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_M18
(385 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... 134 6e-32
sp|P62315|SMD1_MOUSE Small nuclear ribonucleoprotein Sm D1 ... 132 2e-31
sp|O42661|SMD1_SCHPO Probable small nuclear ribonucleoprote... 123 1e-28
sp|Q10013|SMD1_CAEEL Probable small nuclear ribonucleoprote... 117 6e-27
sp|Q02260|SMD1_YEAST Small nuclear ribonucleoprotein Sm D1 ... 54 8e-08
sp|Q9UUC6|SMD3_SCHPO Probable small nuclear ribonucleoprote... 47 1e-05
sp|Q969L4|LSM10_HUMAN U7 snRNA-associated Sm-like protein L... 44 1e-04
sp|P38203|LSM2_YEAST U6 snRNA-associated Sm-like protein LS... 42 4e-04
sp|Q9Y333|LSM2_HUMAN U6 snRNA-associated Sm-like protein LS... 42 4e-04
sp|Q9LGE6|LSM4_ORYSA Probable U6 snRNA-associated Sm-like p... 42 4e-04
>sp|Q9VU02|SMD1_DROME Probable small nuclear ribonucleoprotein Sm D1 (snRNP core protein
D1) (Sm-D1)
Length = 124
Score = 134 bits (337), Expect = 6e-32
Identities = 59/85 (69%), Positives = 78/85 (91%)
Frame = +3
Query: 3 LSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIRGNNIRYFI 182
LSHETVTIE+KNGT +HGT+ GVD+AMNTHL+SV++T KN++P++L+T +IRGNNIRYFI
Sbjct: 10 LSHETVTIELKNGTQIHGTITGVDVAMNTHLKSVRMTIKNRDPVHLETLSIRGNNIRYFI 69
Query: 183 LPETLPLDTMLIDDTPKVSKKKKET 257
LP++LPL+T+LIDDTPK KKK++
Sbjct: 70 LPDSLPLETLLIDDTPKSKTKKKDS 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 = 132 bits (332), Expect = 2e-31
Identities = 59/87 (67%), Positives = 76/87 (87%)
Frame = +3
Query: 3 LSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIRGNNIRYFI 182
LSHETVTIE+KNGT VHGT+ GVD++MNTHL++VK+T KN+EP+ L+T +IRGNNIRYFI
Sbjct: 10 LSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLETLSIRGNNIRYFI 69
Query: 183 LPETLPLDTMLIDDTPKVSKKKKETTS 263
LP++LPLDT+L+D PKV KK+E +
Sbjct: 70 LPDSLPLDTLLVDVEPKVKSKKREAVA 96
>sp|O42661|SMD1_SCHPO Probable small nuclear ribonucleoprotein Sm D1 (snRNP core protein
D1) (Sm-D1)
Length = 117
Score = 123 bits (308), Expect = 1e-28
Identities = 55/84 (65%), Positives = 74/84 (88%)
Frame = +3
Query: 3 LSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIRGNNIRYFI 182
L++ETV+IE+KNGTIVHGT+ VDM MNTHL++VK+T K +EP+ ++T +IRGNNIRY+I
Sbjct: 10 LTNETVSIELKNGTIVHGTITSVDMQMNTHLKAVKMTVKGREPVPVETLSIRGNNIRYYI 69
Query: 183 LPETLPLDTMLIDDTPKVSKKKKE 254
LP++LPLDT+LIDD+ K +KKKE
Sbjct: 70 LPDSLPLDTLLIDDSTKPKQKKKE 93
>sp|Q10013|SMD1_CAEEL Probable small nuclear ribonucleoprotein Sm D1 (snRNP core protein
D1) (Sm-D1)
Length = 126
Score = 117 bits (294), Expect = 6e-27
Identities = 55/77 (71%), Positives = 65/77 (84%)
Frame = +3
Query: 3 LSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIRGNNIRYFI 182
LSHETV IE+KNGT V GT+ GVD+AMNTHLR+V +T KNKEP+ LDT +IRGNNIRY I
Sbjct: 10 LSHETVNIELKNGTQVSGTIMGVDVAMNTHLRAVSMTVKNKEPVKLDTLSIRGNNIRYII 69
Query: 183 LPETLPLDTMLIDDTPK 233
LP+ L LDT+LIDD P+
Sbjct: 70 LPDPLALDTLLIDDEPR 86
>sp|Q02260|SMD1_YEAST Small nuclear ribonucleoprotein Sm D1 (snRNP core protein D1)
(Sm-D1)
Length = 146
Score = 54.3 bits (129), Expect = 8e-08
Identities = 37/100 (37%), Positives = 49/100 (49%), Gaps = 27/100 (27%)
Frame = +3
Query: 3 LSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLT---------------------SK 119
L +E VTIE+KNGT V GT+ V MN L VKLT +
Sbjct: 10 LRNEQVTIELKNGTTVWGTLQSVSPQMNAILTDVKLTLPQPRLNKLNSNGIAMASLYLTG 69
Query: 120 NKEP------INLDTFTIRGNNIRYFILPETLPLDTMLID 221
++P +L IRGN IR ILP++L LD++L+D
Sbjct: 70 GQQPTASDNIASLQYINIRGNTIRQIILPDSLNLDSLLVD 109
>sp|Q9UUC6|SMD3_SCHPO Probable small nuclear ribonucleoprotein Sm D3 (snRNP core protein
D3) (Sm-D3)
Length = 97
Score = 47.4 bits (111), Expect = 1e-05
Identities = 24/69 (34%), Positives = 42/69 (60%), Gaps = 4/69 (5%)
Frame = +3
Query: 3 LSHET----VTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIRGNNI 170
L HET VT+E++NG+ G + + MN +R + +T+++ +LD IRG++I
Sbjct: 7 LLHETQGHIVTMELENGSTYRGKLIEAEDNMNCQMRDISVTARDGRVSHLDQVYIRGSHI 66
Query: 171 RYFILPETL 197
R+ I+P+ L
Sbjct: 67 RFLIVPDML 75
>sp|Q969L4|LSM10_HUMAN U7 snRNA-associated Sm-like protein LSm10
Length = 123
Score = 43.9 bits (102), Expect = 1e-04
Identities = 18/71 (25%), Positives = 36/71 (50%)
Frame = +3
Query: 3 LSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPINLDTFTIRGNNIRYFI 182
L T+++++ ++ HG + VD MN L V T + + LD + G N+RY
Sbjct: 24 LQGRVTTVDLRDESVAHGRIDNVDAFMNIRLAKVTYTDRWGHQVKLDDLFVTGRNVRYVH 83
Query: 183 LPETLPLDTML 215
+P+ + + + +
Sbjct: 84 IPDDVNITSTI 94
>sp|P38203|LSM2_YEAST U6 snRNA-associated Sm-like protein LSm2 (Small nuclear
ribonucleoprotein D homolog SNP3)
Length = 95
Score = 42.0 bits (97), Expect = 4e-04
Identities = 24/79 (30%), Positives = 42/79 (53%), Gaps = 2/79 (2%)
Frame = +3
Query: 3 LSHETVTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPI--NLDTFTIRGNNIRY 176
L + V +E+KN + GT+ VD +N L ++ T + K P ++ IRG+ +RY
Sbjct: 10 LVDQEVVVELKNDIEIKGTLQSVDQFLNLKLDNISCTDEKKYPHLGSVRNIFIRGSTVRY 69
Query: 177 FILPETLPLDTMLIDDTPK 233
L + + +DT L+ D +
Sbjct: 70 VYLNKNM-VDTNLLQDATR 87
>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 = 42.0 bits (97), Expect = 4e-04
Identities = 24/74 (32%), Positives = 39/74 (52%), Gaps = 2/74 (2%)
Frame = +3
Query: 18 VTIEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEP--INLDTFTIRGNNIRYFILPE 191
V +E+KN + GT+ VD +N L + +T K P +++ IRG+ +RY LP
Sbjct: 15 VVVELKNDLSICGTLHSVDQYLNIKLTDISVTDPEKYPHMLSVKNCFIRGSVVRYVQLPA 74
Query: 192 TLPLDTMLIDDTPK 233
+DT L+ D +
Sbjct: 75 D-EVDTQLLQDAAR 87
>sp|Q9LGE6|LSM4_ORYSA Probable U6 snRNA-associated Sm-like protein LSm4
Length = 147
Score = 42.0 bits (97), Expect = 4e-04
Identities = 22/57 (38%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Frame = +3
Query: 24 IEMKNGTIVHGTVAGVDMAMNTHLRSVKLTSKNKEPI-NLDTFTIRGNNIRYFILPE 191
+E+KNG +G + D MN HLR V TSK+ + + IRGN I+Y +P+
Sbjct: 17 VELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDKFWRMPECYIRGNTIKYLRVPD 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: 35,863,408
Number of Sequences: 369166
Number of extensions: 596991
Number of successful extensions: 1365
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 1351
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): 1361
length of database: 68,354,980
effective HSP length: 94
effective length of database: 50,989,890
effective search space used: 1682666370
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)