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_027_N06
(796 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... 102 1e-21
sp|P31483|TIA1_HUMAN Nucleolysin TIA-1 isoform p40 (RNA-bin... 102 1e-21
sp|P70318|TIAR_MOUSE Nucleolysin TIAR (TIA-1 related protein) 101 2e-21
sp|Q01085|TIAR_HUMAN Nucleolysin TIAR (TIA-1 related protein) 100 3e-21
sp|O60176|YG41_SCHPO Hypothetical RNA-binding protein C23E6... 59 2e-08
sp|Q09702|NRD1_SCHPO Negative regulator of differentiation ... 56 1e-07
sp|P32588|PUB1_YEAST Nuclear and cytoplasmic polyadenylated... 55 3e-07
sp|Q00539|NAM8_YEAST NAM8 protein 52 1e-06
sp|Q8SX83|SPEN_DROME Split ends protein 50 9e-06
sp|P92204|NELFE_DROME Negative elongation factor E 48 4e-05
>sp|P52912|TIA1_MOUSE Nucleolysin TIA-1 (RNA-binding protein TIA-1)
Length = 386
Score = 102 bits (254), Expect = 1e-21
Identities = 55/143 (38%), Positives = 79/143 (55%), Gaps = 2/143 (1%)
Frame = +2
Query: 8 DAERAIEKMHKTWFHNRTIKCNWATRNGLDGDQFIKYTPRP--YELVYKESPLTNTNVYI 181
DAE AI++M W R I+ NWATR + + Y+ V +S N VY
Sbjct: 159 DAENAIQQMGGQWLGGRQIRTNWATRKPPAPKSTYESNTKQLSYDEVVSQSSPNNCTVYC 218
Query: 182 AGIPEGLTEELVRVHFEEFGRIDAVKVYPEKAHAFINFVTHESAARAISQRHGYKINDNV 361
G+ GLTE+L+R F FG+I ++V+P+K ++F+ F +HESAA AI +G I +V
Sbjct: 219 GGVTSGLTEQLMRQTFSPFGQIMEIRVFPDKGYSFVRFSSHESAAHAIVSVNGTTIEGHV 278
Query: 362 IKCNWGKENFGFSVTPLPVQPAI 430
+KC WGKE + P+ Q I
Sbjct: 279 VKCYWGKETLDM-INPVQQQNQI 300
>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 = 102 bits (254), Expect = 1e-21
Identities = 55/143 (38%), Positives = 80/143 (55%), Gaps = 2/143 (1%)
Frame = +2
Query: 8 DAERAIEKMHKTWFHNRTIKCNWATRNGLDGDQFIKYTPRP--YELVYKESPLTNTNVYI 181
DAE AI++M W R I+ NWATR + + Y+ V +S +N VY
Sbjct: 159 DAENAIQQMGGQWLGGRQIRTNWATRKPPAPKSTYESNTKQLSYDEVVNQSSPSNCTVYC 218
Query: 182 AGIPEGLTEELVRVHFEEFGRIDAVKVYPEKAHAFINFVTHESAARAISQRHGYKINDNV 361
G+ GLTE+L+R F FG+I ++V+P+K ++F+ F +HESAA AI +G I +V
Sbjct: 219 GGVTSGLTEQLMRQTFSPFGQIMEIRVFPDKGYSFVRFNSHESAAHAIVSVNGTTIEGHV 278
Query: 362 IKCNWGKENFGFSVTPLPVQPAI 430
+KC WGKE + P+ Q I
Sbjct: 279 VKCYWGKETLDM-INPVQQQNQI 300
>sp|P70318|TIAR_MOUSE Nucleolysin TIAR (TIA-1 related protein)
Length = 392
Score = 101 bits (252), Expect = 2e-21
Identities = 55/129 (42%), Positives = 72/129 (55%), Gaps = 2/129 (1%)
Frame = +2
Query: 8 DAERAIEKMHKTWFHNRTIKCNWATRN--GLDGDQFIKYTPRPYELVYKESPLTNTNVYI 181
DAE AI M W R I+ NWATR Q +E V +S N VY
Sbjct: 167 DAENAIVHMGGQWLGGRQIRTNWATRKPPAPKSTQETNTKQLRFEDVVNQSSPKNCTVYC 226
Query: 182 AGIPEGLTEELVRVHFEEFGRIDAVKVYPEKAHAFINFVTHESAARAISQRHGYKINDNV 361
GI GLT++L+R F FG+I ++V+PEK ++F+ F THESAA AI +G I +V
Sbjct: 227 GGIASGLTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGHV 286
Query: 362 IKCNWGKEN 388
+KC WGKE+
Sbjct: 287 VKCYWGKES 295
>sp|Q01085|TIAR_HUMAN Nucleolysin TIAR (TIA-1 related protein)
Length = 375
Score = 100 bits (250), Expect = 3e-21
Identities = 55/129 (42%), Positives = 72/129 (55%), Gaps = 2/129 (1%)
Frame = +2
Query: 8 DAERAIEKMHKTWFHNRTIKCNWATRN--GLDGDQFIKYTPRPYELVYKESPLTNTNVYI 181
DAE AI M W R I+ NWATR Q +E V +S N VY
Sbjct: 150 DAENAIVHMGGQWLGGRQIRTNWATRKPPAPKSTQENNTKQLRFEDVVNQSSPKNCTVYC 209
Query: 182 AGIPEGLTEELVRVHFEEFGRIDAVKVYPEKAHAFINFVTHESAARAISQRHGYKINDNV 361
GI GLT++L+R F FG+I ++V+PEK ++F+ F THESAA AI +G I +V
Sbjct: 210 GGIASGLTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGHV 269
Query: 362 IKCNWGKEN 388
+KC WGKE+
Sbjct: 270 VKCYWGKES 278
>sp|O60176|YG41_SCHPO Hypothetical RNA-binding protein C23E6.01c in chromosome II
Length = 473
Score = 58.9 bits (141), Expect = 2e-08
Identities = 28/89 (31%), Positives = 50/89 (56%)
Frame = +2
Query: 164 NTNVYIAGIPEGLTEELVRVHFEEFGRIDAVKVYPEKAHAFINFVTHESAARAISQRHGY 343
N+ V++ G+ + ++EE ++ F+ FG I VK+ P K F+ FV +SA AI+Q GY
Sbjct: 302 NSTVFVGGLSKFVSEEELKYLFQNFGEIVYVKIPPGKGCGFVQFVNRQSAEIAINQLQGY 361
Query: 344 KINDNVIKCNWGKENFGFSVTPLPVQPAI 430
+ ++ I+ +WG+ + L Q +
Sbjct: 362 PLGNSRIRLSWGRNQNPIAAPALNYQSQV 390
>sp|Q09702|NRD1_SCHPO Negative regulator of differentiation 1 (Multicopy suppressor of
sporulation protein msa2)
Length = 529
Score = 56.2 bits (134), Expect = 1e-07
Identities = 37/127 (29%), Positives = 58/127 (45%), Gaps = 3/127 (2%)
Frame = +2
Query: 23 IEKMHKTWFHNRTIKCNWATRNGLDGDQFIKYTPRPYELVYKESPLTNTNVYIAGIPEGL 202
+ +H NR +K W +G P P + + + N+YI + L
Sbjct: 376 MSNIHGLVIRNRRLKIGWGKHSG----------PLPSNIALAVAGGASRNIYIGNADDSL 425
Query: 203 TEELVRVHFEEFGRIDAVKVYPEKAHAFINFVTHESAARA---ISQRHGYKINDNVIKCN 373
T E ++ FEEFG I+ V + EK AF+NF + SA A I Q+ GY+ + +
Sbjct: 426 TIERLKEDFEEFGEIEYVNFFREKNCAFVNFTSLASAINAIDRIKQKKGYE----NYRIS 481
Query: 374 WGKENFG 394
+GK+ G
Sbjct: 482 YGKDRCG 488
Score = 47.8 bits (112), Expect = 4e-05
Identities = 19/54 (35%), Positives = 35/54 (64%)
Frame = +2
Query: 170 NVYIAGIPEGLTEELVRVHFEEFGRIDAVKVYPEKAHAFINFVTHESAARAISQ 331
NV++ +P G+TE+ +R E FG ID +K+ E+ AF++F+ +A +A+ +
Sbjct: 207 NVFLGNLPNGITEDEIREDLEPFGPIDQIKIVTERNIAFVHFLNIAAAIKAVQE 260
Score = 30.0 bits (66), Expect = 7.6
Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 2/85 (2%)
Frame = +2
Query: 173 VYIAGIPEGLTEELVRVHFEEFGRIDAVKVYPEKAHAFINFV--THESAARAISQRHGYK 346
VY+ +P + + + G I++ + PEK AFI+F+ +H +A +
Sbjct: 117 VYVGNLPPNTPIDEI-LSCVRTGPIESAWILPEKNCAFISFLDPSHATAFFQDAALKRLT 175
Query: 347 INDNVIKCNWGKENFGFSVTPLPVQ 421
I +K WGK + S L VQ
Sbjct: 176 IRGTEVKVGWGKNSASNSSVLLAVQ 200
>sp|P32588|PUB1_YEAST Nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1
(ARS consensus binding protein ACBP-60) (Poly(U)-binding
protein) (Poly uridylate-binding protein)
Length = 453
Score = 54.7 bits (130), Expect = 3e-07
Identities = 31/92 (33%), Positives = 42/92 (45%)
Frame = +2
Query: 122 PRPYELVYKESPLTNTNVYIAGIPEGLTEELVRVHFEEFGRIDAVKVYPEKAHAFINFVT 301
P+ + + + +P T YI IP TE + F+ FG I K YPEK FI + T
Sbjct: 326 PQAVDHIIRSAPPRVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYPEKGCCFIKYDT 385
Query: 302 HESAARAISQRHGYKINDNVIKCNWGKENFGF 397
HE AA I + ++ WGKE F
Sbjct: 386 HEQAAVCIVALANFPFQGRNLRTGWGKERSNF 417
Score = 40.8 bits (94), Expect = 0.004
Identities = 18/73 (24%), Positives = 41/73 (56%), Gaps = 5/73 (6%)
Frame = +2
Query: 173 VYIAGIPEGLTEELVRVHFEEFGRIDAVKVYPEK-----AHAFINFVTHESAARAISQRH 337
+Y+ + + +TE++++ +F+ G I +K+ +K +AF+ + A A+ +
Sbjct: 77 LYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLN 136
Query: 338 GYKINDNVIKCNW 376
G +I +N++K NW
Sbjct: 137 GKQIENNIVKINW 149
>sp|Q00539|NAM8_YEAST NAM8 protein
Length = 523
Score = 52.4 bits (124), Expect = 1e-06
Identities = 25/73 (34%), Positives = 43/73 (58%)
Frame = +2
Query: 164 NTNVYIAGIPEGLTEELVRVHFEEFGRIDAVKVYPEKAHAFINFVTHESAARAISQRHGY 343
NT V+I G+ +TE+ +R +F+ FG I VK+ K F+ +V SA AI+ G+
Sbjct: 312 NTTVFIGGLSSLVTEDELRAYFQPFGTIVYVKIPVGKCCGFVQYVDRLSAEAAIAGMQGF 371
Query: 344 KINDNVIKCNWGK 382
I ++ ++ +WG+
Sbjct: 372 PIANSRVRLSWGR 384
>sp|Q8SX83|SPEN_DROME Split ends protein
Length = 5560
Score = 49.7 bits (117), Expect = 9e-06
Identities = 35/129 (27%), Positives = 59/129 (45%), Gaps = 3/129 (2%)
Frame = +2
Query: 5 DDAERAIEKMHKTWFHNRTIKCNWATRNGLDGDQFIKYTPRPYELVYKE-SPLTNTNVYI 181
DD E+A+E H F I+ ++ ++F RPYE E P + ++I
Sbjct: 606 DDVEKALEVSHDKHFFGCKIEVEPYQGYDVEDNEF-----RPYEAELDEYHPKSTRTLFI 660
Query: 182 AGIPEGLTEELVRVHFEEFGRIDAVKVYPE--KAHAFINFVTHESAARAISQRHGYKIND 355
+ + +T +R HFE FG I + + + A+AF + S +A+ + G +
Sbjct: 661 GNLEKDITAGELRSHFEAFGEIIEIDIKKQGLNAYAFCQYSDIVSVVKAMRKMDGEHLGS 720
Query: 356 NVIKCNWGK 382
N IK +GK
Sbjct: 721 NRIKLGFGK 729
>sp|P92204|NELFE_DROME Negative elongation factor E
Length = 280
Score = 47.8 bits (112), Expect = 4e-05
Identities = 23/75 (30%), Positives = 41/75 (54%)
Frame = +2
Query: 128 PYELVYKESPLTNTNVYIAGIPEGLTEELVRVHFEEFGRIDAVKVYPEKAHAFINFVTHE 307
P + E P ++++G +TE+ ++ F ++G I V + EK+ F++F E
Sbjct: 153 PMDTAQPEKPRAGNTIFVSG--NKVTEDFLKKTFNDYGTIVNVSMEIEKSRGFVSFAKPE 210
Query: 308 SAARAISQRHGYKIN 352
SA RAI++ HG +N
Sbjct: 211 SADRAIAEIHGKNVN 225
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: 85,795,223
Number of Sequences: 369166
Number of extensions: 1641528
Number of successful extensions: 4555
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 4357
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): 4519
length of database: 68,354,980
effective HSP length: 109
effective length of database: 48,218,865
effective search space used: 7473924075
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)