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= 047650
(75 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
pdb|3OZI|B Chain B, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
Length = 204
Score = 51.2 bits (121), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 42/75 (56%), Gaps = 4/75 (5%)
Query: 1 CLDELLKIVECKNRKNQN--FPTFNDVEPTIVRKQTTTFGEAFAKHEEFFKDNIKKVQNW 58
CL EL +IV + + P F V+P+ VR QT + +AF KH F + + +QNW
Sbjct: 107 CLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHANKF--DGQTIQNW 164
Query: 59 RQALKVVANISGWEL 73
+ ALK V ++ GW +
Sbjct: 165 KDALKKVGDLKGWHI 179
>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana
Length = 176
Score = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 40/71 (56%), Gaps = 3/71 (4%)
Query: 1 CLDELLKIVECKNRKNQN-FPTFNDVEPTIVRKQTTTFGEAFAKHEEFFKDNIKKVQNWR 59
CLDEL+ I++ + + + P F VEP VR QT E F KH +++ +KV WR
Sbjct: 80 CLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHAS--REDPEKVLKWR 137
Query: 60 QALKVVANISG 70
QAL A +SG
Sbjct: 138 QALTNFAQLSG 148
>pdb|3D9J|A Chain A, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9J|B Chain B, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9K|A Chain A, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9K|B Chain B, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9L|A Chain A, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9L|B Chain B, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9M|A Chain A, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9M|B Chain B, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9N|A Chain A, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9N|B Chain B, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
Length = 145
Score = 26.6 bits (57), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 26/55 (47%)
Query: 16 NQNFPTFNDVEPTIVRKQTTTFGEAFAKHEEFFKDNIKKVQNWRQALKVVANISG 70
N + ND +P I + + T +A K +F+K ++ V+ + Q K + G
Sbjct: 8 NSELYSLNDYKPPISKAKMTQITKAAIKAIKFYKHVVQSVEKFIQKCKPEYKVPG 62
>pdb|3D9P|A Chain A, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
pdb|3D9P|B Chain B, Snapshots Of The Rna Processing Factor Scaf8 Bound To
Different Phosphorylated Forms Of The Carboxy-Terminal
Domain Of Rna-Polymerase Ii
Length = 145
Score = 26.2 bits (56), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 26/55 (47%)
Query: 16 NQNFPTFNDVEPTIVRKQTTTFGEAFAKHEEFFKDNIKKVQNWRQALKVVANISG 70
N + ND +P I + + T +A K +F+K ++ V+ + Q K + G
Sbjct: 8 NSELYSLNDYKPPISKAKMTQITKAAIKAIKFYKHVVQSVEKFIQKCKPEYKVPG 62
>pdb|2DIW|A Chain A, Solution Structure Of The Rpr Domain Of Putative Rna-
Binding Protein 16
Length = 152
Score = 25.8 bits (55), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 26/55 (47%)
Query: 16 NQNFPTFNDVEPTIVRKQTTTFGEAFAKHEEFFKDNIKKVQNWRQALKVVANISG 70
N + ND +P I + + T +A K +F+K ++ V+ + Q K + G
Sbjct: 17 NSELYSLNDYKPPISKAKMTQITKAAIKAIKFYKHVVQSVEKFIQKCKPEYKVPG 71
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
0.320 0.135 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,274,852
Number of Sequences: 62578
Number of extensions: 74281
Number of successful extensions: 151
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 142
Number of HSP's gapped (non-prelim): 7
length of query: 75
length of database: 14,973,337
effective HSP length: 44
effective length of query: 31
effective length of database: 12,219,905
effective search space: 378817055
effective search space used: 378817055
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)