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_015_M11
(480 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P29341|PABP1_MOUSE Polyadenylate-binding protein 1 (Poly... 57 2e-08
sp|Q9EPH8|PABP1_RAT Polyadenylate-binding protein 1 (Poly(A... 57 2e-08
sp|Q13310|PABP4_HUMAN Polyadenylate-binding protein 4 (Poly... 57 3e-08
sp|Q9H361|PABP3_HUMAN Polyadenylate-binding protein 3 (Poly... 56 4e-08
sp|P11940|PABP1_HUMAN Polyadenylate-binding protein 1 (Poly... 56 4e-08
sp|Q15717|ELAV1_HUMAN ELAV-like protein 1 (Hu-antigen R) (HuR) 55 1e-07
sp|P70372|ELAV1_MOUSE ELAV-like protein 1 (Hu-antigen R) (H... 54 2e-07
sp|P20965|PABP1_XENLA Polyadenylate-binding protein 1 (Poly... 53 3e-07
sp|P31209|PABP_SCHPO Polyadenylate-binding protein (Poly(A)... 52 5e-07
sp|O09032|ELAV4_RAT ELAV-like protein 4 (Paraneoplastic enc... 52 7e-07
>sp|P29341|PABP1_MOUSE Polyadenylate-binding protein 1 (Poly(A)-binding protein 1) (PABP
1)
Length = 636
Score = 57.4 bits (137), Expect = 2e-08
Identities = 33/72 (45%), Positives = 44/72 (61%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
+ N G E+LKELF KFG + V V D ++G +K FGFV+F ++ AQ A+ EM
Sbjct: 195 IKNFGEDMDDERLKELFG-KFGPAL-SVKVMTD-ESGKSKGFGFVSFERHEDAQKAVDEM 251
Query: 183 NGKEFQGKPLQV 218
NGKE GK + V
Sbjct: 252 NGKELNGKQIYV 263
Score = 40.4 bits (93), Expect = 0.002
Identities = 25/73 (34%), Positives = 40/73 (54%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
V N+ + E+L++ F+P KV + + G +K FGFV F + ++A A+ EM
Sbjct: 298 VKNLDDGIDDERLRKEFSPFGTITSAKVMM----EGGRSKGFGFVCFSSPEEATKAVTEM 353
Query: 183 NGKEFQGKPLQVS 221
NG+ KPL V+
Sbjct: 354 NGRIVATKPLYVA 366
Score = 30.8 bits (68), Expect = 1.7
Identities = 23/62 (37%), Positives = 35/62 (56%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
+ N+ S + L + F+ FG I+ V D +NGS K +GFV F + A+ AI++M
Sbjct: 103 IKNLDKSIDNKALYDTFSA-FGN-ILSCKVVCD-ENGS-KGYGFVHFETQEAAERAIEKM 158
Query: 183 NG 188
NG
Sbjct: 159 NG 160
>sp|Q9EPH8|PABP1_RAT Polyadenylate-binding protein 1 (Poly(A)-binding protein 1) (PABP
1)
Length = 636
Score = 57.4 bits (137), Expect = 2e-08
Identities = 33/72 (45%), Positives = 44/72 (61%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
+ N G E+LKELF KFG + V V D ++G +K FGFV+F ++ AQ A+ EM
Sbjct: 195 IKNFGEDMDDERLKELFG-KFGPAL-SVKVMTD-ESGKSKGFGFVSFERHEDAQKAVDEM 251
Query: 183 NGKEFQGKPLQV 218
NGKE GK + V
Sbjct: 252 NGKELNGKQIYV 263
Score = 40.4 bits (93), Expect = 0.002
Identities = 25/73 (34%), Positives = 40/73 (54%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
V N+ + E+L++ F+P KV + + G +K FGFV F + ++A A+ EM
Sbjct: 298 VKNLDDGIDDERLRKEFSPFGTITSAKVMM----EGGRSKGFGFVCFSSPEEATKAVTEM 353
Query: 183 NGKEFQGKPLQVS 221
NG+ KPL V+
Sbjct: 354 NGRIVATKPLYVA 366
Score = 30.8 bits (68), Expect = 1.7
Identities = 23/62 (37%), Positives = 35/62 (56%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
+ N+ S + L + F+ FG I+ V D +NGS K +GFV F + A+ AI++M
Sbjct: 103 IKNLDKSIDNKALYDTFSA-FGN-ILSCKVVCD-ENGS-KGYGFVHFETQEAAERAIEKM 158
Query: 183 NG 188
NG
Sbjct: 159 NG 160
>sp|Q13310|PABP4_HUMAN Polyadenylate-binding protein 4 (Poly(A)-binding protein 4) (PABP
4) (Inducible poly(A)-binding protein) (iPABP)
(Activated-platelet protein 1) (APP-1)
Length = 644
Score = 56.6 bits (135), Expect = 3e-08
Identities = 31/68 (45%), Positives = 43/68 (63%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
+ N G E LKELF+ +FGK + V V +D NG +K FGFV++ ++ A A++EM
Sbjct: 195 IKNFGEEVDDESLKELFS-QFGKTL-SVKVMRDP-NGKSKGFGFVSYEKHEDANKAVEEM 251
Query: 183 NGKEFQGK 206
NGKE GK
Sbjct: 252 NGKEISGK 259
Score = 42.0 bits (97), Expect = 7e-04
Identities = 24/73 (32%), Positives = 42/73 (57%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
+ N+ ++ E+L++ F+P KV + ++G +K FGFV F + ++A A+ EM
Sbjct: 298 IKNLDDTIDDEKLRKEFSPFGSITSAKVML----EDGRSKGFGFVCFSSPEEATKAVTEM 353
Query: 183 NGKEFQGKPLQVS 221
NG+ KPL V+
Sbjct: 354 NGRIVGSKPLYVA 366
>sp|Q9H361|PABP3_HUMAN Polyadenylate-binding protein 3 (Poly(A)-binding protein 3) (PABP
3) (Testis-specific poly(A)-binding protein)
Length = 631
Score = 56.2 bits (134), Expect = 4e-08
Identities = 32/72 (44%), Positives = 44/72 (61%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
+ N G E+LK+LF KFG + V V D ++G +K FGFV+F ++ AQ A+ EM
Sbjct: 195 IKNFGEDMDDERLKDLFG-KFGPAL-SVKVMTD-ESGKSKGFGFVSFERHEDAQKAVDEM 251
Query: 183 NGKEFQGKPLQV 218
NGKE GK + V
Sbjct: 252 NGKELNGKQIYV 263
Score = 41.2 bits (95), Expect = 0.001
Identities = 25/73 (34%), Positives = 40/73 (54%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
V N+ + E+L++ F+P KV + + G +K FGFV F + ++A A+ EM
Sbjct: 298 VKNLDDGIDDERLRKAFSPFGTITSAKVMM----EGGRSKGFGFVCFSSPEEATKAVTEM 353
Query: 183 NGKEFQGKPLQVS 221
NG+ KPL V+
Sbjct: 354 NGRIVATKPLYVA 366
Score = 32.3 bits (72), Expect = 0.58
Identities = 25/72 (34%), Positives = 40/72 (55%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
V N+ S + L + + FG I+ +V D +NGS K +GFV F ++ A+ AI++M
Sbjct: 103 VKNLDKSINNKALYDTVSA-FGN-ILSCNVVCD-ENGS-KGYGFVHFETHEAAERAIKKM 158
Query: 183 NGKEFQGKPLQV 218
NG G+ + V
Sbjct: 159 NGMLLNGRKVFV 170
>sp|P11940|PABP1_HUMAN Polyadenylate-binding protein 1 (Poly(A)-binding protein 1) (PABP
1)
sp|P61286|PABP1_BOVIN Polyadenylate-binding protein 1 (Poly(A)-binding protein 1) (PABP
1)
Length = 636
Score = 56.2 bits (134), Expect = 4e-08
Identities = 32/72 (44%), Positives = 44/72 (61%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
+ N G E+LK+LF KFG + V V D ++G +K FGFV+F ++ AQ A+ EM
Sbjct: 195 IKNFGEDMDDERLKDLFG-KFGPAL-SVKVMTD-ESGKSKGFGFVSFERHEDAQKAVDEM 251
Query: 183 NGKEFQGKPLQV 218
NGKE GK + V
Sbjct: 252 NGKELNGKQIYV 263
Score = 40.4 bits (93), Expect = 0.002
Identities = 25/73 (34%), Positives = 40/73 (54%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
V N+ + E+L++ F+P KV + + G +K FGFV F + ++A A+ EM
Sbjct: 298 VKNLDDGIDDERLRKEFSPFGTITSAKVMM----EGGRSKGFGFVCFSSPEEATKAVTEM 353
Query: 183 NGKEFQGKPLQVS 221
NG+ KPL V+
Sbjct: 354 NGRIVATKPLYVA 366
Score = 30.8 bits (68), Expect = 1.7
Identities = 23/62 (37%), Positives = 35/62 (56%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
+ N+ S + L + F+ FG I+ V D +NGS K +GFV F + A+ AI++M
Sbjct: 103 IKNLDKSIDNKALYDTFSA-FGN-ILSCKVVCD-ENGS-KGYGFVHFETQEAAERAIEKM 158
Query: 183 NG 188
NG
Sbjct: 159 NG 160
>sp|Q15717|ELAV1_HUMAN ELAV-like protein 1 (Hu-antigen R) (HuR)
Length = 326
Score = 54.7 bits (130), Expect = 1e-07
Identities = 31/75 (41%), Positives = 42/75 (56%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
+YN+G + L ++F P FG + V V +D K FGFVT NY++A +AI +
Sbjct: 248 IYNLGQDADEGILWQMFGP-FGA-VTNVKVIRDFNTNKCKGFGFVTMTNYEEAAMAIASL 305
Query: 183 NGKEFQGKPLQVSFK 227
NG K LQVSFK
Sbjct: 306 NGYRLGDKILQVSFK 320
Score = 36.6 bits (83), Expect = 0.031
Identities = 20/68 (29%), Positives = 38/68 (55%)
Frame = +3
Query: 27 TKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEMNGKEFQGK 206
T+++L+ LF+ G E+ + +D G + +GFV + + A+ AI +NG Q K
Sbjct: 32 TQDELRSLFS-SIG-EVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSK 89
Query: 207 PLQVSFKK 230
++VS+ +
Sbjct: 90 TIKVSYAR 97
>sp|P70372|ELAV1_MOUSE ELAV-like protein 1 (Hu-antigen R) (HuR) (Elav-like generic
protein) (MelG)
Length = 326
Score = 53.5 bits (127), Expect = 2e-07
Identities = 30/75 (40%), Positives = 42/75 (56%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
+YN+G + L ++F P FG + V V +D K FGFVT NY+++ +AI +
Sbjct: 248 IYNLGQDADEGILWQMFGP-FGA-VTNVKVIRDFNTNKCKGFGFVTMTNYEESAMAIASL 305
Query: 183 NGKEFQGKPLQVSFK 227
NG K LQVSFK
Sbjct: 306 NGYRLGDKILQVSFK 320
Score = 37.7 bits (86), Expect = 0.014
Identities = 21/68 (30%), Positives = 38/68 (55%)
Frame = +3
Query: 27 TKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEMNGKEFQGK 206
T+E+L+ LF+ G E+ + +D G + +GFV + + A+ AI +NG Q K
Sbjct: 32 TQEELRSLFS-SIG-EVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAISTLNGLRLQSK 89
Query: 207 PLQVSFKK 230
++VS+ +
Sbjct: 90 TIKVSYAR 97
>sp|P20965|PABP1_XENLA Polyadenylate-binding protein 1 (Poly(A)-binding protein 1) (PABP
1)
Length = 633
Score = 53.1 bits (126), Expect = 3e-07
Identities = 35/100 (35%), Positives = 51/100 (51%), Gaps = 11/100 (11%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
+ N G+ E+LKE+F K+G + V V D NG +K FGFV+F ++ AQ A+ EM
Sbjct: 195 IKNFGDDMNDERLKEMFG-KYGPAL-SVKVMTDD-NGKSKGFGFVSFERHEDAQKAVDEM 251
Query: 183 NGKEFQGKPL-----------QVSFKK*IYQVNKMNTTGY 269
GK+ GK + Q K+ Q+N+ T Y
Sbjct: 252 YGKDMNGKSMFVGRAQKKVERQTELKRKFEQMNQDRITRY 291
Score = 39.7 bits (91), Expect = 0.004
Identities = 25/73 (34%), Positives = 39/73 (53%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
V N+ + E+L++ F P KV + + G +K FGFV F + ++A A+ EM
Sbjct: 298 VKNLDDGIDDERLRKEFLPFGTITSAKVMM----EGGRSKGFGFVCFSSPEEATKAVTEM 353
Query: 183 NGKEFQGKPLQVS 221
NG+ KPL V+
Sbjct: 354 NGRIVATKPLYVA 366
Score = 30.0 bits (66), Expect = 2.9
Identities = 23/62 (37%), Positives = 34/62 (54%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
+ N+ S + L + F+ FG I+ V D +NGS K +GFV F + A+ AI +M
Sbjct: 103 IKNLDKSIDNKALYDTFSA-FGN-ILSCKVVCD-ENGS-KGYGFVHFETQEAAERAIDKM 158
Query: 183 NG 188
NG
Sbjct: 159 NG 160
>sp|P31209|PABP_SCHPO Polyadenylate-binding protein (Poly(A)-binding protein) (PABP)
Length = 653
Score = 52.4 bits (124), Expect = 5e-07
Identities = 28/72 (38%), Positives = 45/72 (62%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
+ N+ T+++ +LF +FG EI + + KD QN + FGFV + N++ AQ A+ E+
Sbjct: 265 IKNLDTEITEQEFSDLFG-QFG-EITSLSLVKD-QNDKPRGFGFVNYANHECAQKAVDEL 321
Query: 183 NGKEFQGKPLQV 218
N KE++GK L V
Sbjct: 322 NDKEYKGKKLYV 333
Score = 40.0 bits (92), Expect = 0.003
Identities = 26/73 (35%), Positives = 39/73 (53%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
+ N+ + E+LK F+ FG I + D Q G +K FGFV + ++A A+ EM
Sbjct: 368 IKNLQDEVDDERLKAEFSA-FGT-ITSAKIMTDEQ-GKSKGFGFVCYTTPEEANKAVTEM 424
Query: 183 NGKEFQGKPLQVS 221
N + GKPL V+
Sbjct: 425 NQRMLAGKPLYVA 437
Score = 31.2 bits (69), Expect = 1.3
Identities = 20/80 (25%), Positives = 39/80 (48%)
Frame = +3
Query: 21 STTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEMNGKEFQ 200
S T+ L ELF G + + V +D+ + + +V F N + + A+ E+N +
Sbjct: 90 SVTEAMLFELFN-SIGP-VASIRVCRDAVTRRSLGYAYVNFHNMEDGEKALDELNYTLIK 147
Query: 201 GKPLQVSFKK*IYQVNKMNT 260
G+P ++ + + + KM T
Sbjct: 148 GRPCRIMWSQRDPSLRKMGT 167
Score = 31.2 bits (69), Expect = 1.3
Identities = 22/72 (30%), Positives = 37/72 (51%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
+ N+ + + L + F+ FGK I+ V D + G+ K +GFV F + + A AI+ +
Sbjct: 172 IKNLDPAIDNKALHDTFSA-FGK-ILSCKVAVD-ELGNAKGYGFVHFDSVESANAAIEHV 228
Query: 183 NGKEFQGKPLQV 218
NG K + V
Sbjct: 229 NGMLLNDKKVYV 240
>sp|O09032|ELAV4_RAT ELAV-like protein 4 (Paraneoplastic encephalomyelitis antigen HuD)
(Hu-antigen D)
Length = 373
Score = 52.0 bits (123), Expect = 7e-07
Identities = 31/75 (41%), Positives = 41/75 (54%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
VYN+ + + L +LF P FG + V V +D K FGFVT NY +A +AI +
Sbjct: 294 VYNLSPDSDESVLWQLFGP-FGA-VNNVKVIRDFNTNKCKGFGFVTMTNYDEAAMAIASL 351
Query: 183 NGKEFQGKPLQVSFK 227
NG + LQVSFK
Sbjct: 352 NGYRLGDRVLQVSFK 366
Score = 35.8 bits (81), Expect = 0.052
Identities = 21/68 (30%), Positives = 37/68 (54%)
Frame = +3
Query: 27 TKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEMNGKEFQGK 206
T+E+ + LF G EI + +D G + +GFV + + + A+ AI +NG Q K
Sbjct: 51 TQEEFRSLFG-SIG-EIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTK 108
Query: 207 PLQVSFKK 230
++VS+ +
Sbjct: 109 TIKVSYAR 116
Score = 34.3 bits (77), Expect = 0.15
Identities = 22/76 (28%), Positives = 45/76 (59%), Gaps = 2/76 (2%)
Frame = +3
Query: 3 VYNIGNSTTKEQLKELFAPKFGKEIIKVDVPKDSQNGSNKNFGFVTFGNYQKAQLAIQEM 182
V + + T+++L++LF+ ++G+ II + D G ++ GF+ F +A+ AI+ +
Sbjct: 129 VSGLPKTMTQKELEQLFS-QYGR-IITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 186
Query: 183 NGKEFQG--KPLQVSF 224
NG++ G +P+ V F
Sbjct: 187 NGQKPSGATEPITVKF 202
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: 55,048,256
Number of Sequences: 369166
Number of extensions: 1041814
Number of successful extensions: 2819
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 2641
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): 2805
length of database: 68,354,980
effective HSP length: 102
effective length of database: 49,512,010
effective search space used: 2822184570
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)