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_012_B06
(549 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q99020|ROAA_MOUSE Heterogeneous nuclear ribonucleoprotei... 47 2e-05
sp|Q99729|ROAA_HUMAN Heterogeneous nuclear ribonucleoprotei... 46 7e-05
sp|Q08473|SQD_DROME RNA-binding protein squid (Heterogeneou... 45 2e-04
sp|Q14103|HNRPD_HUMAN Heterogeneous nuclear ribonucleoprote... 42 0.001
sp|P17132|HNRPC_RAT Heterogeneous nuclear ribonucleoprotein... 42 0.001
sp|Q9JJ54|HNRPD_RAT Heterogeneous nuclear ribonucleoprotein... 42 0.001
sp|Q60668|HNRPD_MOUSE Heterogeneous nuclear ribonucleoprote... 42 0.001
sp|P09867|ROA1_BOVIN Heterogeneous nuclear ribonucleoprotei... 37 0.041
sp|Q22037|ROA1_CAEEL Heterogeneous nuclear ribonucleoprotei... 37 0.041
sp|P49312|ROA1_MOUSE Heterogeneous nuclear ribonucleoprotei... 37 0.041
>sp|Q99020|ROAA_MOUSE Heterogeneous nuclear ribonucleoprotein A/B (hnRNP A/B)
(CArG-binding factor-A) (CBF-A)
Length = 285
Score = 47.4 bits (111), Expect = 2e-05
Identities = 19/52 (36%), Positives = 33/52 (63%)
Frame = +2
Query: 2 SVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEKQDVLGSKCDVRMAVPKD 157
+++LP D KR+ +VF++F ED K + + V GSKC++++A PK+
Sbjct: 187 AIELPIDPKLNKRRGFVFITFKEEDPVKKVLEKKFHTVSGSKCEIKVAQPKE 238
>sp|Q99729|ROAA_HUMAN Heterogeneous nuclear ribonucleoprotein A/B (hnRNP A/B) (APOBEC-1
binding protein 1) (ABBP-1)
Length = 331
Score = 45.8 bits (107), Expect = 7e-05
Identities = 18/52 (34%), Positives = 33/52 (63%)
Frame = +2
Query: 2 SVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEKQDVLGSKCDVRMAVPKD 157
+++LP D KR+ +VF++F E+ K + + V GSKC++++A PK+
Sbjct: 181 AIELPMDPKLNKRRGFVFITFKEEEPVKKVLEKKFHTVSGSKCEIKVAQPKE 232
>sp|Q08473|SQD_DROME RNA-binding protein squid (Heterogeneous nuclear ribonucleoprotein
40) (HNRNP 40)
Length = 344
Score = 44.7 bits (104), Expect = 2e-04
Identities = 18/52 (34%), Positives = 31/52 (59%)
Frame = +2
Query: 5 VDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEKQDVLGSKCDVRMAVPKDQ 160
V++PFD K +RK + F++F +E + + KQ + G + DV+ A PK +
Sbjct: 165 VEMPFDKQKSQRKGFCFITFDSEQVVTDLLKTPKQKIAGKEVDVKRATPKPE 216
>sp|Q14103|HNRPD_HUMAN Heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) (AU-rich
element RNA-binding protein 1)
Length = 355
Score = 42.0 bits (97), Expect = 0.001
Identities = 17/58 (29%), Positives = 35/58 (60%)
Frame = +2
Query: 2 SVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEKQDVLGSKCDVRMAVPKDQVNKNK 175
S++LP D KR+ + F++F E+ K + + +V SKC++++A+ K+Q + +
Sbjct: 210 SIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKVAMSKEQYQQQQ 267
>sp|P17132|HNRPC_RAT Heterogeneous nuclear ribonucleoprotein C (hnRNP C) (hnRNP core
protein C)
Length = 158
Score = 42.0 bits (97), Expect = 0.001
Identities = 17/58 (29%), Positives = 35/58 (60%)
Frame = +2
Query: 2 SVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEKQDVLGSKCDVRMAVPKDQVNKNK 175
S++LP D KR+ + F++F E+ K + + +V SKC++++A+ K+Q + +
Sbjct: 62 SIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKVAMSKEQYQQQQ 119
>sp|Q9JJ54|HNRPD_RAT Heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) (AU-rich
element RNA-binding protein 1)
Length = 353
Score = 42.0 bits (97), Expect = 0.001
Identities = 17/58 (29%), Positives = 35/58 (60%)
Frame = +2
Query: 2 SVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEKQDVLGSKCDVRMAVPKDQVNKNK 175
S++LP D KR+ + F++F E+ K + + +V SKC++++A+ K+Q + +
Sbjct: 208 SIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKVAMSKEQYQQQQ 265
>sp|Q60668|HNRPD_MOUSE Heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) (AU-rich
element RNA-binding protein 1)
Length = 355
Score = 42.0 bits (97), Expect = 0.001
Identities = 17/58 (29%), Positives = 35/58 (60%)
Frame = +2
Query: 2 SVDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEKQDVLGSKCDVRMAVPKDQVNKNK 175
S++LP D KR+ + F++F E+ K + + +V SKC++++A+ K+Q + +
Sbjct: 210 SIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKVAMSKEQYQQQQ 267
>sp|P09867|ROA1_BOVIN Heterogeneous nuclear ribonucleoprotein A1 (Helix-destabilizing
protein) (Single-strand binding protein) (hnRNP core
protein A1) (Unwinding protein 1) (UP1)
Length = 195
Score = 36.6 bits (83), Expect = 0.041
Identities = 14/53 (26%), Positives = 29/53 (54%)
Frame = +2
Query: 5 VDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEKQDVLGSKCDVRMAVPKDQV 163
+++ D GK++ + F++F D+ +I + V G C+VR A+ K ++
Sbjct: 133 IEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKALSKQEM 185
>sp|Q22037|ROA1_CAEEL Heterogeneous nuclear ribonucleoprotein A1
Length = 346
Score = 36.6 bits (83), Expect = 0.041
Identities = 15/57 (26%), Positives = 32/57 (56%)
Frame = +2
Query: 8 DLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEKQDVLGSKCDVRMAVPKDQVNKNKM 178
++ D + K + + F++F D+ ++ + V G +CDVR + KD+++K +M
Sbjct: 144 EIILDKATQKPRGFGFVTFDDHDSVDQCVLQKSHMVNGHRCDVRKGLSKDEMSKAQM 200
>sp|P49312|ROA1_MOUSE Heterogeneous nuclear ribonucleoprotein A1 (Helix-destabilizing
protein) (Single-strand binding protein) (hnRNP core
protein A1) (HDP-1) (Topoisomerase-inhibitor suppressed)
Length = 320
Score = 36.6 bits (83), Expect = 0.041
Identities = 14/53 (26%), Positives = 29/53 (54%)
Frame = +2
Query: 5 VDLPFDTSKGKRKPYVFLSFTTEDAAKNAIINEKQDVLGSKCDVRMAVPKDQV 163
+++ D GK++ + F++F D+ +I + V G C+VR A+ K ++
Sbjct: 134 IEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKALSKQEM 186
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: 53,146,171
Number of Sequences: 369166
Number of extensions: 895217
Number of successful extensions: 1981
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 1943
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): 1978
length of database: 68,354,980
effective HSP length: 104
effective length of database: 49,142,540
effective search space used: 3833118120
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)