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= psy17228
(99 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3D3Q|A Chain A, Crystal Structure Of Trna
Delta(2)-Isopentenylpyrophosphate Transferase (Se0981)
From Staphylococcus Epidermidis. Northeast Structural
Genomics Consortium Target Ser100
pdb|3D3Q|B Chain B, Crystal Structure Of Trna
Delta(2)-Isopentenylpyrophosphate Transferase (Se0981)
From Staphylococcus Epidermidis. Northeast Structural
Genomics Consortium Target Ser100
Length = 340
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 23/32 (71%)
Query: 27 DILQRNKVPIIVGGTNYYIESLLWTILLDNKT 58
DI +R KVPII GGT YI+SLL+ ++++
Sbjct: 91 DITRRGKVPIIAGGTGLYIQSLLYNYAFEDES 122
>pdb|3EPH|A Chain A, Crystallographic Snapshots Of Eukaryotic
Dimethylallyltransferase Acting On Trna: Insight Into
Trna Recognition And Reaction Mechanism
pdb|3EPH|B Chain B, Crystallographic Snapshots Of Eukaryotic
Dimethylallyltransferase Acting On Trna: Insight Into
Trna Recognition And Reaction Mechanism
pdb|3EPJ|A Chain A, Crystallographic Snapshots Of Eukaryotic
Dimethylallyltransferase Acting On Trna: Insight Into
Trna Recognition And Reaction Mechanism
pdb|3EPJ|B Chain B, Crystallographic Snapshots Of Eukaryotic
Dimethylallyltransferase Acting On Trna: Insight Into
Trna Recognition And Reaction Mechanism
pdb|3EPK|A Chain A, Crystallographic Snapshots Of Eukaryotic
Dimethylallyltransferase Acting On Trna: Insight Into
Trna Recognition And Reaction Mechanism
pdb|3EPK|B Chain B, Crystallographic Snapshots Of Eukaryotic
Dimethylallyltransferase Acting On Trna: Insight Into
Trna Recognition And Reaction Mechanism
pdb|3EPL|A Chain A, Crystallographic Snapshots Of Eukaryotic
Dimethylallyltransferase Acting On Trna: Insight Into
Trna Recognition And Reaction Mechanism
pdb|3EPL|B Chain B, Crystallographic Snapshots Of Eukaryotic
Dimethylallyltransferase Acting On Trna: Insight Into
Trna Recognition And Reaction Mechanism
Length = 409
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 21/24 (87%)
Query: 26 DDILQRNKVPIIVGGTNYYIESLL 49
+DI +R K+PI+VGGT+YY+++L
Sbjct: 85 EDIHRRGKIPIVVGGTHYYLQTLF 108
>pdb|3A8T|A Chain A, Plant Adenylate Isopentenyltransferase In Complex With Atp
Length = 339
Score = 30.0 bits (66), Expect = 0.37, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 18/23 (78%)
Query: 27 DILQRNKVPIIVGGTNYYIESLL 49
+I R K+P++VGG+N +I +LL
Sbjct: 125 EITGRRKLPVLVGGSNSFIHALL 147
>pdb|2ZM5|A Chain A, Crystal Structure Of Trna Modification Enzyme Miaa In The
Complex With Trna(Phe)
pdb|2ZM5|B Chain B, Crystal Structure Of Trna Modification Enzyme Miaa In The
Complex With Trna(Phe)
Length = 316
Score = 27.3 bits (59), Expect = 2.1, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 27 DILQRNKVPIIVGGTNYYIESLL 49
DI ++P++VGGT Y ++LL
Sbjct: 94 DITAAGRIPLLVGGTXLYFKALL 116
>pdb|3FOZ|A Chain A, Structure Of E. Coli Isopentenyl-Trna Transferase In
Complex With E. Coli Trna(Phe)
pdb|3FOZ|B Chain B, Structure Of E. Coli Isopentenyl-Trna Transferase In
Complex With E. Coli Trna(Phe)
pdb|2ZXU|A Chain A, Crystal Structure Of Trna Modification Enzyme Miaa In The
Complex With Trna(Phe) And Dmaspp
pdb|2ZXU|B Chain B, Crystal Structure Of Trna Modification Enzyme Miaa In The
Complex With Trna(Phe) And Dmaspp
Length = 316
Score = 26.9 bits (58), Expect = 2.8, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 27 DILQRNKVPIIVGGTNYYIESLL 49
DI ++P++VGGT Y ++LL
Sbjct: 94 DITAAGRIPLLVGGTMLYFKALL 116
>pdb|3CRM|A Chain A, Structure Of Trna Dimethylallyltransferase: Rna
Modification Through A Channel
pdb|3CRQ|A Chain A, Structure Of Trna Dimethylallyltransferase: Rna
Modification Through A Channel
pdb|3CRR|A Chain A, Structure Of Trna Dimethylallyltransferase: Rna
Modification Through A Channel
Length = 323
Score = 26.2 bits (56), Expect = 5.1, Method: Composition-based stats.
Identities = 9/19 (47%), Positives = 15/19 (78%)
Query: 31 RNKVPIIVGGTNYYIESLL 49
R ++P++VGGT Y ++LL
Sbjct: 93 RGRIPLLVGGTMLYYKALL 111
>pdb|1TMO|A Chain A, Trimethylamine N-Oxide Reductase From Shewanella Massilia
Length = 829
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 12/47 (25%), Positives = 23/47 (48%), Gaps = 6/47 (12%)
Query: 34 VPIIVGGTNYYIESLLWTILLDNKTNINDQGEFTLYDMDKIRNLEHG 80
+P ++G T Y + W ++L++ I L+ D +NL+ G
Sbjct: 188 LPYVLGSTEVYAQGTSWPLILEHSDTI------VLWSNDPYKNLQVG 228
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 0.141 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,482,097
Number of Sequences: 62578
Number of extensions: 86937
Number of successful extensions: 179
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 172
Number of HSP's gapped (non-prelim): 11
length of query: 99
length of database: 14,973,337
effective HSP length: 65
effective length of query: 34
effective length of database: 10,905,767
effective search space: 370796078
effective search space used: 370796078
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)