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= 040456
(146 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3HI9|A Chain A, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|B Chain B, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|C Chain C, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|D Chain D, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
Length = 84
Score = 30.0 bits (66), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%)
Query: 39 EYDFLYLPMDFCHGANLGYAFVNFTTSVAAVRFAKAFNKSRWEAQWLEF 87
E + L D G +LGY FVN+ T+ A R N R +++ ++
Sbjct: 30 EVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKV 78
>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 = 30.0 bits (66), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%)
Query: 39 EYDFLYLPMDFCHGANLGYAFVNFTTSVAAVRFAKAFNKSRWEAQWLE 86
E + L D G +LGY FVN+ T+ A R N R +++ ++
Sbjct: 28 EVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIK 75
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs
Of Human Antigen R
Length = 177
Score = 30.0 bits (66), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%)
Query: 39 EYDFLYLPMDFCHGANLGYAFVNFTTSVAAVRFAKAFNKSRWEAQWLE 86
E + L D G +LGY FVN+ T+ A R N R +++ ++
Sbjct: 28 EVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIK 75
>pdb|2P3J|A Chain A, Crystal Structure Of The Arg101ala Mutant Protein Of
Rhesus Rotavirus Vp8
Length = 161
Score = 30.0 bits (66), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 14/31 (45%)
Query: 116 YLPVILAPPRDGWMRTRPTIVGRSCDGMNHV 146
Y P PP D WM PT G +G N+
Sbjct: 6 YQPTTFNPPVDYWMLLAPTAAGVVVEGTNNT 36
>pdb|2P3I|A Chain A, Crystal Structure Of Rhesus Rotavirus Vp8 At 295k
pdb|2P3K|A Chain A, Crystal Structure Of Rhesus Rotavirus Vp8* At 100k
pdb|3TB0|A Chain A, Crystal Structure Of Rhesus Rotavirus Vp8 In Complex With
N- Glycolylneuraminic Acid
Length = 161
Score = 29.6 bits (65), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 14/31 (45%)
Query: 116 YLPVILAPPRDGWMRTRPTIVGRSCDGMNHV 146
Y P PP D WM PT G +G N+
Sbjct: 6 YQPTTFNPPVDYWMLLAPTAAGVVVEGTNNT 36
>pdb|3IYU|X Chain X, Atomic Model Of An Infectious Rotavirus Particle
pdb|3IYU|Y Chain Y, Atomic Model Of An Infectious Rotavirus Particle
pdb|3IYU|Z Chain Z, Atomic Model Of An Infectious Rotavirus Particle
Length = 776
Score = 29.6 bits (65), Expect = 0.60, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 14/30 (46%)
Query: 116 YLPVILAPPRDGWMRTRPTIVGRSCDGMNH 145
Y P PP D WM PT G +G N+
Sbjct: 69 YQPTTFNPPVDYWMLLAPTAAGVVVEGTNN 98
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1)
From Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 29.6 bits (65), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%)
Query: 39 EYDFLYLPMDFCHGANLGYAFVNFTTSVAAVRFAKAFNKSRWEAQWLE 86
E + L D G +LGY FVN+ T+ A R N R +++ ++
Sbjct: 45 EVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIK 92
>pdb|1KQR|A Chain A, Crystal Structure Of The Rhesus Rotavirus Vp4 Sialic Acid
Binding Domain In Complex With
2-o-methyl-alpha-d-n-acetyl Neuraminic Acid
Length = 179
Score = 29.6 bits (65), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 14/31 (45%)
Query: 116 YLPVILAPPRDGWMRTRPTIVGRSCDGMNHV 146
Y P PP D WM PT G +G N+
Sbjct: 24 YQPTTFNPPVDYWMLLAPTAAGVVVEGTNNT 54
>pdb|1KRI|A Chain A, Nmr Solution Structures Of The Rhesus Rotavirus Vp4 Sialic
Acid Binding Domain Without Ligand
Length = 186
Score = 29.3 bits (64), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 14/31 (45%)
Query: 116 YLPVILAPPRDGWMRTRPTIVGRSCDGMNHV 146
Y P PP D WM PT G +G N+
Sbjct: 24 YQPTTFNPPVDYWMLLAPTAAGVVVEGTNNT 54
>pdb|4DRR|A Chain A, Cell Attachment Protein Vp8 Of A Human Rotavirus
Specifically Interacts With A-Type Histo-Blood Group
Antigen
pdb|4DRV|A Chain A, Cell Attachment Protein Vp8 Of A Human Rotavirus
Specifically Interacts With A-Type Histo-Blood Group
Antigen
pdb|4DS0|A Chain A, Cell Attachment Protein Vp8 Of A Human Rotavirus
Specifically Interacts With A-Type Histo-Blood Group
Antigen
Length = 163
Score = 29.3 bits (64), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 14/29 (48%)
Query: 116 YLPVILAPPRDGWMRTRPTIVGRSCDGMN 144
Y P P D WM PT +GR +G N
Sbjct: 8 YQPTTFNLPIDYWMLIAPTQIGRVAEGTN 36
>pdb|3SXL|A Chain A, Sex-Lethal Rna Recognition Domains 1 And 2 From
Drosophila Melanogaster
pdb|3SXL|B Chain B, Sex-Lethal Rna Recognition Domains 1 And 2 From
Drosophila Melanogaster
pdb|3SXL|C Chain C, Sex-Lethal Rna Recognition Domains 1 And 2 From
Drosophila Melanogaster
Length = 184
Score = 28.9 bits (63), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 48 DFCHGANLGYAFVNFTTSVAAVRFAKAFN 76
D+ G + GYAFV+FT+ + R K N
Sbjct: 49 DYKTGYSFGYAFVDFTSEXDSQRAIKVLN 77
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 48 DFCHGANLGYAFVNFTTSVAAVRFAKAFN 76
D+ G + GYAFV+FT+ + + R K N
Sbjct: 38 DYKTGYSYGYAFVDFTSEMDSQRAIKVLN 66
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 48 DFCHGANLGYAFVNFTTSVAAVRFAKAFN 76
D+ G + GYAFV+FT+ + + R K N
Sbjct: 38 DYKTGYSYGYAFVDFTSEMDSQRAIKVLN 66
>pdb|2I2S|A Chain A, Crystal Structure Of The Porcine Crw-8 Rotavirus Vp8
Carbohydrate- Recognising Domain
pdb|2I2S|B Chain B, Crystal Structure Of The Porcine Crw-8 Rotavirus Vp8
Carbohydrate- Recognising Domain
pdb|3TAY|A Chain A, Crystal Structure Of Porcine Rotavirus Crw-8 Vp8 In
Complex With N- Glycolylneuraminic Acid
pdb|3TAY|B Chain B, Crystal Structure Of Porcine Rotavirus Crw-8 Vp8 In
Complex With N- Glycolylneuraminic Acid
Length = 163
Score = 27.3 bits (59), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 14/31 (45%)
Query: 116 YLPVILAPPRDGWMRTRPTIVGRSCDGMNHV 146
Y P PP W+ PT+ G G N++
Sbjct: 8 YQPTTFNPPTSYWILLAPTVEGVVIQGTNNI 38
>pdb|3SIS|A Chain A, Crystal Structure Of Porcine Crw-8 Rotavirus Vp8 In
Complex With Aceramido-Gm3_gc
pdb|3SIS|B Chain B, Crystal Structure Of Porcine Crw-8 Rotavirus Vp8 In
Complex With Aceramido-Gm3_gc
pdb|3SIT|A Chain A, Crystal Structure Of Porcine Crw-8 Rotavirus Vp8 In
Complex With Aceramido-Gm3
pdb|3SIT|B Chain B, Crystal Structure Of Porcine Crw-8 Rotavirus Vp8 In
Complex With Aceramido-Gm3
Length = 163
Score = 26.9 bits (58), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 14/31 (45%)
Query: 116 YLPVILAPPRDGWMRTRPTIVGRSCDGMNHV 146
Y P PP W+ PT+ G G N++
Sbjct: 8 YQPTTFNPPTSYWILLAPTVEGVVIQGTNNI 38
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
0.327 0.138 0.473
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,661,944
Number of Sequences: 62578
Number of extensions: 175816
Number of successful extensions: 546
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: 531
Number of HSP's gapped (non-prelim): 15
length of query: 146
length of database: 14,973,337
effective HSP length: 90
effective length of query: 56
effective length of database: 9,341,317
effective search space: 523113752
effective search space used: 523113752
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 46 (22.3 bits)