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_007_N03
(328 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|O95777|LSM8_HUMAN U6 snRNA-associated Sm-like protein LS... 95 4e-20
sp|O74483|LSM8_SCHPO U6 snRNA-associated Sm-like protein LSm8 80 1e-15
sp|P87173|YB18_SCHPO Hypothetical protein C3D6.08c in chrom... 49 4e-06
sp|P47017|LSM1_YEAST Sm-like protein LSm1 (SPB8 protein) 45 4e-05
sp|O15116|LSM1_HUMAN U6 snRNA-associated Sm-like protein LS... 45 7e-05
sp|Q8VC85|LSM1_MOUSE U6 snRNA-associated Sm-like protein LSm1 45 7e-05
sp|P47093|YJZ2_YEAST Hypothetical 14.5 kDa protein in MER2-... 42 3e-04
sp|O74966|RUXG_SCHPO Probable small nuclear ribonucleoprote... 37 0.018
sp|Q8SQH7|LSMH_ENCCU Probable U6 snRNA-associated Sm-like p... 35 0.040
sp|O82221|RUXG_ARATH Probable small nuclear ribonucleoprote... 35 0.053
>sp|O95777|LSM8_HUMAN U6 snRNA-associated Sm-like protein LSm8
sp|Q6ZWM4|LSM8_MOUSE U6 snRNA-associated Sm-like protein LSm8
Length = 96
Score = 95.1 bits (235), Expect = 4e-20
Identities = 45/96 (46%), Positives = 65/96 (67%), Gaps = 1/96 (1%)
Frame = +2
Query: 8 MASELESYVGRIVIVLTTEGSVVTGVLKGFDNLTELIVKDAEERI-CSLQGVEKVPLRLY 184
M S LE+Y+ R V V+T++G ++ G LKGFD LI+ ++ ER+ S QGVE+V L LY
Sbjct: 1 MTSALENYINRTVAVITSDGRMIVGTLKGFDQTINLILDESHERVFSSSQGVEQVVLGLY 60
Query: 185 FLRGDNVALVGEVDEDVDRRTNWSNVFVEPLGKIIH 292
+RGDNVA++GE+DE+ D + N+ EPL + H
Sbjct: 61 IVRGDNVAVIGEIDEETDSALDLGNIRAEPLNSVAH 96
>sp|O74483|LSM8_SCHPO U6 snRNA-associated Sm-like protein LSm8
Length = 94
Score = 80.5 bits (197), Expect = 1e-15
Identities = 40/92 (43%), Positives = 62/92 (67%), Gaps = 1/92 (1%)
Frame = +2
Query: 20 LESYVGRIVIVLTTEGSVVTGVLKGFDNLTELIVKDAEERICSL-QGVEKVPLRLYFLRG 196
L ++ + V V+T +G VV G LKGFD+ T LI+ D+ ERI S+ Q +E +PL +Y LRG
Sbjct: 3 LADFMEQRVQVITNDGRVVLGSLKGFDHTTNLILSDSFERIISMDQDMETIPLGVYLLRG 62
Query: 197 DNVALVGEVDEDVDRRTNWSNVFVEPLGKIIH 292
+NVA+VG V+E++D W+ + E + ++H
Sbjct: 63 ENVAMVGLVNEELDSEIEWTKIRGEAIPDVVH 94
>sp|P87173|YB18_SCHPO Hypothetical protein C3D6.08c in chromosome II
Length = 140
Score = 48.9 bits (115), Expect = 4e-06
Identities = 26/74 (35%), Positives = 41/74 (55%)
Frame = +2
Query: 11 ASELESYVGRIVIVLTTEGSVVTGVLKGFDNLTELIVKDAEERICSLQGVEKVPLRLYFL 190
+ L YV R VIV+ +G + G+L+ FD L+++ ERI + +Y +
Sbjct: 13 SGSLVDYVDRKVIVVLRDGKKLIGILRSFDQFANLMLQYTIERIYVDDMYGDIDRGVYIV 72
Query: 191 RGDNVALVGEVDED 232
RG+NV L+GE+D D
Sbjct: 73 RGENVVLLGELDLD 86
>sp|P47017|LSM1_YEAST Sm-like protein LSm1 (SPB8 protein)
Length = 172
Score = 45.4 bits (106), Expect = 4e-05
Identities = 26/71 (36%), Positives = 40/71 (56%), Gaps = 2/71 (2%)
Frame = +2
Query: 26 SYVGRIVIVLTTEGSVVTGVLKGFDNLTELIVKDAEERI--CSLQGVEKVPLRLYFLRGD 199
S V R + VL +G ++ GVL+ FD LI++D ERI + ++ +RG+
Sbjct: 48 SSVDRKIFVLLRDGRMLFGVLRTFDQYANLILQDCVERIYFSEENKYAEEDRGIFMIRGE 107
Query: 200 NVALVGEVDED 232
NV ++GEVD D
Sbjct: 108 NVVMLGEVDID 118
>sp|O15116|LSM1_HUMAN U6 snRNA-associated Sm-like protein LSm1 (Small nuclear ribonuclear
CaSm) (Cancer-associated Sm-like)
Length = 133
Score = 44.7 bits (104), Expect = 7e-05
Identities = 22/77 (28%), Positives = 40/77 (51%)
Frame = +2
Query: 47 IVLTTEGSVVTGVLKGFDNLTELIVKDAEERICSLQGVEKVPLRLYFLRGDNVALVGEVD 226
+VL +G + G L+ D L++ ERI + +P ++ +RG+NV L+GE+D
Sbjct: 19 LVLLRDGRTLIGFLRSIDQFANLVLHQTVERIHVGKKYGDIPRGIFVVRGENVVLLGEID 78
Query: 227 EDVDRRTNWSNVFVEPL 277
+ + T V +E +
Sbjct: 79 LEKESDTPLQQVSIEEI 95
>sp|Q8VC85|LSM1_MOUSE U6 snRNA-associated Sm-like protein LSm1
Length = 133
Score = 44.7 bits (104), Expect = 7e-05
Identities = 22/77 (28%), Positives = 40/77 (51%)
Frame = +2
Query: 47 IVLTTEGSVVTGVLKGFDNLTELIVKDAEERICSLQGVEKVPLRLYFLRGDNVALVGEVD 226
+VL +G + G L+ D L++ ERI + +P ++ +RG+NV L+GE+D
Sbjct: 19 LVLLRDGRTLIGFLRSIDQFANLVLHQTVERIHVGKKYGDIPRGIFVVRGENVVLLGEID 78
Query: 227 EDVDRRTNWSNVFVEPL 277
+ + T V +E +
Sbjct: 79 LEKESDTPLQQVSIEEI 95
>sp|P47093|YJZ2_YEAST Hypothetical 14.5 kDa protein in MER2-BNA1 intergenic region
Length = 128
Score = 42.4 bits (98), Expect = 3e-04
Identities = 25/77 (32%), Positives = 42/77 (54%)
Frame = +2
Query: 8 MASELESYVGRIVIVLTTEGSVVTGVLKGFDNLTELIVKDAEERICSLQGVEKVPLRLYF 187
M++ L+ Y+ + V+++ +G + L GFD T L + + RI S + + K L
Sbjct: 20 MSATLKDYLNKRVVIIKVDGECLIASLNGFDKNTNLFITNVFNRI-SKEFICKAQL---- 74
Query: 188 LRGDNVALVGEVDEDVD 238
LRG +ALVG +D + D
Sbjct: 75 LRGSEIALVGLIDAEND 91
>sp|O74966|RUXG_SCHPO Probable small nuclear ribonucleoprotein G (snRNP-G) (Sm protein G)
(Sm-G) (SmG)
Length = 77
Score = 36.6 bits (83), Expect = 0.018
Identities = 22/74 (29%), Positives = 42/74 (56%), Gaps = 1/74 (1%)
Frame = +2
Query: 11 ASELESYVGRIVIVLTTEGSVVTGVLKGFDNLTELIVKDA-EERICSLQGVEKVPLRLYF 187
A +L+ Y+ R V V V GVL+G+D ++++D+ EE++ EKV +
Sbjct: 6 APDLKKYLDRQVFVQLNGSRKVYGVLRGYDIFLNIVLEDSIEEKVDG----EKVKIGSVA 61
Query: 188 LRGDNVALVGEVDE 229
+RG++V ++ +D+
Sbjct: 62 IRGNSVIMIETLDK 75
>sp|Q8SQH7|LSMH_ENCCU Probable U6 snRNA-associated Sm-like protein
Length = 70
Score = 35.4 bits (80), Expect = 0.040
Identities = 23/66 (34%), Positives = 35/66 (53%)
Frame = +2
Query: 20 LESYVGRIVIVLTTEGSVVTGVLKGFDNLTELIVKDAEERICSLQGVEKVPLRLYFLRGD 199
L+ Y+ V V T G TG L+GFD L++ + S++G E ++ FLRG+
Sbjct: 8 LKMYLKERVEVKTKSGEAYTGTLEGFDEHINLMLTCS-----SVEGSED---KVLFLRGE 59
Query: 200 NVALVG 217
N+ VG
Sbjct: 60 NILFVG 65
>sp|O82221|RUXG_ARATH Probable small nuclear ribonucleoprotein G (snRNP-G) (Sm protein G)
(Sm-G) (SmG)
Length = 80
Score = 35.0 bits (79), Expect = 0.053
Identities = 21/75 (28%), Positives = 39/75 (52%)
Frame = +2
Query: 17 ELESYVGRIVIVLTTEGSVVTGVLKGFDNLTELIVKDAEERICSLQGVEKVPLRLYFLRG 196
+L+ Y+ + + + +VTG L+GFD L+V + E + G +K + + +RG
Sbjct: 9 DLKKYMDKKLQIKLNANRMVTGTLRGFDQFMNLVVDNTVE----VNGNDKTDIGMVVIRG 64
Query: 197 DNVALVGEVDEDVDR 241
+++ V E E V R
Sbjct: 65 NSIVTV-EALEPVGR 78
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: 32,098,920
Number of Sequences: 369166
Number of extensions: 498649
Number of successful extensions: 1565
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 1517
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): 1559
length of database: 68,354,980
effective HSP length: 77
effective length of database: 54,130,385
effective search space used: 1678041935
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)