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= 030341
(179 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2B0G|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd2
pdb|2AYM|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd2
Length = 83
Score = 34.3 bits (77), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 4/44 (9%)
Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSKESRH 171
PP+ LF+ LP + + ++ +F F G+KEVRLV +RH
Sbjct: 6 PPN--QILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVP--NRH 45
>pdb|2U1A|A Chain A, Rna Binding Domain 2 Of Human U1a Protein, Nmr, 20
Structures
Length = 88
Score = 33.5 bits (75), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV 165
PP+ LF+ LP + + ++ +F F G+KEVRLV
Sbjct: 11 PPN--HILFLTNLPEETNELMLSMLFNQFPGFKEVRLV 46
>pdb|3PGW|A Chain A, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|P Chain P, Crystal Structure Of Human U1 Snrnp
Length = 282
Score = 33.1 bits (74), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 128 PPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV 165
PP+ LF+ LP + + ++ +F F G+KEVRLV
Sbjct: 205 PPN--HILFLTNLPEETNELMLSMLFNQFPGFKEVRLV 240
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 32.0 bits (71), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 20/32 (62%)
Query: 135 LFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS 166
LF+ GLP C++ E+ I + K++RLV+
Sbjct: 20 LFISGLPFSCTKEELEEICKAHGTVKDLRLVT 51
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 31.2 bits (69), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 25/44 (56%)
Query: 121 GRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRL 164
GR+ + LPP+ + L++ LP + E+ IF + +++R+
Sbjct: 1 GRANIRLPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV 44
>pdb|2F9D|A Chain A, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
pdb|2F9D|B Chain B, 2.5 Angstrom Resolution Structure Of The Spliceosomal
Protein P14 Bound To Region Of Sf3b155
Length = 125
Score = 29.6 bits (65), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 11/46 (23%), Positives = 24/46 (52%)
Query: 119 GGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRL 164
R+ + LPP+ + L++ LP + E+ IF + +++R+
Sbjct: 5 AAKRANIRLPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV 50
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 21/36 (58%)
Query: 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS 166
+++ LFV P D E+ IF PF KEV++++
Sbjct: 30 SNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN 65
>pdb|2CPH|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
Of Hypothetical Rna-Binding Protein Rbm19
Length = 107
Score = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 117 GLGGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVSK 167
G G +VP +S + V +P ++RE+ +F F K VRL K
Sbjct: 1 GSSGSSGQVP-KKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKK 50
>pdb|2F9J|A Chain A, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
pdb|2F9J|B Chain B, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The
Spliceosomal Protein P14 Bound To A Region Of Sf3b155
Length = 125
Score = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 11/46 (23%), Positives = 23/46 (50%)
Query: 119 GGGRSEVPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRL 164
R+ + LPP+ + L + LP + E+ IF + +++R+
Sbjct: 5 AAKRANIRLPPEVNRILMIRNLPYKITAEEMYDIFGKYGPIRQIRV 50
>pdb|2OSQ|A Chain A, Nmr Structure Of Rrm-1 Of Yeast Npl3 Protein
Length = 74
Score = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 21/36 (58%)
Query: 131 ASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRLVS 166
+++ LFV P D E+ IF PF KEV++++
Sbjct: 3 SNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN 38
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 26.9 bits (58), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 10/40 (25%), Positives = 22/40 (55%)
Query: 125 VPLPPDASSTLFVEGLPSDCSRREVAHIFRPFVGYKEVRL 164
+ LPP+ + L++ LP + E+ IF + +++R+
Sbjct: 1 IRLPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV 40
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 26.6 bits (57), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 10/33 (30%), Positives = 18/33 (54%)
Query: 133 STLFVEGLPSDCSRREVAHIFRPFVGYKEVRLV 165
+ +FV G+P +C E+ F+ F EV ++
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMI 43
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
0.317 0.136 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,778,068
Number of Sequences: 62578
Number of extensions: 249356
Number of successful extensions: 431
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 416
Number of HSP's gapped (non-prelim): 15
length of query: 179
length of database: 14,973,337
effective HSP length: 93
effective length of query: 86
effective length of database: 9,153,583
effective search space: 787208138
effective search space used: 787208138
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 48 (23.1 bits)