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_014_H04
(604 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q9Y2L1|RRP44_HUMAN Exosome complex exonuclease RRP44 (Ri... 59 7e-09
sp|Q9WZI1|RNR_THEMA Ribonuclease R (RNase R) (VacB protein ... 59 1e-08
sp|P37202|DIS3_SCHPO Mitotic control protein dis3 57 5e-08
sp|Q09568|YR86_CAEEL Hypothetical protein F48E8.6 in chromo... 57 5e-08
sp|Q9PK00|RNR_CHLMU Ribonuclease R (RNase R) (VacB protein ... 55 1e-07
sp|O84402|RNR_CHLTR Ribonuclease R (RNase R) (VacB protein ... 55 1e-07
sp|Q08162|RRP44_YEAST Exosome complex exonuclease RRP44 (Ri... 55 2e-07
sp|Q9CH00|RNR1_LACLA Ribonuclease R 1 (RNase R 1) (VacB pro... 53 5e-07
sp|O32231|RNR_BACSU Ribonuclease R (RNase R) (VacB protein ... 53 7e-07
sp|Q98QL0|RNR_MYCPU Ribonuclease R (RNase R) (VacB protein ... 50 6e-06
>sp|Q9Y2L1|RRP44_HUMAN Exosome complex exonuclease RRP44 (Ribosomal RNA processing protein
44) (DIS3 protein homolog)
Length = 958
Score = 59.3 bits (142), Expect = 7e-09
Identities = 45/152 (29%), Positives = 67/152 (44%)
Frame = +1
Query: 148 EPIGFETKNLGKSNFLIEEFMLLANEASAKLLFNNFLSSESQIGAFLRRHPSPDKLKKSR 327
+PI +TK L ++N ++EEFMLLAN + AK + F A LR+HP+P
Sbjct: 647 DPIDLQTKELRETNSMVEEFMLLANISVAKKIHEEFSEH-----ALLRKHPAPPPSNYEI 701
Query: 328 WFTACKRAGFKPKSLESSSVMEFINSLQSTCTTKATGLSYITYLNMELALYCCAEITYL* 507
A + + K+ + S+ E ++ +S Y+ L LA C + Y
Sbjct: 702 LVKAARSRNLEIKTDTAKSLAESLDQAESPT------FPYLNTLLRILATRCMMQAVY-- 753
Query: 508 VILIRITLLMILSFRFIILGLNVPLYTHFTSP 603
+ F GL P+YTHFTSP
Sbjct: 754 -------FCSGMDNDFHHYGLASPIYTHFTSP 778
Score = 52.4 bits (124), Expect = 9e-07
Identities = 22/43 (51%), Positives = 32/43 (74%)
Frame = +3
Query: 6 KLSNGNYLVGIHIADVSHFVLPNSALDSAALQRASSIYLKHKK 134
+L NGN VG+HIADVSHF+ P +ALD + +R +++YL K+
Sbjct: 494 ELENGNLEVGVHIADVSHFIRPGNALDQESARRGTTVYLCEKR 536
>sp|Q9WZI1|RNR_THEMA Ribonuclease R (RNase R) (VacB protein homolog)
Length = 710
Score = 58.5 bits (140), Expect = 1e-08
Identities = 26/40 (65%), Positives = 32/40 (80%)
Frame = +3
Query: 3 EKLSNGNYLVGIHIADVSHFVLPNSALDSAALQRASSIYL 122
EKL NGNYL+G+HIADVSH+V SALD A +R +S+YL
Sbjct: 272 EKLPNGNYLLGVHIADVSHYVKEGSALDQEAFKRGTSVYL 311
>sp|P37202|DIS3_SCHPO Mitotic control protein dis3
Length = 970
Score = 56.6 bits (135), Expect = 5e-08
Identities = 24/42 (57%), Positives = 33/42 (78%)
Frame = +3
Query: 9 LSNGNYLVGIHIADVSHFVLPNSALDSAALQRASSIYLKHKK 134
L NGNY VG+HIADV+HFV PN+++DS A R +++YL K+
Sbjct: 524 LPNGNYEVGVHIADVTHFVKPNTSMDSEAASRGTTVYLVDKR 565
Score = 43.9 bits (102), Expect = 3e-04
Identities = 50/165 (30%), Positives = 73/165 (44%), Gaps = 8/165 (4%)
Frame = +1
Query: 133 NDSVPEPIGFETKNLGKSNFLIEEFMLLANEASAKLLFNNFLSSESQIGAFLRRHPSP-- 306
++ +P+ E K L ++N L+EEFMLLAN + A+ +++ F + A LRRH +P
Sbjct: 671 DNETSDPMDVEIKQLLETNSLVEEFMLLANISVAQKIYDAFPQT-----AVLRRHAAPPL 725
Query: 307 ---DKLKKSRWFTACKRAGFK---PKSLESSSVMEFINSLQSTCTTKATGLSYITYLNME 468
D L+ CK K KSL + S+ E ++ + T L +T M
Sbjct: 726 TNFDSLQDI--LRVCKGMHLKCDTSKSL-AKSLDECVDPKEPYFNTL---LRILTTRCML 779
Query: 469 LALYCCAEITYL*VILIRITLLMILSFRFIILGLNVPLYTHFTSP 603
A Y C+ F GL P+YTHFTSP
Sbjct: 780 SAEYFCSG--------------TFAPPDFRHYGLASPIYTHFTSP 810
>sp|Q09568|YR86_CAEEL Hypothetical protein F48E8.6 in chromosome III
Length = 817
Score = 56.6 bits (135), Expect = 5e-08
Identities = 54/161 (33%), Positives = 69/161 (42%), Gaps = 5/161 (3%)
Frame = +1
Query: 136 DSVPEPIGFETKNLGKSNFLIEEFMLLANEASAKLLFNNFLSSESQIGAFLRRHPSPDKL 315
D +P G + SN L+EEFMLLAN AK + NF A LR HP P +
Sbjct: 498 DEDKKPQGVSIYEIKDSNKLVEEFMLLANMEVAKKIAENFPEH-----ALLRNHPPPKEK 552
Query: 316 KKSRWFTACKRAGF----KPKSLESSSVMEFI-NSLQSTCTTKATGLSYITYLNMELALY 480
C R GF + L S+S+ ++ S C + +S +T M+ A Y
Sbjct: 553 MIKDVAEQCARIGFPLDGRTSGLLSTSLRKYQGKSRLDMCIRQV--ISSLTIKPMQQAKY 610
Query: 481 CCAEITYL*VILIRITLLMILSFRFIILGLNVPLYTHFTSP 603
C T M LSF + LNV YTHFTSP
Sbjct: 611 FC-------------TFEMPLSF-YHHFALNVDHYTHFTSP 637
Score = 32.7 bits (73), Expect = 0.73
Identities = 14/31 (45%), Positives = 21/31 (67%)
Frame = +3
Query: 30 VGIHIADVSHFVLPNSALDSAALQRASSIYL 122
+G+HIADV+ F+ + LD A +R +S YL
Sbjct: 343 IGVHIADVTFFLKEGTELDKWASERGNSTYL 373
>sp|Q9PK00|RNR_CHLMU Ribonuclease R (RNase R) (VacB protein homolog)
Length = 692
Score = 55.5 bits (132), Expect = 1e-07
Identities = 24/38 (63%), Positives = 30/38 (78%)
Frame = +3
Query: 18 GNYLVGIHIADVSHFVLPNSALDSAALQRASSIYLKHK 131
GNY++G+HIADVSH+V PNSALD A +R +SIY K
Sbjct: 235 GNYILGVHIADVSHYVTPNSALDQEAAKRCNSIYFPGK 272
>sp|O84402|RNR_CHLTR Ribonuclease R (RNase R) (VacB protein homolog)
Length = 694
Score = 55.1 bits (131), Expect = 1e-07
Identities = 24/38 (63%), Positives = 30/38 (78%)
Frame = +3
Query: 18 GNYLVGIHIADVSHFVLPNSALDSAALQRASSIYLKHK 131
GNY++G+HIADVSH+V PNSALD A +R +SIY K
Sbjct: 235 GNYILGVHIADVSHYVTPNSALDREAAKRCNSIYFPGK 272
>sp|Q08162|RRP44_YEAST Exosome complex exonuclease RRP44 (Ribosomal RNA processing protein
44) (Protein DIS3)
Length = 1001
Score = 54.7 bits (130), Expect = 2e-07
Identities = 24/44 (54%), Positives = 33/44 (75%)
Frame = +3
Query: 3 EKLSNGNYLVGIHIADVSHFVLPNSALDSAALQRASSIYLKHKK 134
+KL NGN+ VG+HIADV+HFV P +ALD+ R +S+YL K+
Sbjct: 557 KKLPNGNWEVGVHIADVTHFVKPGTALDAEGAARGTSVYLVDKR 600
Score = 40.4 bits (93), Expect = 0.003
Identities = 47/169 (27%), Positives = 65/169 (38%), Gaps = 17/169 (10%)
Frame = +1
Query: 148 EPIGFETKNLGKSNFLIEEFMLLANEASAKLLFNNFLSSESQIGAFLRRHPSPDKLKKSR 327
+P E K L +N L+EEFMLLAN + A+ +++ F + A LRRH +P
Sbjct: 711 DPNEVEIKKLLATNSLVEEFMLLANISVARKIYDAFPQT-----AMLRRHAAP------- 758
Query: 328 WFTACKRAGFKPKSLESSSVMEFINSLQSTCTTKATGLSYITYLNMELALYCCAEITYL* 507
S+ E +N + +T + L L L E Y
Sbjct: 759 ----------------PSTNFEILNEMLNTRKNMSISLESSKALADSLDRCVDPEDPYF- 801
Query: 508 VILIRITLLMILSFR-----------------FIILGLNVPLYTHFTSP 603
TL+ I+S R F GL V +YTHFTSP
Sbjct: 802 -----NTLVRIMSTRCMMAAQYFYSGAYSYPDFRHYGLAVDIYTHFTSP 845
>sp|Q9CH00|RNR1_LACLA Ribonuclease R 1 (RNase R 1) (VacB protein homolog 1)
Length = 817
Score = 53.1 bits (126), Expect = 5e-07
Identities = 22/40 (55%), Positives = 31/40 (77%)
Frame = +3
Query: 3 EKLSNGNYLVGIHIADVSHFVLPNSALDSAALQRASSIYL 122
++L NGNY +G+HIADVSH+V NS LD A +R +S+Y+
Sbjct: 285 KRLENGNYELGVHIADVSHYVTENSPLDKEAYERGTSVYV 324
>sp|O32231|RNR_BACSU Ribonuclease R (RNase R) (VacB protein homolog)
Length = 779
Score = 52.8 bits (125), Expect = 7e-07
Identities = 22/39 (56%), Positives = 31/39 (79%)
Frame = +3
Query: 6 KLSNGNYLVGIHIADVSHFVLPNSALDSAALQRASSIYL 122
KL +G+Y +G+HIADVSH+V NS +D AL+R +S+YL
Sbjct: 275 KLDDGSYKLGVHIADVSHYVTENSPIDKEALERGTSVYL 313
>sp|Q98QL0|RNR_MYCPU Ribonuclease R (RNase R) (VacB protein homolog)
Length = 725
Score = 49.7 bits (117), Expect = 6e-06
Identities = 21/36 (58%), Positives = 30/36 (83%)
Frame = +3
Query: 21 NYLVGIHIADVSHFVLPNSALDSAALQRASSIYLKH 128
++L+ +HIADV+H+V NSA+D AL+RA+SIYL H
Sbjct: 267 HFLLSVHIADVAHYVKENSAIDKEALRRATSIYLPH 302
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: 67,211,752
Number of Sequences: 369166
Number of extensions: 1244868
Number of successful extensions: 3695
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 3106
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): 3687
length of database: 68,354,980
effective HSP length: 105
effective length of database: 48,957,805
effective search space used: 4650991475
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)