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_011_G14-2
(446 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P62318|SMD3_HUMAN Small nuclear ribonucleoprotein Sm D3 ... 112 5e-25
sp|O44437|SMD3_DROME Small nuclear ribonucleoprotein SM D3 ... 112 5e-25
sp|Q17348|SMD3_CAEEL Small nuclear ribonucleoprotein Sm D3 ... 106 2e-23
sp|Q9UUC6|SMD3_SCHPO Probable small nuclear ribonucleoprote... 103 2e-22
sp|P43321|SMD3_YEAST Small nuclear ribonucleoprotein Sm D3 ... 87 2e-17
sp|Q9Y4Z0|LSM4_HUMAN U6 snRNA-associated Sm-like protein LS... 49 4e-06
sp|Q9QXA5|LSM4_MOUSE U6 snRNA-associated Sm-like protein LSm4 49 4e-06
sp|Q19952|LSM4_CAEEL Probable U6 snRNA-associated Sm-like p... 49 7e-06
sp|Q9LGE6|LSM4_ORYSA Probable U6 snRNA-associated Sm-like p... 48 9e-06
sp|Q43582|LSM4_TOBAC Probable U6 snRNA-associated Sm-like p... 47 3e-05
>sp|P62318|SMD3_HUMAN Small nuclear ribonucleoprotein Sm D3 (snRNP core protein D3)
(Sm-D3)
sp|P62320|SMD3_MOUSE Small nuclear ribonucleoprotein Sm D3 (snRNP core protein D3)
(Sm-D3)
sp|P62323|SMD3_XENLA Small nuclear ribonucleoprotein Sm D3 (snRNP core protein D3)
(Sm-D3)
Length = 126
Score = 112 bits (279), Expect = 5e-25
Identities = 54/72 (75%), Positives = 61/72 (84%)
Frame = +3
Query: 3 HESEGHTVTLETLNGELYRGKLIEAEDNMNVQLCDITYTDRSGKVSQLQNVYIRGSKIRF 182
HE+EGH VT ET GE+YRGKLIEAEDNMN Q+ +IT T R G+V+QL+ VYIRGSKIRF
Sbjct: 11 HEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQVYIRGSKIRF 70
Query: 183 FILPDMLKNAPM 218
ILPDMLKNAPM
Sbjct: 71 LILPDMLKNAPM 82
>sp|O44437|SMD3_DROME Small nuclear ribonucleoprotein SM D3 (snRNP core protein D3)
(SM-D3)
Length = 151
Score = 112 bits (279), Expect = 5e-25
Identities = 52/72 (72%), Positives = 60/72 (83%)
Frame = +3
Query: 3 HESEGHTVTLETLNGELYRGKLIEAEDNMNVQLCDITYTDRSGKVSQLQNVYIRGSKIRF 182
HE+EGH +T ET+ GE+YRGKLIEAEDNMN Q+ IT T R G+ + L+NVYIRGSKIRF
Sbjct: 11 HEAEGHIITCETITGEVYRGKLIEAEDNMNCQMTQITVTYRDGRTANLENVYIRGSKIRF 70
Query: 183 FILPDMLKNAPM 218
ILPDMLKNAPM
Sbjct: 71 LILPDMLKNAPM 82
>sp|Q17348|SMD3_CAEEL Small nuclear ribonucleoprotein Sm D3 (snRNP core protein D3)
(Sm-D3)
Length = 136
Score = 106 bits (265), Expect = 2e-23
Identities = 51/72 (70%), Positives = 58/72 (80%)
Frame = +3
Query: 3 HESEGHTVTLETLNGELYRGKLIEAEDNMNVQLCDITYTDRSGKVSQLQNVYIRGSKIRF 182
HE+EGH VTLET+ GE+YRGKL EAEDNMN QL + T R G+ QL NV+IRG+KIRF
Sbjct: 12 HEAEGHMVTLETVTGEVYRGKLSEAEDNMNCQLAETVVTFRDGRSHQLDNVFIRGNKIRF 71
Query: 183 FILPDMLKNAPM 218
ILPDMLKNAPM
Sbjct: 72 MILPDMLKNAPM 83
>sp|Q9UUC6|SMD3_SCHPO Probable small nuclear ribonucleoprotein Sm D3 (snRNP core protein
D3) (Sm-D3)
Length = 97
Score = 103 bits (256), Expect = 2e-22
Identities = 49/72 (68%), Positives = 57/72 (79%)
Frame = +3
Query: 3 HESEGHTVTLETLNGELYRGKLIEAEDNMNVQLCDITYTDRSGKVSQLQNVYIRGSKIRF 182
HE++GH VT+E NG YRGKLIEAEDNMN Q+ DI+ T R G+VS L VYIRGS IRF
Sbjct: 9 HETQGHIVTMELENGSTYRGKLIEAEDNMNCQMRDISVTARDGRVSHLDQVYIRGSHIRF 68
Query: 183 FILPDMLKNAPM 218
I+PDML+NAPM
Sbjct: 69 LIVPDMLRNAPM 80
>sp|P43321|SMD3_YEAST Small nuclear ribonucleoprotein Sm D3 (snRNP core protein D3)
(Sm-D3)
Length = 101
Score = 87.0 bits (214), Expect = 2e-17
Identities = 36/72 (50%), Positives = 56/72 (77%)
Frame = +3
Query: 3 HESEGHTVTLETLNGELYRGKLIEAEDNMNVQLCDITYTDRSGKVSQLQNVYIRGSKIRF 182
+E++GH V+LE G YRGKL+E+ED+MNVQL D+ T+ G V+ + +++RGS+I+F
Sbjct: 12 NEAQGHIVSLELTTGATYRGKLVESEDSMNVQLRDVIATEPQGAVTHMDQIFVRGSQIKF 71
Query: 183 FILPDMLKNAPM 218
++PD+LKNAP+
Sbjct: 72 IVVPDLLKNAPL 83
>sp|Q9Y4Z0|LSM4_HUMAN U6 snRNA-associated Sm-like protein LSm4 (Glycine-rich protein)
(GRP)
Length = 139
Score = 49.3 bits (116), Expect = 4e-06
Identities = 23/64 (35%), Positives = 38/64 (59%), Gaps = 1/64 (1%)
Frame = +3
Query: 9 SEGHTVTLETLNGELYRGKLIEAEDNMNVQLCDITYTDRSG-KVSQLQNVYIRGSKIRFF 185
++ H + +E NGE Y G L+ ++ MN+ L ++ T R G K ++ YIRGS I++
Sbjct: 10 AQNHPMLVELKNGETYNGHLVSCDNWMNINLREVICTSRDGDKFWRMPECYIRGSTIKYL 69
Query: 186 ILPD 197
+PD
Sbjct: 70 RIPD 73
>sp|Q9QXA5|LSM4_MOUSE U6 snRNA-associated Sm-like protein LSm4
Length = 137
Score = 49.3 bits (116), Expect = 4e-06
Identities = 23/64 (35%), Positives = 38/64 (59%), Gaps = 1/64 (1%)
Frame = +3
Query: 9 SEGHTVTLETLNGELYRGKLIEAEDNMNVQLCDITYTDRSG-KVSQLQNVYIRGSKIRFF 185
++ H + +E NGE Y G L+ ++ MN+ L ++ T R G K ++ YIRGS I++
Sbjct: 10 AQNHPMLVELKNGETYNGHLVSCDNWMNINLREVICTSRDGDKFWRMPECYIRGSTIKYL 69
Query: 186 ILPD 197
+PD
Sbjct: 70 RIPD 73
>sp|Q19952|LSM4_CAEEL Probable U6 snRNA-associated Sm-like protein LSm4
Length = 123
Score = 48.5 bits (114), Expect = 7e-06
Identities = 21/64 (32%), Positives = 37/64 (57%), Gaps = 1/64 (1%)
Frame = +3
Query: 9 SEGHTVTLETLNGELYRGKLIEAEDNMNVQLCDITYTDRSG-KVSQLQNVYIRGSKIRFF 185
++ H + +E NGE Y G L + MN+ L D+ +T + G K ++ Y+RGS I++
Sbjct: 11 AQNHPMLVELKNGETYNGHLKACDSWMNIHLVDVIFTSKDGDKFFKMSEAYVRGSTIKYL 70
Query: 186 ILPD 197
+P+
Sbjct: 71 RIPE 74
>sp|Q9LGE6|LSM4_ORYSA Probable U6 snRNA-associated Sm-like protein LSm4
Length = 147
Score = 48.1 bits (113), Expect = 9e-06
Identities = 22/64 (34%), Positives = 38/64 (59%), Gaps = 1/64 (1%)
Frame = +3
Query: 9 SEGHTVTLETLNGELYRGKLIEAEDNMNVQLCDITYTDRSG-KVSQLQNVYIRGSKIRFF 185
++GH + +E NGE Y G L+ + MN+ L ++ T + G K ++ YIRG+ I++
Sbjct: 10 AQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDKFWRMPECYIRGNTIKYL 69
Query: 186 ILPD 197
+PD
Sbjct: 70 RVPD 73
>sp|Q43582|LSM4_TOBAC Probable U6 snRNA-associated Sm-like protein LSm4 (Glycine-rich
protein 10) (GRP 10)
Length = 146
Score = 46.6 bits (109), Expect = 3e-05
Identities = 20/64 (31%), Positives = 38/64 (59%), Gaps = 1/64 (1%)
Frame = +3
Query: 9 SEGHTVTLETLNGELYRGKLIEAEDNMNVQLCDITYTDRSG-KVSQLQNVYIRGSKIRFF 185
++GH + +E NGE Y G L+ + MN+ L ++ T + G + ++ Y+RG+ I++
Sbjct: 10 AQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYVRGNTIKYL 69
Query: 186 ILPD 197
+PD
Sbjct: 70 RVPD 73
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: 42,302,312
Number of Sequences: 369166
Number of extensions: 718482
Number of successful extensions: 1477
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 1457
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): 1471
length of database: 68,354,980
effective HSP length: 100
effective length of database: 49,881,480
effective search space used: 2394311040
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)