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_006_P13
(835 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P52912|TIA1_MOUSE Nucleolysin TIA-1 (RNA-binding protein... 66 1e-10
sp|P70318|TIAR_MOUSE Nucleolysin TIAR (TIA-1 related protein) 64 5e-10
sp|Q01085|TIAR_HUMAN Nucleolysin TIAR (TIA-1 related protein) 64 5e-10
sp|P31483|TIA1_HUMAN Nucleolysin TIA-1 isoform p40 (RNA-bin... 62 1e-09
sp|P18615|NELFE_HUMAN Negative elongation factor E (NELF-E)... 50 8e-06
sp|P19426|NELFE_MOUSE Negative elongation factor E (NELF-E)... 50 8e-06
sp|P29341|PABP1_MOUSE Polyadenylate-binding protein 1 (Poly... 47 5e-05
sp|P11940|PABP1_HUMAN Polyadenylate-binding protein 1 (Poly... 47 5e-05
sp|Q9EPH8|PABP1_RAT Polyadenylate-binding protein 1 (Poly(A... 47 5e-05
sp|Q95ZE9|NELFE_DROVI Negative elongation factor E 47 5e-05
>sp|P52912|TIA1_MOUSE Nucleolysin TIA-1 (RNA-binding protein TIA-1)
Length = 386
Score = 66.2 bits (160), Expect = 1e-10
Identities = 49/200 (24%), Positives = 86/200 (43%), Gaps = 10/200 (5%)
Frame = +2
Query: 32 NAIEKMNDTFFHDEKIKCSWGXXXXXXXXXXXXXXXRSLQ--DILSETPKSYTNVFVTG- 202
NAI++M + +I+ +W + L +++S++ + V+ G
Sbjct: 162 NAIQQMGGQWLGGRQIRTNWATRKPPAPKSTYESNTKQLSYDEVVSQSSPNNCTVYCGGV 221
Query: 203 -ENVTQEMLEPLFVKFGTIKNIKAFPKNNQSFINYYSHEAAANAIYQMNGFWLDSVELKC 379
+T++++ F FG I I+ FP SF+ + SHE+AA+AI +NG ++ +KC
Sbjct: 222 TSGLTEQLMRQTFSPFGQIMEIRVFPDKGYSFVRFSSHESAAHAIVSVNGTTIEGHVVKC 281
Query: 380 SWAIKSEKPSKKVKFNRQPVKKPRKHVLPKSFSNVKTRQTYESNF----DSGYGGLPQFQ 547
W ++ V+ Q P + + N + Y N G G P Q
Sbjct: 282 YWGKETLDMINPVQQQNQIGYPPTYGQWGQWYGNAQQIGQYVPNGWQVPAYGVYGQPWSQ 341
Query: 548 QSFINPYQEQPF--PSYSLP 601
Q F P+ P+YS+P
Sbjct: 342 QGFNQTQSSAPWMGPNYSVP 361
Score = 40.4 bits (93), Expect = 0.006
Identities = 27/117 (23%), Positives = 54/117 (46%), Gaps = 8/117 (6%)
Frame = +2
Query: 155 ILSETPKSYTNVFV--TGENVTQEMLEPLFVKFGTI------KNIKAFPKNNQSFINYYS 310
+ ++ + + +VFV +T E ++ F FG I K++ F+++++
Sbjct: 97 VSTQRSQDHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFN 156
Query: 311 HEAAANAIYQMNGFWLDSVELKCSWAIKSEKPSKKVKFNRQPVKKPRKHVLPKSFSN 481
A NAI QM G WL +++ +WA + + P+ K + + V+ +S N
Sbjct: 157 KWDAENAIQQMGGQWLGGRQIRTNWATR-KPPAPKSTYESNTKQLSYDEVVSQSSPN 212
Score = 36.2 bits (82), Expect = 0.11
Identities = 21/73 (28%), Positives = 34/73 (46%), Gaps = 4/73 (5%)
Frame = +2
Query: 206 NVTQEMLEPLFVKFGTIKNIKAFP----KNNQSFINYYSHEAAANAIYQMNGFWLDSVEL 373
+VT+ ++ LF + G KN K + F+ ++ H AA A+ MNG + E+
Sbjct: 17 DVTEALILQLFSQIGPCKNCKMIMDTAGNDPYCFVEFHEHRHAAAALAAMNGRKIMGKEV 76
Query: 374 KCSWAIKSEKPSK 412
K +WA K
Sbjct: 77 KVNWATTPSSQKK 89
>sp|P70318|TIAR_MOUSE Nucleolysin TIAR (TIA-1 related protein)
Length = 392
Score = 63.9 bits (154), Expect = 5e-10
Identities = 46/194 (23%), Positives = 79/194 (40%), Gaps = 4/194 (2%)
Frame = +2
Query: 32 NAIEKMNDTFFHDEKIKCSWGXXXXXXXXXXXXXXXRSL--QDILSETPKSYTNVFVTG- 202
NAI M + +I+ +W + L +D+++++ V+ G
Sbjct: 170 NAIVHMGGQWLGGRQIRTNWATRKPPAPKSTQETNTKQLRFEDVVNQSSPKNCTVYCGGI 229
Query: 203 -ENVTQEMLEPLFVKFGTIKNIKAFPKNNQSFINYYSHEAAANAIYQMNGFWLDSVELKC 379
+T +++ F FG I I+ FP+ SF+ + +HE+AA+AI +NG ++ +KC
Sbjct: 230 ASGLTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKC 289
Query: 380 SWAIKSEKPSKKVKFNRQPVKKPRKHVLPKSFSNVKTRQTYESNFDSGYGGLPQFQQSFI 559
W E P + K+F V Q + YG Q+ Q
Sbjct: 290 YWG--KESPD-----------------MTKNFQQVDYSQW--GQWSQVYGNPQQYGQYMA 328
Query: 560 NPYQEQPFPSYSLP 601
N +Q P+ Y P
Sbjct: 329 NGWQVPPYGVYGQP 342
Score = 38.9 bits (89), Expect = 0.018
Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 8/90 (8%)
Frame = +2
Query: 176 SYTNVFV--TGENVTQEMLEPLFVKFGTI------KNIKAFPKNNQSFINYYSHEAAANA 331
++ +VFV +T E ++ F FG I K++ F+++Y+ A NA
Sbjct: 112 NHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENA 171
Query: 332 IYQMNGFWLDSVELKCSWAIKSEKPSKKVK 421
I M G WL +++ +WA + K +
Sbjct: 172 IVHMGGQWLGGRQIRTNWATRKPPAPKSTQ 201
Score = 31.6 bits (70), Expect = 2.8
Identities = 22/90 (24%), Positives = 35/90 (38%), Gaps = 21/90 (23%)
Frame = +2
Query: 206 NVTQEMLEPLFVKFGTIKNIKAFPKNNQS---------------------FINYYSHEAA 322
+VT+ ++ LF + G K+ K + S F+ +Y H A
Sbjct: 19 DVTEVLILQLFSQIGPCKSCKMITEQPDSRRVNSSVGFSVLQHTSNDPYCFVEFYEHRDA 78
Query: 323 ANAIYQMNGFWLDSVELKCSWAIKSEKPSK 412
A A+ MNG + E+K +WA K
Sbjct: 79 AAALAAMNGRKILGKEVKVNWATTPSSQKK 108
>sp|Q01085|TIAR_HUMAN Nucleolysin TIAR (TIA-1 related protein)
Length = 375
Score = 63.9 bits (154), Expect = 5e-10
Identities = 46/194 (23%), Positives = 79/194 (40%), Gaps = 4/194 (2%)
Frame = +2
Query: 32 NAIEKMNDTFFHDEKIKCSWGXXXXXXXXXXXXXXXRSL--QDILSETPKSYTNVFVTG- 202
NAI M + +I+ +W + L +D+++++ V+ G
Sbjct: 153 NAIVHMGGQWLGGRQIRTNWATRKPPAPKSTQENNTKQLRFEDVVNQSSPKNCTVYCGGI 212
Query: 203 -ENVTQEMLEPLFVKFGTIKNIKAFPKNNQSFINYYSHEAAANAIYQMNGFWLDSVELKC 379
+T +++ F FG I I+ FP+ SF+ + +HE+AA+AI +NG ++ +KC
Sbjct: 213 ASGLTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKC 272
Query: 380 SWAIKSEKPSKKVKFNRQPVKKPRKHVLPKSFSNVKTRQTYESNFDSGYGGLPQFQQSFI 559
W E P + K+F V Q + YG Q+ Q
Sbjct: 273 YWG--KESPD-----------------MTKNFQQVDYSQW--GQWSQVYGNPQQYGQYMA 311
Query: 560 NPYQEQPFPSYSLP 601
N +Q P+ Y P
Sbjct: 312 NGWQVPPYGVYGQP 325
Score = 40.0 bits (92), Expect = 0.008
Identities = 24/92 (26%), Positives = 42/92 (45%), Gaps = 8/92 (8%)
Frame = +2
Query: 176 SYTNVFV--TGENVTQEMLEPLFVKFGTI------KNIKAFPKNNQSFINYYSHEAAANA 331
++ +VFV +T E ++ F FG I K++ F+++Y+ A NA
Sbjct: 95 NHFHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENA 154
Query: 332 IYQMNGFWLDSVELKCSWAIKSEKPSKKVKFN 427
I M G WL +++ +WA + K + N
Sbjct: 155 IVHMGGQWLGGRQIRTNWATRKPPAPKSTQEN 186
Score = 38.1 bits (87), Expect = 0.030
Identities = 21/73 (28%), Positives = 36/73 (49%), Gaps = 4/73 (5%)
Frame = +2
Query: 206 NVTQEMLEPLFVKFGTIKNIKAFPKNNQS----FINYYSHEAAANAIYQMNGFWLDSVEL 373
+VT+ ++ LF + G K+ K ++ + F+ +Y H AA A+ MNG + E+
Sbjct: 19 DVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEV 78
Query: 374 KCSWAIKSEKPSK 412
K +WA K
Sbjct: 79 KVNWATTPSSQKK 91
>sp|P31483|TIA1_HUMAN Nucleolysin TIA-1 isoform p40 (RNA-binding protein TIA-1)
(p40-TIA-1) [Contains: Nucleolysin TIA-1 isoform p15
(p15-TIA-1)]
Length = 386
Score = 62.4 bits (150), Expect = 1e-09
Identities = 55/236 (23%), Positives = 95/236 (40%), Gaps = 4/236 (1%)
Frame = +2
Query: 32 NAIEKMNDTFFHDEKIKCSWGXXXXXXXXXXXXXXXRSLQ--DILSETPKSYTNVFVTG- 202
NAI++M + +I+ +W + L ++++++ S V+ G
Sbjct: 162 NAIQQMGGQWLGGRQIRTNWATRKPPAPKSTYESNTKQLSYDEVVNQSSPSNCTVYCGGV 221
Query: 203 -ENVTQEMLEPLFVKFGTIKNIKAFPKNNQSFINYYSHEAAANAIYQMNGFWLDSVELKC 379
+T++++ F FG I I+ FP SF+ + SHE+AA+AI +NG ++ +KC
Sbjct: 222 TSGLTEQLMRQTFSPFGQIMEIRVFPDKGYSFVRFNSHESAAHAIVSVNGTTIEGHVVKC 281
Query: 380 SWAIKSEKPSKKVKFNRQPVKKPRKHVLPKSFSNVKTRQTYESNFDSGYGGLPQFQQSFI 559
W K+ PV++ + P+ + + YG Q Q
Sbjct: 282 YW-------GKETLDMINPVQQQNQIGYPQPY----------GQWGQWYGNAQQIGQYMP 324
Query: 560 NPYQEQPFPSYSLPAYPXXXXXXXXXXFTAARSQSKSIPNVQPLMGILAQPKPGLN 727
N +Q +PAY F +S S P + P G+ QP G N
Sbjct: 325 NGWQ--------VPAYGMYGQAWNQQGFNQTQS---SAPWMGPNYGV--QPPQGQN 367
Score = 40.0 bits (92), Expect = 0.008
Identities = 23/94 (24%), Positives = 45/94 (47%), Gaps = 8/94 (8%)
Frame = +2
Query: 155 ILSETPKSYTNVFV--TGENVTQEMLEPLFVKFGTI------KNIKAFPKNNQSFINYYS 310
+ ++ +++ +VFV +T E ++ F FG I K++ F+++++
Sbjct: 97 VSTQRSQNHFHVFVGDLSPQITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFN 156
Query: 311 HEAAANAIYQMNGFWLDSVELKCSWAIKSEKPSK 412
A NAI QM G WL +++ +WA + K
Sbjct: 157 KWDAENAIQQMGGQWLGGRQIRTNWATRKPPAPK 190
Score = 36.2 bits (82), Expect = 0.11
Identities = 21/73 (28%), Positives = 34/73 (46%), Gaps = 4/73 (5%)
Frame = +2
Query: 206 NVTQEMLEPLFVKFGTIKNIKAFP----KNNQSFINYYSHEAAANAIYQMNGFWLDSVEL 373
+VT+ ++ LF + G KN K + F+ ++ H AA A+ MNG + E+
Sbjct: 17 DVTEALILQLFSQIGPCKNCKMIMDTAGNDPYCFVEFHEHRHAAAALAAMNGRKIMGKEV 76
Query: 374 KCSWAIKSEKPSK 412
K +WA K
Sbjct: 77 KVNWATTPSSQKK 89
>sp|P18615|NELFE_HUMAN Negative elongation factor E (NELF-E) (RD protein)
Length = 380
Score = 50.1 bits (118), Expect = 8e-06
Identities = 25/75 (33%), Positives = 43/75 (57%)
Frame = +2
Query: 170 PKSYTNVFVTGENVTQEMLEPLFVKFGTIKNIKAFPKNNQSFINYYSHEAAANAIYQMNG 349
P+ ++V GE++T +L F FG I ++ P N +F+ Y E+A A+ ++NG
Sbjct: 258 PRKGNTLYVYGEDMTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNG 317
Query: 350 FWLDSVELKCSWAIK 394
++SV+LK + A K
Sbjct: 318 TQVESVQLKVNIARK 332
>sp|P19426|NELFE_MOUSE Negative elongation factor E (NELF-E) (RD protein)
Length = 375
Score = 50.1 bits (118), Expect = 8e-06
Identities = 25/75 (33%), Positives = 43/75 (57%)
Frame = +2
Query: 170 PKSYTNVFVTGENVTQEMLEPLFVKFGTIKNIKAFPKNNQSFINYYSHEAAANAIYQMNG 349
P+ ++V GE++T +L F FG I ++ P N +F+ Y E+A A+ ++NG
Sbjct: 262 PRKGNTLYVYGEDMTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNG 321
Query: 350 FWLDSVELKCSWAIK 394
++SV+LK + A K
Sbjct: 322 TQVESVQLKVNIARK 336
>sp|P29341|PABP1_MOUSE Polyadenylate-binding protein 1 (Poly(A)-binding protein 1) (PABP
1)
Length = 636
Score = 47.4 bits (111), Expect = 5e-05
Identities = 37/146 (25%), Positives = 64/146 (43%), Gaps = 7/146 (4%)
Frame = +2
Query: 35 AIEKMNDTFFHDEKIKCSWGXXXXXXXXXXXXXXXRSLQDILSETPKSYTNVFVT--GEN 208
AIEKMN +D K+ + + L K +TNV++ GE+
Sbjct: 154 AIEKMNGMLLNDRKV------------FVGRFKSQKEREAELGARAKEFTNVYIKNFGED 201
Query: 209 VTQEMLEPLFVKFGTIKNIKAFPKNNQS-----FINYYSHEAAANAIYQMNGFWLDSVEL 373
+ E L+ LF KFG ++K + F+++ HE A A+ +MNG L+ ++
Sbjct: 202 MDDERLKELFGKFGPALSVKVMTDESGKSKGFGFVSFERHEDAQKAVDEMNGKELNGKQI 261
Query: 374 KCSWAIKSEKPSKKVKFNRQPVKKPR 451
A K + ++K + +K+ R
Sbjct: 262 YVGRAQKKVERQTELKRKFEQMKQDR 287
Score = 31.2 bits (69), Expect = 3.7
Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 6/65 (9%)
Frame = +2
Query: 185 NVFVTG--ENVTQEMLEPLFVKFGTIKNIKAFPKNNQS----FINYYSHEAAANAIYQMN 346
N+F+ +++ + L F FG I + K N S F+++ + EAA AI +MN
Sbjct: 100 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMN 159
Query: 347 GFWLD 361
G L+
Sbjct: 160 GMLLN 164
>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 = 47.4 bits (111), Expect = 5e-05
Identities = 37/146 (25%), Positives = 64/146 (43%), Gaps = 7/146 (4%)
Frame = +2
Query: 35 AIEKMNDTFFHDEKIKCSWGXXXXXXXXXXXXXXXRSLQDILSETPKSYTNVFVT--GEN 208
AIEKMN +D K+ + + L K +TNV++ GE+
Sbjct: 154 AIEKMNGMLLNDRKV------------FVGRFKSRKEREAELGARAKEFTNVYIKNFGED 201
Query: 209 VTQEMLEPLFVKFGTIKNIKAFPKNNQS-----FINYYSHEAAANAIYQMNGFWLDSVEL 373
+ E L+ LF KFG ++K + F+++ HE A A+ +MNG L+ ++
Sbjct: 202 MDDERLKDLFGKFGPALSVKVMTDESGKSKGFGFVSFERHEDAQKAVDEMNGKELNGKQI 261
Query: 374 KCSWAIKSEKPSKKVKFNRQPVKKPR 451
A K + ++K + +K+ R
Sbjct: 262 YVGRAQKKVERQTELKRKFEQMKQDR 287
Score = 31.2 bits (69), Expect = 3.7
Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 6/65 (9%)
Frame = +2
Query: 185 NVFVTG--ENVTQEMLEPLFVKFGTIKNIKAFPKNNQS----FINYYSHEAAANAIYQMN 346
N+F+ +++ + L F FG I + K N S F+++ + EAA AI +MN
Sbjct: 100 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMN 159
Query: 347 GFWLD 361
G L+
Sbjct: 160 GMLLN 164
>sp|Q9EPH8|PABP1_RAT Polyadenylate-binding protein 1 (Poly(A)-binding protein 1) (PABP
1)
Length = 636
Score = 47.4 bits (111), Expect = 5e-05
Identities = 37/146 (25%), Positives = 64/146 (43%), Gaps = 7/146 (4%)
Frame = +2
Query: 35 AIEKMNDTFFHDEKIKCSWGXXXXXXXXXXXXXXXRSLQDILSETPKSYTNVFVT--GEN 208
AIEKMN +D K+ + + L K +TNV++ GE+
Sbjct: 154 AIEKMNGMLLNDRKV------------FVGRFKSRKEREAELGARAKEFTNVYIKNFGED 201
Query: 209 VTQEMLEPLFVKFGTIKNIKAFPKNNQS-----FINYYSHEAAANAIYQMNGFWLDSVEL 373
+ E L+ LF KFG ++K + F+++ HE A A+ +MNG L+ ++
Sbjct: 202 MDDERLKELFGKFGPALSVKVMTDESGKSKGFGFVSFERHEDAQKAVDEMNGKELNGKQI 261
Query: 374 KCSWAIKSEKPSKKVKFNRQPVKKPR 451
A K + ++K + +K+ R
Sbjct: 262 YVGRAQKKVERQTELKRKFEQMKQDR 287
Score = 31.2 bits (69), Expect = 3.7
Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 6/65 (9%)
Frame = +2
Query: 185 NVFVTG--ENVTQEMLEPLFVKFGTIKNIKAFPKNNQS----FINYYSHEAAANAIYQMN 346
N+F+ +++ + L F FG I + K N S F+++ + EAA AI +MN
Sbjct: 100 NIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMN 159
Query: 347 GFWLD 361
G L+
Sbjct: 160 GMLLN 164
>sp|Q95ZE9|NELFE_DROVI Negative elongation factor E
Length = 281
Score = 47.4 bits (111), Expect = 5e-05
Identities = 23/75 (30%), Positives = 43/75 (57%)
Frame = +2
Query: 164 ETPKSYTNVFVTGENVTQEMLEPLFVKFGTIKNIKAFPKNNQSFINYYSHEAAANAIYQM 343
E P++ +FV+G VT+E L+ F +GTI N+ + ++ F+++ E+A AI +M
Sbjct: 161 EKPRAGNTIFVSGNKVTEEFLKKTFNDYGTIVNVSMEIEKSRGFVSFAKPESADRAIAEM 220
Query: 344 NGFWLDSVELKCSWA 388
+G + + L+ A
Sbjct: 221 HGKSVTGIVLQVQLA 235
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: 89,707,227
Number of Sequences: 369166
Number of extensions: 1734809
Number of successful extensions: 4892
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 4710
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): 4877
length of database: 68,354,980
effective HSP length: 109
effective length of database: 48,218,865
effective search space used: 8100769320
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)