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_L14
(565 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P21187|PABP_DROME Polyadenylate-binding protein (Poly(A)... 44 3e-04
sp|P29341|PABP1_MOUSE Polyadenylate-binding protein 1 (Poly... 36 0.075
sp|Q9EPH8|PABP1_RAT Polyadenylate-binding protein 1 (Poly(A... 36 0.075
sp|P20965|PABP1_XENLA Polyadenylate-binding protein 1 (Poly... 35 0.098
sp|P11940|PABP1_HUMAN Polyadenylate-binding protein 1 (Poly... 35 0.098
sp|Q13310|PABP4_HUMAN Polyadenylate-binding protein 4 (Poly... 34 0.22
sp|Q9H361|PABP3_HUMAN Polyadenylate-binding protein 3 (Poly... 32 0.83
sp|O64380|PABP3_ARATH Polyadenylate-binding protein 3 (Poly... 32 1.1
sp|Q02446|SP4_HUMAN Transcription factor Sp4 (SPR-1) 30 5.4
sp|Q22366|RIM_CAEEL Rab-3 interacting molecule unc-10 (Rim)... 30 5.4
>sp|P21187|PABP_DROME Polyadenylate-binding protein (Poly(A)-binding protein) (PABP)
Length = 634
Score = 43.9 bits (102), Expect = 3e-04
Identities = 36/107 (33%), Positives = 52/107 (48%), Gaps = 10/107 (9%)
Frame = +2
Query: 275 QNRNARPITGNVQLNQPRPQYN--IVANGRQAGNMMYQY-------PI-QDNQTMMNPDQ 424
+N AR ITG Q P Q +A G Q Y+Y P+ Q +QT P Q
Sbjct: 488 RNTGARAITGQ-QTAAPNMQIPGAQIAGGAQQRTSNYKYTSNMRNPPVPQLHQTQPIPQQ 546
Query: 425 MKMPDIESQIDLSTTSKIANADSMEAKQLLGEKIYPLVSKHAGDMAG 565
++ + E I S +ANA E KQ+LGE++YP++ ++AG
Sbjct: 547 LQGKNSEKLI----ASLLANAKPQEQKQILGERLYPMIEHMHANLAG 589
>sp|P29341|PABP1_MOUSE Polyadenylate-binding protein 1 (Poly(A)-binding protein 1) (PABP
1)
Length = 636
Score = 35.8 bits (81), Expect = 0.075
Identities = 26/79 (32%), Positives = 36/79 (45%)
Frame = +2
Query: 329 PQYNIVANGRQAGNMMYQYPIQDNQTMMNPDQMKMPDIESQIDLSTTSKIANADSMEAKQ 508
PQY A R N Q TM P ++ Q L T S +A+A E KQ
Sbjct: 509 PQYKYAAGVR---NPQQHLNAQPQVTMQQP----AVHVQGQEPL-TASMLASAPPQEQKQ 560
Query: 509 LLGEKIYPLVSKHAGDMAG 565
+LGE+++PL+ +AG
Sbjct: 561 MLGERLFPLIQAMHPSLAG 579
>sp|Q9EPH8|PABP1_RAT Polyadenylate-binding protein 1 (Poly(A)-binding protein 1) (PABP
1)
Length = 636
Score = 35.8 bits (81), Expect = 0.075
Identities = 26/79 (32%), Positives = 36/79 (45%)
Frame = +2
Query: 329 PQYNIVANGRQAGNMMYQYPIQDNQTMMNPDQMKMPDIESQIDLSTTSKIANADSMEAKQ 508
PQY A R N Q TM P ++ Q L T S +A+A E KQ
Sbjct: 509 PQYKYAAGVR---NPQQHLNAQPQVTMQQP----AVHVQGQEPL-TASMLASAPPQEQKQ 560
Query: 509 LLGEKIYPLVSKHAGDMAG 565
+LGE+++PL+ +AG
Sbjct: 561 MLGERLFPLIQAMHPSLAG 579
>sp|P20965|PABP1_XENLA Polyadenylate-binding protein 1 (Poly(A)-binding protein 1) (PABP
1)
Length = 633
Score = 35.4 bits (80), Expect = 0.098
Identities = 55/216 (25%), Positives = 75/216 (34%), Gaps = 28/216 (12%)
Frame = +2
Query: 2 RVAHLRSQFQQR---VHQPQPAVXXXXXXXXXXXXXXXXXXXAR-----PGNILQ----S 145
R AHL +Q+ QR V P P + R PG I Q
Sbjct: 374 RQAHLTNQYMQRMASVRVPNPVINPYQPPPSSYFMAAIPPAQNRAAYYPPGQIAQLRPSP 433
Query: 146 RWP---------QNMPYIQPRNIGMPANQNIMMAGMPQNQQRRNIIVDPIISQNRNARPI 298
RW QNMP P + M Q V ++S R A
Sbjct: 434 RWTAQGARPHPFQNMPGAIRPTAPRPPTFSTMRPASNQ--------VPRVMSAQRVANTS 485
Query: 299 TGNVQLNQPRPQYNIVANG---RQAGNMMYQYPIQDNQTMMNPDQMKMPD----IESQID 457
T Q PRP A R Y +++ Q + Q+ M ++ Q
Sbjct: 486 T---QTMGPRPTTAAAAAASAVRAVPQYKYAAGVRNQQHLNTQPQVAMQQPAVHVQGQEP 542
Query: 458 LSTTSKIANADSMEAKQLLGEKIYPLVSKHAGDMAG 565
L T S +A A E KQ+LGE+++PL+ +AG
Sbjct: 543 L-TASMLAAAPPQEQKQMLGERLFPLIQAMHPTLAG 577
>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 = 35.4 bits (80), Expect = 0.098
Identities = 26/79 (32%), Positives = 36/79 (45%)
Frame = +2
Query: 329 PQYNIVANGRQAGNMMYQYPIQDNQTMMNPDQMKMPDIESQIDLSTTSKIANADSMEAKQ 508
PQY A R N Q TM P ++ Q L T S +A+A E KQ
Sbjct: 509 PQYKYAAGVR---NPQQHLNAQPQVTMQQP----AVHVQGQEPL-TASMLASAPPQEQKQ 560
Query: 509 LLGEKIYPLVSKHAGDMAG 565
+LGE+++PL+ +AG
Sbjct: 561 MLGERLFPLIQAMHPTLAG 579
>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 = 34.3 bits (77), Expect = 0.22
Identities = 19/64 (29%), Positives = 32/64 (50%), Gaps = 1/64 (1%)
Frame = +2
Query: 377 YQYPIQDNQTMMNPDQMKMPDIESQ-IDLSTTSKIANADSMEAKQLLGEKIYPLVSKHAG 553
Y ++ + P Q P + Q + T S +A A E KQ+LGE+++PL+
Sbjct: 525 YASSVRSPHPAIQPLQAPQPAVHVQGQEPLTASMLAAAPPQEQKQMLGERLFPLIQTMHS 584
Query: 554 DMAG 565
++AG
Sbjct: 585 NLAG 588
>sp|Q9H361|PABP3_HUMAN Polyadenylate-binding protein 3 (Poly(A)-binding protein 3) (PABP
3) (Testis-specific poly(A)-binding protein)
Length = 631
Score = 32.3 bits (72), Expect = 0.83
Identities = 13/34 (38%), Positives = 23/34 (67%)
Frame = +2
Query: 464 TTSKIANADSMEAKQLLGEKIYPLVSKHAGDMAG 565
T S++A+A + KQ+LGE+++PL+ +AG
Sbjct: 541 TASRLASAPPQKQKQMLGERLFPLIQAMHPTLAG 574
>sp|O64380|PABP3_ARATH Polyadenylate-binding protein 3 (Poly(A)-binding protein 3) (PABP
3)
Length = 660
Score = 32.0 bits (71), Expect = 1.1
Identities = 12/27 (44%), Positives = 20/27 (74%)
Frame = +2
Query: 467 TSKIANADSMEAKQLLGEKIYPLVSKH 547
TS +A+A + ++LGE++YPLV +H
Sbjct: 576 TSSLASASPADRTRMLGEQLYPLVERH 602
>sp|Q02446|SP4_HUMAN Transcription factor Sp4 (SPR-1)
Length = 784
Score = 29.6 bits (65), Expect = 5.4
Identities = 19/73 (26%), Positives = 33/73 (45%), Gaps = 2/73 (2%)
Frame = +2
Query: 275 QNRNARPITGNVQLNQPRPQYNIVANGRQAGNMMYQYPIQDNQTMMNPDQ--MKMPDIES 448
+N N +P T Q +QP P + A + G Q +++P Q +++ +
Sbjct: 29 ENNNKKPKTSGSQDSQPSPLALLAATCSKIGTPGENQATGQQQIIIDPSQGLVQLQNQPQ 88
Query: 449 QIDLSTTSKIANA 487
Q++L TT NA
Sbjct: 89 QLELVTTQLAGNA 101
>sp|Q22366|RIM_CAEEL Rab-3 interacting molecule unc-10 (Rim) (Uncoordinated protein 10)
Length = 1563
Score = 29.6 bits (65), Expect = 5.4
Identities = 27/96 (28%), Positives = 33/96 (34%), Gaps = 12/96 (12%)
Frame = +2
Query: 173 QPRNIGMPANQNIMMAGMPQNQQRRNIIVDPIISQNRNARPITGNVQLNQPRPQYNIVAN 352
QPR +GM N N Q N P + N+N Q+ P N V N
Sbjct: 181 QPRGMGMQPNHNQTQQNFMNQNQNSN--QHPNQNHNQN--------QMQNPHQNQNHVQN 230
Query: 353 GRQAGN--------MMYQYPIQDNQ----TMMNPDQ 424
Q N M Q P+ NQ MN +Q
Sbjct: 231 NHQGANNHQQNNRRAMQQQPMSQNQANQINQMNQNQ 266
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: 67,566,245
Number of Sequences: 369166
Number of extensions: 1365229
Number of successful extensions: 3814
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 3706
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): 3813
length of database: 68,354,980
effective HSP length: 104
effective length of database: 49,142,540
effective search space used: 4078830820
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)