BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy1165
(461 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SBX|A Chain A, Crystal Structure Of The Dachshund-Homology Domain Of
Human Ski
Length = 106
Score = 142 bits (359), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 68/85 (80%), Positives = 76/85 (89%)
Query: 95 GETISCFVVGGEKRLCLPQILNSVLRDFSLPQINQVCDDLQIFCSRCNPEQLEILKLSGI 154
GETISCFVVGGEKRLCLPQILNSVLRDFSL QIN VCD+L I+CSRC +QLEILK+ GI
Sbjct: 21 GETISCFVVGGEKRLCLPQILNSVLRDFSLQQINAVCDELHIYCSRCTADQLEILKVXGI 80
Query: 155 LPLTAASCGLMTKTDAERLCSTLLH 179
LP +A SCGL+TKTDAERLC+ LL+
Sbjct: 81 LPFSAPSCGLITKTDAERLCNALLY 105
Score = 59.7 bits (143), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 37/93 (39%), Positives = 50/93 (53%), Gaps = 3/93 (3%)
Query: 251 CHWGFESVKWRSYLLAVEEQQNYDQCLK-ILQIFKEQHIETTTSGKRKQTHRLPCNPEQL 309
C E +++ E++ Q L +L+ F Q I R C +QL
Sbjct: 15 CETVLEGETISCFVVGGEKRLCLPQILNSVLRDFSLQQINAVCDELHIYCSR--CTADQL 72
Query: 310 EILKLSGILPLTAASCGLMTKTDAERLCSTLLH 342
EILK+ GILP +A SCGL+TKTDAERLC+ LL+
Sbjct: 73 EILKVXGILPFSAPSCGLITKTDAERLCNALLY 105
>pdb|3EQ5|A Chain A, Crystal Structure Of Fragment 137 To 238 Of The Human
Ski-Like Protein
pdb|3EQ5|B Chain B, Crystal Structure Of Fragment 137 To 238 Of The Human
Ski-Like Protein
pdb|3EQ5|C Chain C, Crystal Structure Of Fragment 137 To 238 Of The Human
Ski-Like Protein
pdb|3EQ5|D Chain D, Crystal Structure Of Fragment 137 To 238 Of The Human
Ski-Like Protein
pdb|3EQ5|E Chain E, Crystal Structure Of Fragment 137 To 238 Of The Human
Ski-Like Protein
pdb|3EQ5|F Chain F, Crystal Structure Of Fragment 137 To 238 Of The Human
Ski-Like Protein
pdb|3EQ5|G Chain G, Crystal Structure Of Fragment 137 To 238 Of The Human
Ski-Like Protein
pdb|3EQ5|H Chain H, Crystal Structure Of Fragment 137 To 238 Of The Human
Ski-Like Protein
pdb|3EQ5|I Chain I, Crystal Structure Of Fragment 137 To 238 Of The Human
Ski-Like Protein
pdb|3EQ5|J Chain J, Crystal Structure Of Fragment 137 To 238 Of The Human
Ski-Like Protein
pdb|3EQ5|K Chain K, Crystal Structure Of Fragment 137 To 238 Of The Human
Ski-Like Protein
pdb|3EQ5|L Chain L, Crystal Structure Of Fragment 137 To 238 Of The Human
Ski-Like Protein
Length = 125
Score = 128 bits (322), Expect = 6e-30, Method: Compositional matrix adjust.
Identities = 61/87 (70%), Positives = 72/87 (82%)
Query: 95 GETISCFVVGGEKRLCLPQILNSVLRDFSLPQINQVCDDLQIFCSRCNPEQLEILKLSGI 154
GE+ISCF VGGEKRLCLPQ+LNSVLR+F+L QIN VCD+L I+CSRC +QL ILK+ GI
Sbjct: 38 GESISCFQVGGEKRLCLPQVLNSVLREFTLQQINTVCDELYIYCSRCTSDQLHILKVLGI 97
Query: 155 LPLTAASCGLMTKTDAERLCSTLLHQR 181
LP A SCGL+T TDA+RLC+ LL R
Sbjct: 98 LPFNAPSCGLITLTDAQRLCNALLRPR 124
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 31/67 (46%), Positives = 38/67 (56%), Gaps = 2/67 (2%)
Query: 278 KILQIFKEQHIETTTSGKRKQTHRLPCNPEQLEILKLSGILPLTAASCGLMTKTDAERLC 337
+L+ F Q I T R C +QL ILK+ GILP A SCGL+T TDA+RLC
Sbjct: 60 SVLREFTLQQINTVCDELYIYCSR--CTSDQLHILKVLGILPFNAPSCGLITLTDAQRLC 117
Query: 338 STLLHQR 344
+ LL R
Sbjct: 118 NALLRPR 124
>pdb|1MR1|C Chain C, Crystal Structure Of A Smad4-Ski Complex
pdb|1MR1|D Chain D, Crystal Structure Of A Smad4-Ski Complex
Length = 99
Score = 101 bits (251), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 45/91 (49%), Positives = 60/91 (65%), Gaps = 6/91 (6%)
Query: 197 FKVYHECFGKCKGVCMPELFTDGESRCIQCLECHGFFSPQKFVCHVHLSSENRTCHWGFE 256
+VYHECFGKCKG+ +PEL++ + CIQCL+C + P KFV H H + ENRTCHWGF+
Sbjct: 4 MRVYHECFGKCKGLLVPELYSSPSAACIQCLDCRLMYPPHKFVVHSHKALENRTCHWGFD 63
Query: 257 SVKWRSYLL------AVEEQQNYDQCLKILQ 281
S WR+Y+L EEQ +CL ++
Sbjct: 64 SANWRAYILLSQDYTGKEEQARLGRCLDDVK 94
Score = 101 bits (251), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 45/91 (49%), Positives = 60/91 (65%), Gaps = 6/91 (6%)
Query: 360 FKVYHECFGKCKGVCMPELFTDGESRCIQCLECHGFFSPQKFVCHVHLSSENRTCHWGFE 419
+VYHECFGKCKG+ +PEL++ + CIQCL+C + P KFV H H + ENRTCHWGF+
Sbjct: 4 MRVYHECFGKCKGLLVPELYSSPSAACIQCLDCRLMYPPHKFVVHSHKALENRTCHWGFD 63
Query: 420 SVKWRSYLL------AVEEQQNYDQCLKILQ 444
S WR+Y+L EEQ +CL ++
Sbjct: 64 SANWRAYILLSQDYTGKEEQARLGRCLDDVK 94
>pdb|1L8R|A Chain A, Structure Of The Retinal Determination Protein Dachshund
Reveals A Dna-Binding Motif
pdb|1L8R|B Chain B, Structure Of The Retinal Determination Protein Dachshund
Reveals A Dna-Binding Motif
Length = 101
Score = 34.3 bits (77), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 2/81 (2%)
Query: 95 GETISCFVVGGEKRLCLPQILNSVLRDF--SLPQINQVCDDLQIFCSRCNPEQLEILKLS 152
G ++ F V G + +CLPQ + L+ L + L+I CN EQ+ IL+
Sbjct: 14 GAKVASFTVEGCELICLPQAFDLFLKHLVGGLHTVYTKLKRLEITPVVCNVEQVRILRGL 73
Query: 153 GILPLTAASCGLMTKTDAERL 173
G + C L+++ D E L
Sbjct: 74 GAIQPGVNRCKLISRKDFETL 94
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.323 0.137 0.437
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,686,768
Number of Sequences: 62578
Number of extensions: 503027
Number of successful extensions: 843
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 836
Number of HSP's gapped (non-prelim): 8
length of query: 461
length of database: 14,973,337
effective HSP length: 102
effective length of query: 359
effective length of database: 8,590,381
effective search space: 3083946779
effective search space used: 3083946779
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (25.0 bits)