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_B14
(498 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... 147 1e-35
sp|P62315|SMD1_MOUSE Small nuclear ribonucleoprotein Sm D1 ... 145 4e-35
sp|O42661|SMD1_SCHPO Probable small nuclear ribonucleoprote... 136 2e-32
sp|Q10013|SMD1_CAEEL Probable small nuclear ribonucleoprote... 131 1e-30
sp|Q02260|SMD1_YEAST Small nuclear ribonucleoprotein Sm D1 ... 64 3e-10
sp|Q9UUC6|SMD3_SCHPO Probable small nuclear ribonucleoprote... 49 9e-06
sp|Q969L4|LSM10_HUMAN U7 snRNA-associated Sm-like protein L... 46 4e-05
sp|P38203|LSM2_YEAST U6 snRNA-associated Sm-like protein LS... 44 3e-04
sp|Q8QZX5|LSM10_MOUSE U7 snRNA-associated Sm-like protein L... 44 3e-04
sp|Q9Y333|LSM2_HUMAN U6 snRNA-associated Sm-like protein LS... 44 3e-04
>sp|Q9VU02|SMD1_DROME Probable small nuclear ribonucleoprotein Sm D1 (snRNP core protein
D1) (Sm-D1)
Length = 124
Score = 147 bits (372), Expect = 1e-35
Identities = 66/93 (70%), Positives = 86/93 (92%)
Frame = +1
Query: 1 KLVRFLMRLSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIR 180
KLVRFLM+LSHETVTIE+KNGT +HGT+ GVD+AMNTHL+SV++T KN++P++L+T +IR
Sbjct: 2 KLVRFLMKLSHETVTIELKNGTQIHGTITGVDVAMNTHLKSVRMTIKNRDPVHLETLSIR 61
Query: 181 GNNIRYFILPETLPLDTMLIDDTPKVSKKKKET 279
GNNIRYFILP++LPL+T+LIDDTPK KKK++
Sbjct: 62 GNNIRYFILPDSLPLETLLIDDTPKSKTKKKDS 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 = 145 bits (367), Expect = 4e-35
Identities = 66/95 (69%), Positives = 84/95 (88%)
Frame = +1
Query: 1 KLVRFLMRLSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIR 180
KLVRFLM+LSHETVTIE+KNGT VHGT+ GVD++MNTHL++VK+T KN+EP+ L+T +IR
Sbjct: 2 KLVRFLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLETLSIR 61
Query: 181 GNNIRYFILPETLPLDTMLIDDTPKVSKKKKETTS 285
GNNIRYFILP++LPLDT+L+D PKV KK+E +
Sbjct: 62 GNNIRYFILPDSLPLDTLLVDVEPKVKSKKREAVA 96
>sp|O42661|SMD1_SCHPO Probable small nuclear ribonucleoprotein Sm D1 (snRNP core protein
D1) (Sm-D1)
Length = 117
Score = 136 bits (343), Expect = 2e-32
Identities = 62/92 (67%), Positives = 82/92 (89%)
Frame = +1
Query: 1 KLVRFLMRLSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIR 180
KLVRFLM+L++ETV+IE+KNGTIVHGT+ VDM MNTHL++VK+T K +EP+ ++T +IR
Sbjct: 2 KLVRFLMKLTNETVSIELKNGTIVHGTITSVDMQMNTHLKAVKMTVKGREPVPVETLSIR 61
Query: 181 GNNIRYFILPETLPLDTMLIDDTPKVSKKKKE 276
GNNIRY+ILP++LPLDT+LIDD+ K +KKKE
Sbjct: 62 GNNIRYYILPDSLPLDTLLIDDSTKPKQKKKE 93
>sp|Q10013|SMD1_CAEEL Probable small nuclear ribonucleoprotein Sm D1 (snRNP core protein
D1) (Sm-D1)
Length = 126
Score = 131 bits (329), Expect = 1e-30
Identities = 62/85 (72%), Positives = 73/85 (85%)
Frame = +1
Query: 1 KLVRFLMRLSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIR 180
KLVRFLM+LSHETV IE+KNGT V GT+ GVD+AMNTHLR+V +T KNKEP+ LDT +IR
Sbjct: 2 KLVRFLMKLSHETVNIELKNGTQVSGTIMGVDVAMNTHLRAVSMTVKNKEPVKLDTLSIR 61
Query: 181 GNNIRYFILPETLPLDTMLIDDTPK 255
GNNIRY ILP+ L LDT+LIDD P+
Sbjct: 62 GNNIRYIILPDPLALDTLLIDDEPR 86
>sp|Q02260|SMD1_YEAST Small nuclear ribonucleoprotein Sm D1 (snRNP core protein D1)
(Sm-D1)
Length = 146
Score = 63.5 bits (153), Expect = 3e-10
Identities = 42/108 (38%), Positives = 55/108 (50%), Gaps = 27/108 (25%)
Frame = +1
Query: 1 KLVRFLMRLSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLT--------------- 135
KLV FL +L +E VTIE+KNGT V GT+ V MN L VKLT
Sbjct: 2 KLVNFLKKLRNEQVTIELKNGTTVWGTLQSVSPQMNAILTDVKLTLPQPRLNKLNSNGIA 61
Query: 136 ------SKNKEP------INLDTFTIRGNNIRYFILPETLPLDTMLID 243
+ ++P +L IRGN IR ILP++L LD++L+D
Sbjct: 62 MASLYLTGGQQPTASDNIASLQYINIRGNTIRQIILPDSLNLDSLLVD 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 = 9e-06
Identities = 24/71 (33%), Positives = 44/71 (61%), Gaps = 4/71 (5%)
Frame = +1
Query: 19 MRLSHET----VTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIRGN 186
++L HET VT+E++NG+ G + + MN +R + +T+++ +LD IRG+
Sbjct: 5 IKLLHETQGHIVTMELENGSTYRGKLIEAEDNMNCQMRDISVTARDGRVSHLDQVYIRGS 64
Query: 187 NIRYFILPETL 219
+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 = 4e-05
Identities = 20/78 (25%), Positives = 39/78 (50%)
Frame = +1
Query: 4 LVRFLMRLSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIRG 183
L+ L L T+++++ ++ HG + VD MN L V T + + LD + G
Sbjct: 17 LIILLQGLQGRVTTVDLRDESVAHGRIDNVDAFMNIRLAKVTYTDRWGHQVKLDDLFVTG 76
Query: 184 NNIRYFILPETLPLDTML 237
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 = 3e-04
Identities = 25/83 (30%), Positives = 43/83 (51%), Gaps = 2/83 (2%)
Frame = +1
Query: 13 FLMRLSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPI--NLDTFTIRGN 186
F L + V +E+KN + GT+ VD +N L ++ T + K P ++ IRG+
Sbjct: 6 FFKTLVDQEVVVELKNDIEIKGTLQSVDQFLNLKLDNISCTDEKKYPHLGSVRNIFIRGS 65
Query: 187 NIRYFILPETLPLDTMLIDDTPK 255
+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 = 3e-04
Identities = 19/70 (27%), Positives = 36/70 (51%)
Frame = +1
Query: 4 LVRFLMRLSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIRG 183
L+ L L + T+++++ ++ G + VD MN L +V T + + LD + G
Sbjct: 17 LIILLQGLQGQITTVDLRDESVARGRIDNVDAFMNIRLANVTYTDRWGHQVELDDLFVTG 76
Query: 184 NNIRYFILPE 213
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 = 3e-04
Identities = 26/83 (31%), Positives = 42/83 (50%), Gaps = 2/83 (2%)
Frame = +1
Query: 13 FLMRLSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEP--INLDTFTIRGN 186
F L + V +E+KN + GT+ VD +N L + +T K P +++ IRG+
Sbjct: 6 FFKSLVGKDVVVELKNDLSICGTLHSVDQYLNIKLTDISVTDPEKYPHMLSVKNCFIRGS 65
Query: 187 NIRYFILPETLPLDTMLIDDTPK 255
+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: 46,540,245
Number of Sequences: 369166
Number of extensions: 777821
Number of successful extensions: 1704
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 1677
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): 1700
length of database: 68,354,980
effective HSP length: 102
effective length of database: 49,512,010
effective search space used: 3119256630
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)