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_004_C24
(446 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P62318|SMD3_HUMAN Small nuclear ribonucleoprotein Sm D3 ... 33 0.29
sp|O44437|SMD3_DROME Small nuclear ribonucleoprotein SM D3 ... 33 0.37
sp|Q9UUC6|SMD3_SCHPO Probable small nuclear ribonucleoprote... 29 5.4
sp|P43321|SMD3_YEAST Small nuclear ribonucleoprotein Sm D3 ... 28 9.2
sp|Q57007|Y1107_HAEIN Hypothetical Na(+)/H(+) antiporter HI... 28 9.2
sp|P07706|NU5M_DROYA NADH-ubiquinone oxidoreductase chain 5... 28 9.2
>sp|P62318|SMD3_HUMAN Small nuclear ribonucleoprotein Sm D3 (snRNP core protein D3)
(Sm-D3)
sp|P62320|SMD3_MOUSE Small nuclear ribonucleoprotein Sm D3 (snRNP core protein D3)
(Sm-D3)
sp|P62323|SMD3_XENLA Small nuclear ribonucleoprotein Sm D3 (snRNP core protein D3)
(Sm-D3)
Length = 126
Score = 33.1 bits (74), Expect = 0.29
Identities = 15/53 (28%), Positives = 30/53 (56%)
Frame = +2
Query: 134 EVIKGTLIEVDKQIGIQLNDVNYKRTTNPKQKMKTVYIPWERIRFVKLPEKIE 292
EV +G LIE + + Q++++ +++ VYI +IRF+ LP+ ++
Sbjct: 26 EVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQVYIRGSKIRFLILPDMLK 78
>sp|O44437|SMD3_DROME Small nuclear ribonucleoprotein SM D3 (snRNP core protein D3)
(SM-D3)
Length = 151
Score = 32.7 bits (73), Expect = 0.37
Identities = 15/53 (28%), Positives = 27/53 (50%)
Frame = +2
Query: 134 EVIKGTLIEVDKQIGIQLNDVNYKRTTNPKQKMKTVYIPWERIRFVKLPEKIE 292
EV +G LIE + + Q+ + ++ VYI +IRF+ LP+ ++
Sbjct: 26 EVYRGKLIEAEDNMNCQMTQITVTYRDGRTANLENVYIRGSKIRFLILPDMLK 78
>sp|Q9UUC6|SMD3_SCHPO Probable small nuclear ribonucleoprotein Sm D3 (snRNP core protein
D3) (Sm-D3)
Length = 97
Score = 28.9 bits (63), Expect = 5.4
Identities = 13/49 (26%), Positives = 24/49 (48%)
Frame = +2
Query: 143 KGTLIEVDKQIGIQLNDVNYKRTTNPKQKMKTVYIPWERIRFVKLPEKI 289
+G LIE + + Q+ D++ + VYI IRF+ +P+ +
Sbjct: 27 RGKLIEAEDNMNCQMRDISVTARDGRVSHLDQVYIRGSHIRFLIVPDML 75
>sp|P43321|SMD3_YEAST Small nuclear ribonucleoprotein Sm D3 (snRNP core protein D3)
(Sm-D3)
Length = 101
Score = 28.1 bits (61), Expect = 9.2
Identities = 11/50 (22%), Positives = 26/50 (52%)
Frame = +2
Query: 143 KGTLIEVDKQIGIQLNDVNYKRTTNPKQKMKTVYIPWERIRFVKLPEKIE 292
+G L+E + + +QL DV M +++ +I+F+ +P+ ++
Sbjct: 30 RGKLVESEDSMNVQLRDVIATEPQGAVTHMDQIFVRGSQIKFIVVPDLLK 79
>sp|Q57007|Y1107_HAEIN Hypothetical Na(+)/H(+) antiporter HI1107
Length = 468
Score = 28.1 bits (61), Expect = 9.2
Identities = 12/23 (52%), Positives = 14/23 (60%)
Frame = -2
Query: 382 LSRLPWTFLCWCGRIRLLPFFAS 314
LS LPW LCW G I + + AS
Sbjct: 437 LSYLPWAILCWSGIIFAIIYGAS 459
>sp|P07706|NU5M_DROYA NADH-ubiquinone oxidoreductase chain 5 (NADH dehydrogenase subunit
5)
Length = 573
Score = 28.1 bits (61), Expect = 9.2
Identities = 8/25 (32%), Positives = 17/25 (68%)
Frame = +3
Query: 33 CVLDFLNLVKLKMSCLIYSILY*MN 107
C + F+NL+ + ++C + S+ Y +N
Sbjct: 2 CSISFINLISISLTCFLLSLYYLLN 26
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: 43,924,931
Number of Sequences: 369166
Number of extensions: 746887
Number of successful extensions: 1947
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 1940
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): 1947
length of database: 68,354,980
effective HSP length: 100
effective length of database: 49,881,480
effective search space used: 2394311040
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)