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_J17
(399 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q9VU02|SMD1_DROME Probable small nuclear ribonucleoprote... 145 2e-35
sp|P62315|SMD1_MOUSE Small nuclear ribonucleoprotein Sm D1 ... 144 8e-35
sp|O42661|SMD1_SCHPO Probable small nuclear ribonucleoprote... 134 5e-32
sp|Q10013|SMD1_CAEEL Probable small nuclear ribonucleoprote... 129 2e-30
sp|Q02260|SMD1_YEAST Small nuclear ribonucleoprotein Sm D1 ... 62 5e-10
sp|Q9UUC6|SMD3_SCHPO Probable small nuclear ribonucleoprote... 49 5e-06
sp|Q969L4|LSM10_HUMAN U7 snRNA-associated Sm-like protein L... 46 2e-05
sp|P38203|LSM2_YEAST U6 snRNA-associated Sm-like protein LS... 44 2e-04
sp|Q8QZX5|LSM10_MOUSE U7 snRNA-associated Sm-like protein L... 44 2e-04
sp|Q9Y333|LSM2_HUMAN U6 snRNA-associated Sm-like protein LS... 44 2e-04
>sp|Q9VU02|SMD1_DROME Probable small nuclear ribonucleoprotein Sm D1 (snRNP core protein
D1) (Sm-D1)
Length = 124
Score = 145 bits (367), Expect = 2e-35
Identities = 65/92 (70%), Positives = 85/92 (92%)
Frame = +3
Query: 3 LVRFLMRLSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIRG 182
LVRFLM+LSHETVTIE+KNGT +HGT+ GVD+AMNTHL+SV++T KN++P++L+T +IRG
Sbjct: 3 LVRFLMKLSHETVTIELKNGTQIHGTITGVDVAMNTHLKSVRMTIKNRDPVHLETLSIRG 62
Query: 183 NNIRYFILPETLPLDTMLIDDTPKVSKKKKET 278
NNIRYFILP++LPL+T+LIDDTPK KKK++
Sbjct: 63 NNIRYFILPDSLPLETLLIDDTPKSKTKKKDS 94
>sp|P62315|SMD1_MOUSE Small nuclear ribonucleoprotein Sm D1 (snRNP core protein D1)
(Sm-D1) (Sm-D autoantigen)
sp|P62314|SMD1_HUMAN Small nuclear ribonucleoprotein Sm D1 (snRNP core protein D1)
(Sm-D1) (Sm-D autoantigen)
Length = 119
Score = 144 bits (362), Expect = 8e-35
Identities = 65/94 (69%), Positives = 83/94 (88%)
Frame = +3
Query: 3 LVRFLMRLSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIRG 182
LVRFLM+LSHETVTIE+KNGT VHGT+ GVD++MNTHL++VK+T KN+EP+ L+T +IRG
Sbjct: 3 LVRFLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLETLSIRG 62
Query: 183 NNIRYFILPETLPLDTMLIDDTPKVSKKKKETTS 284
NNIRYFILP++LPLDT+L+D PKV KK+E +
Sbjct: 63 NNIRYFILPDSLPLDTLLVDVEPKVKSKKREAVA 96
>sp|O42661|SMD1_SCHPO Probable small nuclear ribonucleoprotein Sm D1 (snRNP core protein
D1) (Sm-D1)
Length = 117
Score = 134 bits (338), Expect = 5e-32
Identities = 61/91 (67%), Positives = 81/91 (89%)
Frame = +3
Query: 3 LVRFLMRLSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIRG 182
LVRFLM+L++ETV+IE+KNGTIVHGT+ VDM MNTHL++VK+T K +EP+ ++T +IRG
Sbjct: 3 LVRFLMKLTNETVSIELKNGTIVHGTITSVDMQMNTHLKAVKMTVKGREPVPVETLSIRG 62
Query: 183 NNIRYFILPETLPLDTMLIDDTPKVSKKKKE 275
NNIRY+ILP++LPLDT+LIDD+ K +KKKE
Sbjct: 63 NNIRYYILPDSLPLDTLLIDDSTKPKQKKKE 93
>sp|Q10013|SMD1_CAEEL Probable small nuclear ribonucleoprotein Sm D1 (snRNP core protein
D1) (Sm-D1)
Length = 126
Score = 129 bits (324), Expect = 2e-30
Identities = 61/84 (72%), Positives = 72/84 (85%)
Frame = +3
Query: 3 LVRFLMRLSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIRG 182
LVRFLM+LSHETV IE+KNGT V GT+ GVD+AMNTHLR+V +T KNKEP+ LDT +IRG
Sbjct: 3 LVRFLMKLSHETVNIELKNGTQVSGTIMGVDVAMNTHLRAVSMTVKNKEPVKLDTLSIRG 62
Query: 183 NNIRYFILPETLPLDTMLIDDTPK 254
NNIRY ILP+ L LDT+LIDD P+
Sbjct: 63 NNIRYIILPDPLALDTLLIDDEPR 86
>sp|Q02260|SMD1_YEAST Small nuclear ribonucleoprotein Sm D1 (snRNP core protein D1)
(Sm-D1)
Length = 146
Score = 61.6 bits (148), Expect = 5e-10
Identities = 41/107 (38%), Positives = 54/107 (50%), Gaps = 27/107 (25%)
Frame = +3
Query: 3 LVRFLMRLSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLT---------------- 134
LV FL +L +E VTIE+KNGT V GT+ V MN L VKLT
Sbjct: 3 LVNFLKKLRNEQVTIELKNGTTVWGTLQSVSPQMNAILTDVKLTLPQPRLNKLNSNGIAM 62
Query: 135 -----SKNKEP------INLDTFTIRGNNIRYFILPETLPLDTMLID 242
+ ++P +L IRGN IR ILP++L LD++L+D
Sbjct: 63 ASLYLTGGQQPTASDNIASLQYINIRGNTIRQIILPDSLNLDSLLVD 109
>sp|Q9UUC6|SMD3_SCHPO Probable small nuclear ribonucleoprotein Sm D3 (snRNP core protein
D3) (Sm-D3)
Length = 97
Score = 48.5 bits (114), Expect = 5e-06
Identities = 24/71 (33%), Positives = 44/71 (61%), Gaps = 4/71 (5%)
Frame = +3
Query: 18 MRLSHET----VTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIRGN 185
++L HET VT+E++NG+ G + + MN +R + +T+++ +LD IRG+
Sbjct: 5 IKLLHETQGHIVTMELENGSTYRGKLIEAEDNMNCQMRDISVTARDGRVSHLDQVYIRGS 64
Query: 186 NIRYFILPETL 218
+IR+ I+P+ L
Sbjct: 65 HIRFLIVPDML 75
>sp|Q969L4|LSM10_HUMAN U7 snRNA-associated Sm-like protein LSm10
Length = 123
Score = 46.2 bits (108), Expect = 2e-05
Identities = 20/78 (25%), Positives = 39/78 (50%)
Frame = +3
Query: 3 LVRFLMRLSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIRG 182
L+ L L T+++++ ++ HG + VD MN L V T + + LD + G
Sbjct: 17 LIILLQGLQGRVTTVDLRDESVAHGRIDNVDAFMNIRLAKVTYTDRWGHQVKLDDLFVTG 76
Query: 183 NNIRYFILPETLPLDTML 236
N+RY +P+ + + + +
Sbjct: 77 RNVRYVHIPDDVNITSTI 94
>sp|P38203|LSM2_YEAST U6 snRNA-associated Sm-like protein LSm2 (Small nuclear
ribonucleoprotein D homolog SNP3)
Length = 95
Score = 43.5 bits (101), Expect = 2e-04
Identities = 25/83 (30%), Positives = 43/83 (51%), Gaps = 2/83 (2%)
Frame = +3
Query: 12 FLMRLSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPI--NLDTFTIRGN 185
F L + V +E+KN + GT+ VD +N L ++ T + K P ++ IRG+
Sbjct: 6 FFKTLVDQEVVVELKNDIEIKGTLQSVDQFLNLKLDNISCTDEKKYPHLGSVRNIFIRGS 65
Query: 186 NIRYFILPETLPLDTMLIDDTPK 254
+RY L + + +DT L+ D +
Sbjct: 66 TVRYVYLNKNM-VDTNLLQDATR 87
>sp|Q8QZX5|LSM10_MOUSE U7 snRNA-associated Sm-like protein LSm10
Length = 122
Score = 43.5 bits (101), Expect = 2e-04
Identities = 19/70 (27%), Positives = 36/70 (51%)
Frame = +3
Query: 3 LVRFLMRLSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIRG 182
L+ L L + T+++++ ++ G + VD MN L +V T + + LD + G
Sbjct: 17 LIILLQGLQGQITTVDLRDESVARGRIDNVDAFMNIRLANVTYTDRWGHQVELDDLFVTG 76
Query: 183 NNIRYFILPE 212
N+RY +P+
Sbjct: 77 RNVRYVHIPD 86
>sp|Q9Y333|LSM2_HUMAN U6 snRNA-associated Sm-like protein LSm2 (SnRNP core Sm-like
protein Sm-x5) (G7b protein) (Small nuclear ribonuclear
protein D homolog)
sp|O35900|LSM2_MOUSE U6 snRNA-associated Sm-like protein LSm2 (SnRNP core Sm-like
protein Sm-x5) (G7b protein)
Length = 95
Score = 43.5 bits (101), Expect = 2e-04
Identities = 26/83 (31%), Positives = 42/83 (50%), Gaps = 2/83 (2%)
Frame = +3
Query: 12 FLMRLSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEP--INLDTFTIRGN 185
F L + V +E+KN + GT+ VD +N L + +T K P +++ IRG+
Sbjct: 6 FFKSLVGKDVVVELKNDLSICGTLHSVDQYLNIKLTDISVTDPEKYPHMLSVKNCFIRGS 65
Query: 186 NIRYFILPETLPLDTMLIDDTPK 254
+RY LP +DT L+ D +
Sbjct: 66 VVRYVQLPAD-EVDTQLLQDAAR 87
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: 36,538,036
Number of Sequences: 369166
Number of extensions: 626963
Number of successful extensions: 1477
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 1463
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): 1473
length of database: 68,354,980
effective HSP length: 98
effective length of database: 50,250,950
effective search space used: 1708532300
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)