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= 029297
(195 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 = 32.3 bits (72), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 24/38 (63%), Gaps = 2/38 (5%)
Query: 149 PPDASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLV 186
PP+ L++ LP ++ + ++ +F F G+KEVRLV
Sbjct: 6 PPN--QILFLTNLPEETNEMMLSMLFNQFPGFKEVRLV 41
>pdb|2U1A|A Chain A, Rna Binding Domain 2 Of Human U1a Protein, Nmr, 20
Structures
Length = 88
Score = 32.0 bits (71), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 5/50 (10%)
Query: 137 AAARPGHETLPLPPDASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLV 186
A A+P E PP+ L++ LP ++ + ++ +F F G+KEVRLV
Sbjct: 2 APAQPLSEN---PPN--HILFLTNLPEETNELMLSMLFNQFPGFKEVRLV 46
>pdb|2FHO|B Chain B, Nmr Solution Structure Of The Human Spliceosomal Protein
Complex P14-Sf3b155
Length = 87
Score = 30.8 bits (68), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 23/44 (52%)
Query: 142 GHETLPLPPDASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRL 185
G + LPP+ + LY+ LP T E+ IF + +++R+
Sbjct: 1 GRANIRLPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV 44
>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 = 30.8 bits (68), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 24/38 (63%), Gaps = 2/38 (5%)
Query: 149 PPDASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLV 186
PP+ L++ LP ++ + ++ +F F G+KEVRLV
Sbjct: 205 PPN--HILFLTNLPEETNELMLSMLFNQFPGFKEVRLV 240
>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 = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 22/41 (53%)
Query: 145 TLPLPPDASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRL 185
+ LPP+ + LY+ LP T E+ IF + +++R+
Sbjct: 10 NIRLPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV 50
>pdb|3LQV|A Chain A, Branch Recognition By Sf3b14
pdb|3LQV|B Chain B, Branch Recognition By Sf3b14
Length = 115
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 21/38 (55%)
Query: 148 LPPDASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRL 185
LPP+ + LY+ LP T E+ IF + +++R+
Sbjct: 3 LPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRV 40
>pdb|3EOQ|A Chain A, The Crystal Structure Of Putative Zinc Protease Beta-
Subunit From Thermus Thermophilus Hb8
pdb|3EOQ|B Chain B, The Crystal Structure Of Putative Zinc Protease Beta-
Subunit From Thermus Thermophilus Hb8
Length = 406
Score = 27.7 bits (60), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 58 DTSTIGSAYDRYLQSAQYSSFTSGEASAFSGDRL 91
D + A+DR AQY++FTS EA+ + G L
Sbjct: 60 DALAVNRAFDR--XGAQYNAFTSEEATVYYGAVL 91
>pdb|4ED5|A Chain A, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
pdb|4ED5|B Chain B, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
Length = 177
Score = 27.3 bits (59), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 33/69 (47%), Gaps = 8/69 (11%)
Query: 109 VTGRHGATGPDLVQNLRSSSIDDQLPFDAAARPGHETLPLPPDASSTLYVEGLPADSTKR 168
VT + + + LR S ++ + ARP E + DA+ LY+ GLP T++
Sbjct: 52 VTAKDAERAINTLNGLRLQSKTIKVSY---ARPSSEVIK---DAN--LYISGLPRTMTQK 103
Query: 169 EVAHIFRPF 177
+V +F F
Sbjct: 104 DVEDMFSRF 112
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 26.9 bits (58), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 33/69 (47%), Gaps = 8/69 (11%)
Query: 109 VTGRHGATGPDLVQNLRSSSIDDQLPFDAAARPGHETLPLPPDASSTLYVEGLPADSTKR 168
VT + + + LR S ++ + ARP E + DA+ LY+ GLP T++
Sbjct: 52 VTAKDAERAINTLNGLRLQSKTIKVSY---ARPSSEVIK---DAN--LYISGLPRTMTQK 103
Query: 169 EVAHIFRPF 177
+V +F F
Sbjct: 104 DVEDMFSRF 112
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 26.6 bits (57), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 152 ASSTLYVEGLPADSTKREVAHIFRPFVGYKEVRLV 186
+++ L+V P D + E+ IF PF KEV+++
Sbjct: 30 SNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL 64
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
0.314 0.133 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,132,361
Number of Sequences: 62578
Number of extensions: 248012
Number of successful extensions: 572
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 564
Number of HSP's gapped (non-prelim): 14
length of query: 195
length of database: 14,973,337
effective HSP length: 94
effective length of query: 101
effective length of database: 9,091,005
effective search space: 918191505
effective search space used: 918191505
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 49 (23.5 bits)