hypothetical pseudouridine synthase KIAA1897
Length = 661
Score = 167 bits (422), Expect = 5e-41
Identities = 99/257 (38%), Positives = 148/257 (57%), Gaps = 4/257 (1%)
Frame = +2
Query: 101 EVGIEEFFDNIGVGFSGKIKERWEDFIVNEVDLNNHVVFLENTDLPLPKCVNNNIENRHL 280
+VGI +F + GFSG +KER+ DF+V+E+ + + L + +P+ + + L
Sbjct: 113 DVGITKFVSS-HQGFSGILKERYSDFVVHEIGKDGRISHLNDLSIPVDEEDPSEDIFTVL 171
Query: 281 NESVINDLENLSAISCKKE--VIFDAPDDKLIRTDIYNFLKSNYPNLYGNTELKDGKRVF 454
LE L K+ I D K RT I+ +KS +P L TE ++GK+ +
Sbjct: 172 TAEEKQRLEELQLFKNKETSVAIEVIEDTKEKRTIIHQAIKSLFPGLETKTEDREGKK-Y 230
Query: 455 IVTNYEDERSQIA--KKISKTSGDDDYCQFVLYKEGKDTISAISLIAKYLKMKPGSFTYA 628
IV + + +A +K S YC FVLYKE KDT+ AI++++KYL++KP F+Y
Sbjct: 231 IVAYHAAGKKALANPRKHSWPKSRGSYCHFVLYKENKDTMDAINVLSKYLRVKPNIFSYM 290
Query: 629 GTKDRRGITSQLVRIRSCAANRLKGLNKCLNGIVLGNFSYHHSPLKLGDLYGNRFRLVIR 808
GTKD+R IT Q + + A RL LNKCL LGNFSY +PLKLG+L GN F +V+R
Sbjct: 291 GTKDKRAITVQEIAVLKITAQRLAHLNKCLMNFKLGNFSYQKNPLKLGELQGNHFTVVLR 350
Query: 809 DVHGSDDDIEAAIDRFK 859
++ G+DD ++ A++ K
Sbjct: 351 NITGTDDQVQQAMNSLK 367
>sp|Q08647|YO7T_YEAST Hypothetical pseudouridine synthase YOR243C
Length = 676
Score = 126 bits (316), Expect = 9e-29
Identities = 87/303 (28%), Positives = 143/303 (47%), Gaps = 37/303 (12%)
Frame = +2
Query: 38 EPPRKRLCVENSSVSCNNRYIEVGIEEFFDNIGVGFSGKIKERWEDFIVNEVDLNNHVVF 217
E K+L +E + + +VGI F GF G+IK+R+ DF+VNE+D V+
Sbjct: 21 ENAAKKLKIEQRTQADGIHEADVGITLFLSPELPGFRGQIKQRYTDFLVNEIDQEGKVIH 80
Query: 218 LENTDLPLPKCVNNNIENRH--------------------------LNESVINDLENLSA 319
L + +PK + E + E + +E++
Sbjct: 81 LTDKGFKMPKKPQRSKEEVNAEKESEAARRQEFNVDPELRNQLVEIFGEEDVLKIESVYR 140
Query: 320 ISCKKEVIFDAPDDKLIRTDIYNFLKSNYPNLYGNTELKDGKRVFIVTNYEDERSQIAKK 499
+ K E + +DK +RT I+ L+ + N + D I + + R+ +K
Sbjct: 141 TANKMETAKNF-EDKSVRTKIHQLLREAFKNELESVTT-DTNTFKIARSNRNSRTNKQEK 198
Query: 500 ISKTSGDD-----------DYCQFVLYKEGKDTISAISLIAKYLKMKPGSFTYAGTKDRR 646
I++T + D+ F L+KE KDT+ A+++I K L++ YAGTKDRR
Sbjct: 199 INQTRDANGVENWGYGPSKDFIHFTLHKENKDTMEAVNVITKLLRVPSRVIRYAGTKDRR 258
Query: 647 GITSQLVRIRSCAANRLKGLNKCLNGIVLGNFSYHHSPLKLGDLYGNRFRLVIRDVHGSD 826
+T Q V I +RL LN+ L G+++GN+++ + L LGDL GN F +VIRDV +
Sbjct: 259 AVTCQRVSISKIGLDRLNALNRTLKGMIIGNYNFSDASLNLGDLKGNEFVVVIRDVTTGN 318
Query: 827 DDI 835
++
Sbjct: 319 SEV 321
>sp|O74343|YH2X_SCHPO Hypothetical pseudouridine synthase C1A4.09 in chromosome II
Length = 680
Score = 113 bits (283), Expect = 6e-25
Identities = 92/305 (30%), Positives = 138/305 (45%), Gaps = 52/305 (17%)
Frame = +2
Query: 101 EVGIEEFFDNIGVGFSGKIKERWEDFIVNEVDLNNHVVFL---ENTDLPLPKCV------ 253
+VGI+ F + G IK R+ DF V EVD + ++V L E D L K
Sbjct: 51 DVGIDAFLNPNLPSIDGIIKARFTDFAVFEVDTDGNIVHLTDMEAHDPILSKATGDKETE 110
Query: 254 ------NNNIENRHLNES-----------VINDLENLSAISCKKEVIFDA---------- 352
N +I N S + NDL+++ E I
Sbjct: 111 DAKDSSNQDISNDQKAPSFKEQEPATLPILPNDLQSIIPKGIGNEFIQSLHKLSVGEITD 170
Query: 353 -----------PDDKLIRTDIYNFLKSNYPNLYGNTELKDGKRVFIVTNYEDERSQIAKK 499
P DK RT ++ F+++N+ L +T+ V T RS+ +
Sbjct: 171 PISLILPENTPPMDKGQRTILHQFIRNNFSGLESSTKGNGTFTVSKTTRKNQPRSRRDPR 230
Query: 500 ISKTSGDDDYCQFVLYKEGKDTISAISLIAKYLKMKPGSFTYAGTKDRRGITSQLVRIRS 679
+S + +YC F LYKE +D++ + IA+ LK+ + + AGTKDRRG+T Q V I
Sbjct: 231 LSWKALGGEYCHFHLYKENRDSMDCLGKIARLLKVPTRTLSIAGTKDRRGVTCQRVAIHH 290
Query: 680 CAANRLKGLN-----KCLNGIVLGNFSYHHSPLKLGDLYGNRFRLVIRDVHGSDDDIEAA 844
A+RL LN G +LGN+SY +S L+LGDL GN F +V+R+V + + A
Sbjct: 291 VRASRLAQLNSGSLKNSTYGFLLGNYSYKNSNLRLGDLKGNEFHIVVRNVITPKEKVVEA 350
Query: 845 IDRFK 859
++ K
Sbjct: 351 LNSLK 355
>sp|Q17426|YQ4B_CAEEL Hypothetical pseudouridine synthase in chromosome V
Length = 577
Score = 86.3 bits (212), Expect = 1e-16
Identities = 65/237 (27%), Positives = 114/237 (48%), Gaps = 10/237 (4%)
Frame = +2
Query: 155 IKERWEDFIVNEVDLNNHVVFLENTDLPLPKCVNNNIENRHLNESVIN----DLENLSAI 322
+KE + DFIV E+ ++ V+ + + D+ L + + E+ + E V E L+A+
Sbjct: 23 LKEMYSDFIVQEILADHTVLAIPSPDVVL-ESTGSKKEDIEIEECVAKPDCISEETLAAL 81
Query: 323 ----SCKKEVIFDAPDD--KLIRTDIYNFLKSNYPNLYGNTELKDGKRVFIVTNYEDERS 484
S K + + DD K R I++F++ Y + +DG I+ ++ +S
Sbjct: 82 NDRFSTKGDPVLVKVDDLSKEDRKSIHHFIRERYAGVLITETKEDG----ILVSHGHTKS 137
Query: 485 QIAKKISKTSGDDDYCQFVLYKEGKDTISAISLIAKYLKMKPGSFTYAGTKDRRGITSQL 664
+K+ + C F + KE K+T A LIAK+L + P + G KD+R +TSQ
Sbjct: 138 SRKRKLWDEKVPKE-CHFTICKENKETSFACQLIAKFLNVGPNNIRTHGIKDKRAVTSQR 196
Query: 665 VRIRSCAANRLKGLNKCLNGIVLGNFSYHHSPLKLGDLYGNRFRLVIRDVHGSDDDI 835
V + + LN L GI + Y P+++G +GNRF +V+R + + +
Sbjct: 197 VSVTKVHERTILDLNSKLRGIRVFGCEYKDDPVQMGAHWGNRFSIVLRSLPDDSEQL 253
>sp|O27572|TRUD_METTH Probable tRNA pseudouridine synthase D (tRNA-uridine isomerase D)
(tRNA pseudouridylate synthase D)
Length = 415
Score = 60.1 bits (144), Expect = 8e-09
Identities = 32/115 (27%), Positives = 61/115 (53%)
Frame = +2
Query: 500 ISKTSGDDDYCQFVLYKEGKDTISAISLIAKYLKMKPGSFTYAGTKDRRGITSQLVRIRS 679
+++ SG + KEG+ T+ + IA+ L + +AG KD+R +T Q + + +
Sbjct: 32 LTEPSGSGPNTWIWIEKEGRTTLDVLLDIARELHLDRRRMGFAGMKDKRAVTRQWICVSN 91
Query: 680 CAANRLKGLNKCLNGIVLGNFSYHHSPLKLGDLYGNRFRLVIRDVHGSDDDIEAA 844
A + +K + + + + + + L++G L GNRFR++IRD D+ +E A
Sbjct: 92 TAPSEVKAIEERIRNVKFLRVTANEKKLRMGQLLGNRFRILIRDTE-IDEPLETA 145
>sp|Q8EBR4|TRUD_SHEON tRNA pseudouridine synthase D (tRNA-uridine isomerase D) (tRNA
pseudouridylate synthase D)
Length = 370
Score = 60.1 bits (144), Expect = 8e-09
Identities = 34/108 (31%), Positives = 56/108 (51%)
Frame = +2
Query: 512 SGDDDYCQFVLYKEGKDTISAISLIAKYLKMKPGSFTYAGTKDRRGITSQLVRIRSCAAN 691
SG+ ++ + K+G +T+ ++AK+ K+ P TYAG KD+ IT Q IR
Sbjct: 35 SGEGEHHLVHIRKDGLNTVQVAEMLAKFAKVHPKEVTYAGQKDKNAITEQWFGIRIPGKE 94
Query: 692 RLKGLNKCLNGIVLGNFSYHHSPLKLGDLYGNRFRLVIRDVHGSDDDI 835
+ + + + + S H L++G L GNRF L +R+V +D I
Sbjct: 95 TPAWIELNSDRLTVLSSSRHSKKLRIGALLGNRFILTLRNVTNVEDII 142
>sp|Q58008|TRUD1_METJA Probable tRNA pseudouridine synthase D 1 (tRNA-uridine isomerase D
1) (tRNA pseudouridylate synthase D 1)
Length = 392
Score = 60.1 bits (144), Expect = 8e-09
Identities = 36/111 (32%), Positives = 61/111 (54%), Gaps = 1/111 (0%)
Frame = +2
Query: 524 DYCQFVLYKEGKDTISAISLIAKYLKMKPGSFTYAGTKDRRGITSQLVRIRSCAANRLKG 703
+Y F L K T+ AI IA + + F +AG KD+ +T+Q V C +L+
Sbjct: 54 NYIHFTLEKRNWTTLDAIREIANRVGKQRKHFGFAGNKDKYAVTTQRV---GCFNVKLED 110
Query: 704 LNKC-LNGIVLGNFSYHHSPLKLGDLYGNRFRLVIRDVHGSDDDIEAAIDR 853
L K + GI+L +F + ++LGDL+GNRF + +R+ ++E A+++
Sbjct: 111 LMKVKIKGIILRDFQKTNRKIRLGDLWGNRFTIRVREPELKGKELEEALNK 161
>sp|Q5JDB6|TRUD_PYRKO Probable tRNA pseudouridine synthase D (tRNA-uridine isomerase D)
(tRNA pseudouridylate synthase D)
Length = 416
Score = 58.5 bits (140), Expect = 2e-08
Identities = 40/111 (36%), Positives = 60/111 (54%)
Frame = +2
Query: 527 YCQFVLYKEGKDTISAISLIAKYLKMKPGSFTYAGTKDRRGITSQLVRIRSCAANRLKGL 706
Y F+L K +T++A+ IAK + +AGTKDR +T Q + + + A R++ +
Sbjct: 46 YAIFLLKKRNWETMAAVKEIAKRAGINYREIGFAGTKDRHAVTYQYISVPAEARERVEQV 105
Query: 707 NKCLNGIVLGNFSYHHSPLKLGDLYGNRFRLVIRDVHGSDDDIEAAIDRFK 859
+ + I L SY +KLG L GNRFR+++RDV E A DR K
Sbjct: 106 S--IRDIELRFVSYGRF-IKLGHLLGNRFRIIVRDVS------EDAFDRTK 147
>sp|P60347|TRUD_GEOSL tRNA pseudouridine synthase D (tRNA-uridine isomerase D) (tRNA
pseudouridylate synthase D)
Length = 408
Score = 57.4 bits (137), Expect = 5e-08
Identities = 39/113 (34%), Positives = 57/113 (50%), Gaps = 1/113 (0%)
Frame = +2
Query: 515 GDDDYCQFVLYKEGKDTISAISLIAKYLKMKPGSFTYAGTKDRRGITSQLVRIRSCAANR 694
G+ ++ V+ K G T+ AI + + YAG KD RGIT Q V +
Sbjct: 41 GEGEHTYAVIEKRGITTLEAIRRLCRATGAPERDTGYAGMKDARGITRQTVSLPRVTPAE 100
Query: 695 LKGLNKCLNGIVLGNFSYHHSPLKLGDLYGNRFRLVIRD-VHGSDDDIEAAID 850
+ GLN + GI + + H + L+LG L GNRFRL +R+ V + D A +D
Sbjct: 101 VMGLN--IPGIRILSADRHRNKLRLGHLAGNRFRLRLRETVPDAADRARAILD 151
>sp|Q6LZL0|TRUD2_METMP Probable tRNA pseudouridine synthase D 2 (tRNA-uridine isomerase D
2) (tRNA pseudouridylate synthase D 2)
Length = 390
Score = 56.2 bits (134), Expect = 1e-07
Identities = 40/147 (27%), Positives = 73/147 (49%), Gaps = 7/147 (4%)
Frame = +2
Query: 431 LKDGKRVFIVTNYEDERSQIAKKISKTSGDDD-------YCQFVLYKEGKDTISAISLIA 589
LK FIV E + + ++ K G +D + F + K +T+ A+ I
Sbjct: 19 LKKYPEDFIVEEITPEGTVL--EVGKEIGFEDVEKWHGSFIHFTVEKTNWNTMDALKQIV 76
Query: 590 KYLKMKPGSFTYAGTKDRRGITSQLVRIRSCAANRLKGLNKCLNGIVLGNFSYHHSPLKL 769
+ K K +F +AGTKD+ +T+Q +L+ +N + IV+ + + L++
Sbjct: 77 RATKTKRKNFGFAGTKDKFAVTTQRFGCFGLKKEQLENIN--IKDIVIRDVQKTNKKLRM 134
Query: 770 GDLYGNRFRLVIRDVHGSDDDIEAAID 850
G L+GN+F + IRD++ S+ +I+ D
Sbjct: 135 GGLWGNKFTIKIRDLNLSEKEIKRISD 161
Database: Non-redundant SwissProt sequences
Posted date: Dec 6, 2005 7:40 AM
Number of letters in database: 68,354,980
Number of sequences in database: 184,735
Database: swissprot.01
Posted date: Dec 6, 2005 8:18 AM
Number of letters in database: 66,202,850
Number of sequences in database: 184,431
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 96,105,802
Number of Sequences: 369166
Number of extensions: 2000087
Number of successful extensions: 5440
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 5191
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 5407
length of database: 68,354,980
effective HSP length: 109
effective length of database: 48,218,865
effective search space used: 8534739105
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)