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_C11
(484 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q02945|VP4_ROTEH Outer capsid protein VP4 (Hemagglutinin... 30 2.9
sp|Q8G0D8|RRF_BRUSU Ribosome recycling factor (Ribosome-rel... 30 3.8
sp|P94340|RRF_BRUME Ribosome recycling factor (Ribosome-rel... 30 3.8
sp|Q9HMV6|HELS_HALSA Putative ski2-type helicase 30 3.8
sp|P67079|UNG_TROW8 Uracil-DNA glycosylase (UDG) >gi|540423... 29 5.0
sp|Q74K05|RS4_LACJO 30S ribosomal protein S4 29 6.5
sp|P89876|POLG_LMVE Genome polyprotein [Contains: P1 protei... 29 6.5
sp|P03545|VMP_CAMVS Movement protein (Cell-to-cell transpor... 29 6.5
sp|P31999|POLG_LMV0 Genome polyprotein [Contains: P1 protei... 29 6.5
sp|Q88UX0|RS4_LACPL 30S ribosomal protein S4 29 6.5
>sp|Q02945|VP4_ROTEH Outer capsid protein VP4 (Hemagglutinin) (Outer layer protein VP4)
[Contains: Outer capsid protein VP8; Outer capsid
protein VP5]
Length = 776
Score = 30.0 bits (66), Expect = 2.9
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 3/50 (6%)
Frame = +2
Query: 65 EKKKLLGSVSAALHSISDRVSSVDLAD---STAETVAPKMDIDNELSNLS 205
+K KL S+S +S+SD SSV S + +V+ D+ N+L+++S
Sbjct: 553 KKSKLASSISTLTNSLSDASSSVSRNSSIRSVSSSVSAWTDVSNQLTDIS 602
>sp|Q8G0D8|RRF_BRUSU Ribosome recycling factor (Ribosome-releasing factor) (RRF)
Length = 186
Score = 29.6 bits (65), Expect = 3.8
Identities = 19/55 (34%), Positives = 31/55 (56%), Gaps = 4/55 (7%)
Frame = +2
Query: 68 KKKLLGSVSAALHSI----SDRVSSVDLADSTAETVAPKMDIDNELSNLSVPEKR 220
K+++ G+V+A H + + R S+ L T E M I N+++N+SVPE R
Sbjct: 11 KRRMEGAVNALKHDLGGLRTGRASASLLEPITIEAYGSTMPI-NQVANISVPESR 64
>sp|P94340|RRF_BRUME Ribosome recycling factor (Ribosome-releasing factor) (RRF) (CP24)
Length = 186
Score = 29.6 bits (65), Expect = 3.8
Identities = 19/55 (34%), Positives = 31/55 (56%), Gaps = 4/55 (7%)
Frame = +2
Query: 68 KKKLLGSVSAALHSI----SDRVSSVDLADSTAETVAPKMDIDNELSNLSVPEKR 220
K+++ G+V+A H + + R S+ L T E M I N+++N+SVPE R
Sbjct: 11 KRRMEGAVNALKHDLGGLRTGRASASLLEPITIEAYGSTMPI-NQVANISVPESR 64
>sp|Q9HMV6|HELS_HALSA Putative ski2-type helicase
Length = 783
Score = 29.6 bits (65), Expect = 3.8
Identities = 19/57 (33%), Positives = 33/57 (57%), Gaps = 2/57 (3%)
Frame = +2
Query: 2 SRQNGILVAYEIS--TGRALNYREKKKLLGSVSAALHSISDRVSSVDLADSTAETVA 166
SR+N A ++ TG AL+ E+++L ++A + +SD +S +LAD+ A A
Sbjct: 263 SRRNAEASARRLADVTGNALSSAERERL-ADIAAEIRGVSDTETSDELADAVASGAA 318
>sp|P67079|UNG_TROW8 Uracil-DNA glycosylase (UDG)
sp|P67078|UNG_TROWT Uracil-DNA glycosylase (UDG)
Length = 230
Score = 29.3 bits (64), Expect = 5.0
Identities = 13/34 (38%), Positives = 22/34 (64%)
Frame = -3
Query: 218 FFPEPINLIIRYRYPF*ERLFLLLNPPDPHSTRG 117
F P P N++ +RYPF + + +L+ DP+ T+G
Sbjct: 45 FLPAPRNILRAFRYPF-DSVRVLIVGQDPYPTQG 77
>sp|Q74K05|RS4_LACJO 30S ribosomal protein S4
Length = 203
Score = 28.9 bits (63), Expect = 6.5
Identities = 14/41 (34%), Positives = 22/41 (53%)
Frame = +2
Query: 26 AYEISTGRALNYREKKKLLGSVSAALHSISDRVSSVDLADS 148
+YE+ G+ ++ R+K K L V AL ++ R V DS
Sbjct: 131 SYEVKVGQEISLRDKSKNLQQVKDALDAVVSRPPFVSFDDS 171
>sp|P89876|POLG_LMVE Genome polyprotein [Contains: P1 proteinase (N-terminal protein);
Helper component proteinase (HC-pro); Protein P3; 6 kDa
protein 1 (6K1); Cytoplasmic inclusion protein (CI); 6
kDa protein 2 (6K2); Viral genome-linked protein (VPg);
Nuclear inclusion protein A (NI-a) (NIa) (NIa-pro) (49
kDa proteinase) (49 kDa-Pro); Nuclear inclusion protein B
(NI-b) (NIb) (RNA-directed RNA polymerase); Coat protein
(CP)]
Length = 3255
Score = 28.9 bits (63), Expect = 6.5
Identities = 16/51 (31%), Positives = 27/51 (52%)
Frame = +2
Query: 83 GSVSAALHSISDRVSSVDLADSTAETVAPKMDIDNELSNLSVPEKRKRKNK 235
GS++ L + + R S LA T E + + D+D EL ++ R +KN+
Sbjct: 1024 GSLNEILDAPAGRSLSYRLAKQTVEVMMARSDMDKELVDVGFSVLRDQKNE 1074
>sp|P03545|VMP_CAMVS Movement protein (Cell-to-cell transport protein)
Length = 327
Score = 28.9 bits (63), Expect = 6.5
Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Frame = +2
Query: 71 KKLLGSVSAALHSISDRVSSVDLADSTAETVAP---KMDIDNELSNLSVPEKRK 223
KK + L+ +S + SVD+ D+T + P K +I+ LS+L PE RK
Sbjct: 70 KKAFSRKNEILYCVSTKELSVDIHDATGKVYLPLITKEEINKRLSSLK-PEVRK 122
>sp|P31999|POLG_LMV0 Genome polyprotein [Contains: P1 proteinase (N-terminal protein);
Helper component proteinase (HC-pro); Protein P3; 6 kDa
protein 1 (6K1); Cytoplasmic inclusion protein (CI); 6
kDa protein 2 (6K2); Viral genome-linked protein (VPg);
Nuclear inclusion protein A (NI-a) (NIa) (NIa-pro) (49
kDa proteinase) (49 kDa-Pro); Nuclear inclusion protein B
(NI-b) (NIb) (RNA-directed RNA polymerase); Coat protein
(CP)]
Length = 3255
Score = 28.9 bits (63), Expect = 6.5
Identities = 16/51 (31%), Positives = 27/51 (52%)
Frame = +2
Query: 83 GSVSAALHSISDRVSSVDLADSTAETVAPKMDIDNELSNLSVPEKRKRKNK 235
GS++ L + + R S LA T E + + D+D EL ++ R +KN+
Sbjct: 1024 GSLNEILDAPAGRSLSYRLAKQTVEVMMARSDMDKELVDVGFSVLRDQKNE 1074
>sp|Q88UX0|RS4_LACPL 30S ribosomal protein S4
Length = 202
Score = 28.9 bits (63), Expect = 6.5
Identities = 12/36 (33%), Positives = 23/36 (63%)
Frame = +2
Query: 26 AYEISTGRALNYREKKKLLGSVSAALHSISDRVSSV 133
+YE+S G+ ++ REK K L ++ A+ ++ R + V
Sbjct: 131 SYEVSVGQVVSVREKSKKLAVITGAVEAVVARPNFV 166
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: 46,327,728
Number of Sequences: 369166
Number of extensions: 775104
Number of successful extensions: 2080
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 2048
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): 2080
length of database: 68,354,980
effective HSP length: 102
effective length of database: 49,512,010
effective search space used: 2871696580
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)