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_I06
(582 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q9PV94|RSMB_CHICK Small nuclear ribonucleoprotein associ... 100 2e-21
sp|P14678|RSMB_HUMAN Small nuclear ribonucleoprotein associ... 100 3e-21
sp|P27048|RSMB_MOUSE Small nuclear ribonucleoprotein associ... 100 3e-21
sp|P63162|RSMN_HUMAN Small nuclear ribonucleoprotein associ... 100 3e-21
sp|Q9TU67|RSMB_ERIEU Small nuclear ribonucleoprotein associ... 100 3e-21
sp|Q9TU66|RSMB_MONDO Small nuclear ribonucleoprotein associ... 97 3e-20
sp|Q05856|RSMB_DROME Small nuclear ribonucleoprotein associ... 93 4e-19
sp|P91918|RSMB_CAEEL Probable small nuclear ribonucleoprote... 87 2e-17
sp|P17136|RSMB_RAT Small nuclear ribonucleoprotein associat... 77 2e-14
sp|Q10163|YAU8_SCHPO Hypothetical protein C26A3.08 in chrom... 60 3e-09
>sp|Q9PV94|RSMB_CHICK Small nuclear ribonucleoprotein associated protein B' (snRNP-B')
(Sm protein B') (Sm-B') (SmB') (snRPB')
Length = 240
Score = 100 bits (250), Expect = 2e-21
Identities = 49/89 (55%), Positives = 60/89 (67%), Gaps = 1/89 (1%)
Frame = +1
Query: 1 MPMPKSAKITQHLEYRMRATLQDGRQLVGTFKAFDKHMNVILCDCDEF-XXXXXXXXXXX 177
M + KS+K+ QH++YRMR LQDGR +GTFKAFDKHMN+ILCDCDEF
Sbjct: 1 MTVGKSSKMLQHIDYRMRCILQDGRVFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQPE 60
Query: 178 XXXXXXLGFVLIRGEQLVSLNVDGPPPTE 264
LG VL+RGE LVS+ V+GPPP +
Sbjct: 61 REEKRVLGLVLLRGENLVSMTVEGPPPKD 89
>sp|P14678|RSMB_HUMAN Small nuclear ribonucleoprotein associated proteins B and B'
(snRNP-B) (Sm protein B/B') (Sm-B/Sm-B') (SmB/SmB')
Length = 240
Score = 100 bits (249), Expect = 3e-21
Identities = 49/89 (55%), Positives = 60/89 (67%), Gaps = 1/89 (1%)
Frame = +1
Query: 1 MPMPKSAKITQHLEYRMRATLQDGRQLVGTFKAFDKHMNVILCDCDEF-XXXXXXXXXXX 177
M + KS+K+ QH++YRMR LQDGR +GTFKAFDKHMN+ILCDCDEF
Sbjct: 1 MTVGKSSKMLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAE 60
Query: 178 XXXXXXLGFVLIRGEQLVSLNVDGPPPTE 264
LG VL+RGE LVS+ V+GPPP +
Sbjct: 61 REEKRVLGLVLLRGENLVSMTVEGPPPKD 89
>sp|P27048|RSMB_MOUSE Small nuclear ribonucleoprotein associated protein B (snRNP-B) (Sm
protein B) (Sm-B) (SmB)
Length = 231
Score = 100 bits (249), Expect = 3e-21
Identities = 49/89 (55%), Positives = 60/89 (67%), Gaps = 1/89 (1%)
Frame = +1
Query: 1 MPMPKSAKITQHLEYRMRATLQDGRQLVGTFKAFDKHMNVILCDCDEF-XXXXXXXXXXX 177
M + KS+K+ QH++YRMR LQDGR +GTFKAFDKHMN+ILCDCDEF
Sbjct: 1 MTVGKSSKMLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAE 60
Query: 178 XXXXXXLGFVLIRGEQLVSLNVDGPPPTE 264
LG VL+RGE LVS+ V+GPPP +
Sbjct: 61 REEKRVLGLVLLRGENLVSMTVEGPPPKD 89
>sp|P63162|RSMN_HUMAN Small nuclear ribonucleoprotein associated protein N (snRNP-N) (Sm
protein N) (Sm-N) (SmN) (Sm-D) (Tissue-specific splicing
protein)
sp|P63164|RSMN_RAT Small nuclear ribonucleoprotein associated protein N (snRNP-N) (Sm
protein N) (Sm-N) (SmN) (Sm-D)
sp|P63163|RSMN_MOUSE Small nuclear ribonucleoprotein associated protein N (snRNP-N) (Sm
protein N) (Sm-N) (SmN) (Sm-D) (Tissue-specific splicing
protein)
Length = 240
Score = 100 bits (249), Expect = 3e-21
Identities = 49/89 (55%), Positives = 60/89 (67%), Gaps = 1/89 (1%)
Frame = +1
Query: 1 MPMPKSAKITQHLEYRMRATLQDGRQLVGTFKAFDKHMNVILCDCDEF-XXXXXXXXXXX 177
M + KS+K+ QH++YRMR LQDGR +GTFKAFDKHMN+ILCDCDEF
Sbjct: 1 MTVGKSSKMLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNAKQPE 60
Query: 178 XXXXXXLGFVLIRGEQLVSLNVDGPPPTE 264
LG VL+RGE LVS+ V+GPPP +
Sbjct: 61 REEKRVLGLVLLRGENLVSMTVEGPPPKD 89
>sp|Q9TU67|RSMB_ERIEU Small nuclear ribonucleoprotein associated protein B' (snRNP-B')
(Sm protein B') (Sm-B') (SmB') (snRPB')
Length = 240
Score = 100 bits (249), Expect = 3e-21
Identities = 49/89 (55%), Positives = 60/89 (67%), Gaps = 1/89 (1%)
Frame = +1
Query: 1 MPMPKSAKITQHLEYRMRATLQDGRQLVGTFKAFDKHMNVILCDCDEF-XXXXXXXXXXX 177
M + KS+K+ QH++YRMR LQDGR +GTFKAFDKHMN+ILCDCDEF
Sbjct: 1 MTVGKSSKMLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAE 60
Query: 178 XXXXXXLGFVLIRGEQLVSLNVDGPPPTE 264
LG VL+RGE LVS+ V+GPPP +
Sbjct: 61 REEKRVLGLVLLRGENLVSMTVEGPPPKD 89
>sp|Q9TU66|RSMB_MONDO Small nuclear ribonucleoprotein associated protein B' (snRNP-B')
(Sm protein B') (Sm-B') (SmB') (snRPB')
Length = 240
Score = 97.1 bits (240), Expect = 3e-20
Identities = 48/89 (53%), Positives = 59/89 (66%), Gaps = 1/89 (1%)
Frame = +1
Query: 1 MPMPKSAKITQHLEYRMRATLQDGRQLVGTFKAFDKHMNVILCDCDEF-XXXXXXXXXXX 177
M + KS+K+ QH++ RMR LQDGR +GTFKAFDKHMN+ILCDCDEF
Sbjct: 1 MTVGKSSKMLQHIDCRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAE 60
Query: 178 XXXXXXLGFVLIRGEQLVSLNVDGPPPTE 264
LG VL+RGE LVS+ V+GPPP +
Sbjct: 61 REEKRVLGLVLLRGENLVSMTVEGPPPKD 89
>sp|Q05856|RSMB_DROME Small nuclear ribonucleoprotein associated protein B (snRNP-B) (Sm
protein B) (Sm-B) (SmB)
Length = 199
Score = 93.2 bits (230), Expect = 4e-19
Identities = 47/90 (52%), Positives = 58/90 (64%), Gaps = 1/90 (1%)
Frame = +1
Query: 1 MPMPKSAKITQHLEYRMRATLQDGRQLVGTFKAFDKHMNVILCDCDEF-XXXXXXXXXXX 177
M + K+ K+ QHL YR+R LQD R +GTFKAFDKHMN+IL DC+EF
Sbjct: 1 MTIGKNNKMIQHLNYRVRIVLQDSRTFIGTFKAFDKHMNLILGDCEEFRKIRSKNSKVPE 60
Query: 178 XXXXXXLGFVLIRGEQLVSLNVDGPPPTED 267
LGFVL+RGE +VSL V+GPPP E+
Sbjct: 61 REEKRVLGFVLLRGENIVSLTVEGPPPPEE 90
>sp|P91918|RSMB_CAEEL Probable small nuclear ribonucleoprotein associated protein B
(snRNP-B) (Sm protein B) (Sm-B) (SmB)
Length = 160
Score = 87.4 bits (215), Expect = 2e-17
Identities = 42/92 (45%), Positives = 56/92 (60%), Gaps = 1/92 (1%)
Frame = +1
Query: 1 MPMPKSAKITQHLEYRMRATLQDGRQLVGTFKAFDKHMNVILCDCDEF-XXXXXXXXXXX 177
M + K+ K+ HL YRM+ LQDGR +G FKAFDKHMN++L +C+E
Sbjct: 1 MTISKNNKMMAHLNYRMKIILQDGRTFIGFFKAFDKHMNILLAECEEHRQIKPKAGKKTD 60
Query: 178 XXXXXXLGFVLIRGEQLVSLNVDGPPPTEDSA 273
LG VL+RGE +VS+ VDGPPP +D +
Sbjct: 61 GEEKRILGLVLVRGEHIVSMTVDGPPPRDDDS 92
>sp|P17136|RSMB_RAT Small nuclear ribonucleoprotein associated protein B (snRNP-B) (Sm
protein B) (Sm-B) (SmB) (SM11)
Length = 214
Score = 77.4 bits (189), Expect = 2e-14
Identities = 38/70 (54%), Positives = 46/70 (65%), Gaps = 1/70 (1%)
Frame = +1
Query: 58 TLQDGRQLVGTFKAFDKHMNVILCDCDEF-XXXXXXXXXXXXXXXXXLGFVLIRGEQLVS 234
+LQ+GR +GTFKAFDKHMN+ILCDCDEF LG VL+RGE LVS
Sbjct: 3 SLQNGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLVS 62
Query: 235 LNVDGPPPTE 264
+ V+GPPP +
Sbjct: 63 MTVEGPPPKD 72
>sp|Q10163|YAU8_SCHPO Hypothetical protein C26A3.08 in chromosome I
Length = 147
Score = 60.5 bits (145), Expect = 3e-09
Identities = 32/89 (35%), Positives = 46/89 (51%), Gaps = 2/89 (2%)
Frame = +1
Query: 16 SAKITQHLEYRMRATLQDGRQLVGTFKAFDKHMNVILCDCDEF--XXXXXXXXXXXXXXX 189
+ K+ L + + T +DGR VG AFD MN++L DC E+
Sbjct: 3 TTKMVSLLNHSLNVTTKDGRTFVGQLLAFDGFMNLVLSDCQEYRHIKKQNVPSNSVYEEK 62
Query: 190 XXLGFVLIRGEQLVSLNVDGPPPTEDSAK 276
LG V++RGE +VSL+V GPPP + S +
Sbjct: 63 RMLGLVILRGEFIVSLSVQGPPPMDPSMR 91
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: 54,877,691
Number of Sequences: 369166
Number of extensions: 846886
Number of successful extensions: 2339
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 2277
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): 2328
length of database: 68,354,980
effective HSP length: 105
effective length of database: 48,957,805
effective search space used: 4308286840
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)