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= psy15752
(110 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 15/28 (53%), Positives = 24/28 (85%)
Query: 34 INKIDDILQRNKVPIIVGGTNYYIESLL 61
+N I+DI +R K+PI+VGGT+YY+++L
Sbjct: 81 MNAIEDIHRRGKIPIVVGGTHYYLQTLF 108
>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 = 38.1 bits (87), Expect = 0.001, Method: Composition-based stats.
Identities = 17/34 (50%), Positives = 24/34 (70%)
Query: 37 IDDILQRNKVPIIVGGTNYYIESLLWTILLDNKT 70
I DI +R KVPII GGT YI+SLL+ ++++
Sbjct: 89 IKDITRRGKVPIIAGGTGLYIQSLLYNYAFEDES 122
>pdb|3A8T|A Chain A, Plant Adenylate Isopentenyltransferase In Complex With Atp
Length = 339
Score = 30.8 bits (68), Expect = 0.20, Method: Composition-based stats.
Identities = 13/35 (37%), Positives = 24/35 (68%), Gaps = 2/35 (5%)
Query: 27 LQSYSGRINKIDDILQRNKVPIIVGGTNYYIESLL 61
+S +G+ + +I R K+P++VGG+N +I +LL
Sbjct: 115 FRSLAGK--AVSEITGRRKLPVLVGGSNSFIHALL 147
>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 = 30.0 bits (66), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 25/44 (56%), Gaps = 6/44 (13%)
Query: 24 KETLQSYSGR------INKIDDILQRNKVPIIVGGTNYYIESLL 61
++ Q+YS + ++ DI ++P++VGGT Y ++LL
Sbjct: 73 RDPSQAYSAADFRRDALAEMADITAAGRIPLLVGGTMLYFKALL 116
>pdb|1PX8|A Chain A, Crystal Structure Of Beta-D-Xylosidase From
Thermoanaerobacterium Saccharolyticum, A Family 39
Glycoside Hydrolase
pdb|1PX8|B Chain B, Crystal Structure Of Beta-D-Xylosidase From
Thermoanaerobacterium Saccharolyticum, A Family 39
Glycoside Hydrolase
pdb|1UHV|A Chain A, Crystal Structure Of Beta-D-Xylosidase From
Thermoanaerobacterium Saccharolyticum, A Family 39
Glycoside Hydrolase
pdb|1UHV|B Chain B, Crystal Structure Of Beta-D-Xylosidase From
Thermoanaerobacterium Saccharolyticum, A Family 39
Glycoside Hydrolase
pdb|1UHV|C Chain C, Crystal Structure Of Beta-D-Xylosidase From
Thermoanaerobacterium Saccharolyticum, A Family 39
Glycoside Hydrolase
pdb|1UHV|D Chain D, Crystal Structure Of Beta-D-Xylosidase From
Thermoanaerobacterium Saccharolyticum, A Family 39
Glycoside Hydrolase
Length = 500
Score = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 33/74 (44%), Gaps = 10/74 (13%)
Query: 18 WLDCWEKETLQSYSGRINKIDDILQRNKV--PIIVGGTNYYIESLLWTILLDN------- 68
W D EKE + Y I ++ + KV P I GG +Y+IE L +N
Sbjct: 167 WKDADEKEYFKLYKVTAKAIKEVNENLKVGGPAICGGADYWIEDFLNFCYEENVPVDFVS 226
Query: 69 -KTNINEQGEFTLY 81
++QGE+T +
Sbjct: 227 RHAYTSKQGEYTPH 240
>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 = 29.3 bits (64), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 24/44 (54%), Gaps = 6/44 (13%)
Query: 24 KETLQSYSGR------INKIDDILQRNKVPIIVGGTNYYIESLL 61
++ Q+YS + + DI ++P++VGGT Y ++LL
Sbjct: 73 RDPSQAYSAADFRRDALAEXADITAAGRIPLLVGGTXLYFKALL 116
>pdb|1P0K|A Chain A, Ipp:dmapp Isomerase Type Ii Apo Structure
pdb|1P0K|B Chain B, Ipp:dmapp Isomerase Type Ii Apo Structure
pdb|1P0N|A Chain A, Ipp:dmapp Isomerase Type Ii, Fmn Complex
pdb|1P0N|B Chain B, Ipp:dmapp Isomerase Type Ii, Fmn Complex
Length = 349
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 17/68 (25%), Positives = 30/68 (44%)
Query: 28 QSYSGRINKIDDILQRNKVPIIVGGTNYYIESLLWTILLDNKTNINEQGEFTLYDMDKIR 87
+S+SG + +I+ I R VP+IV + + L + + G + + KI
Sbjct: 161 RSFSGALKRIEQICSRVSVPVIVKEVGFGMSKASAGKLYEAGAAAVDIGGYGGTNFSKIE 220
Query: 88 NLEHGRDV 95
NL R +
Sbjct: 221 NLRRQRQI 228
>pdb|2QGN|A Chain A, Crystal Structure Of Trna Isopentenylpyrophosphate
Transferase (Bh2366) From Bacillus Halodurans, Northeast
Structural Genomics Consortium Target Bhr41.
pdb|3EXA|A Chain A, Crystal Structure Of The Full-Length Trna
Isopentenylpyrophosphate Transferase (Bh2366) From
Bacillus Halodurans, Northeast Structural Genomics
Consortium Target Bhr41.
pdb|3EXA|B Chain B, Crystal Structure Of The Full-Length Trna
Isopentenylpyrophosphate Transferase (Bh2366) From
Bacillus Halodurans, Northeast Structural Genomics
Consortium Target Bhr41.
pdb|3EXA|C Chain C, Crystal Structure Of The Full-Length Trna
Isopentenylpyrophosphate Transferase (Bh2366) From
Bacillus Halodurans, Northeast Structural Genomics
Consortium Target Bhr41.
pdb|3EXA|D Chain D, Crystal Structure Of The Full-Length Trna
Isopentenylpyrophosphate Transferase (Bh2366) From
Bacillus Halodurans, Northeast Structural Genomics
Consortium Target Bhr41
Length = 322
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 9/25 (36%), Positives = 18/25 (72%)
Query: 37 IDDILQRNKVPIIVGGTNYYIESLL 61
I +I +R ++P +VGGT Y+ +++
Sbjct: 85 ITEIHERGRLPFLVGGTGLYVNAVI 109
>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 = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 9/19 (47%), Positives = 15/19 (78%)
Query: 43 RNKVPIIVGGTNYYIESLL 61
R ++P++VGGT Y ++LL
Sbjct: 93 RGRIPLLVGGTMLYYKALL 111
>pdb|2GGO|A Chain A, Crystal Structure Of Glucose-1-Phosphate
Thymidylyltransferase From Sulfolobus Tokodaii
pdb|2GGQ|A Chain A, Complex Of Hypothetical Glucose-1-Phosphate
Thymidylyltransferase From Sulfolobus Tokodaii
Length = 401
Score = 26.2 bits (56), Expect = 5.2, Method: Composition-based stats.
Identities = 17/67 (25%), Positives = 36/67 (53%), Gaps = 4/67 (5%)
Query: 35 NKIDDILQRNKVPI--IVGGTNYYIESLLWTILLDNKTNINEQGEFTLYDMDKIRNLEHG 92
N + I+++ ++P ++ Y + S ++T L +K +I+E+GE L D + +H
Sbjct: 139 NNLSKIIEKPEIPPSNLINAGIYKLNSDIFTYL--DKISISERGELELTDAINLMAKDHR 196
Query: 93 RDVLEQQ 99
V+E +
Sbjct: 197 VKVIEYE 203
>pdb|1HXD|A Chain A, Crystal Structure Of E. Coli Biotin Repressor With Bound
Biotin
pdb|1HXD|B Chain B, Crystal Structure Of E. Coli Biotin Repressor With Bound
Biotin
pdb|2EWN|A Chain A, Ecoli Biotin Repressor With Co-repressor Analog
pdb|2EWN|B Chain B, Ecoli Biotin Repressor With Co-repressor Analog
pdb|1BIA|A Chain A, The E. Coli Biotin Holoenzyme Synthetase(Slash)bio
Repressor Crystal Structure Delineates The Biotin And
Dna- Binding Domains
pdb|1BIB|A Chain A, The E. Coli Biotin Holoenzyme Synthetase(Slash)bio
Repressor Crystal Structure Delineates The Biotin And
Dna- Binding Domains
Length = 321
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 15 MRSWLDCWEKETLQSYSGRINKIDDILQRNKVPIIVG 51
+R+ L+ +E+E L Y R K+D+ + R V +I+G
Sbjct: 246 LRAALELFEQEGLAPYLSRWEKLDNFINR-PVKLIIG 281
>pdb|1TMO|A Chain A, Trimethylamine N-Oxide Reductase From Shewanella Massilia
Length = 829
Score = 25.4 bits (54), Expect = 8.2, Method: Composition-based stats.
Identities = 12/47 (25%), Positives = 23/47 (48%), Gaps = 6/47 (12%)
Query: 46 VPIIVGGTNYYIESLLWTILLDNKTNINEQGEFTLYDMDKIRNLEHG 92
+P ++G T Y + W ++L++ I L+ D +NL+ G
Sbjct: 188 LPYVLGSTEVYAQGTSWPLILEHSDTI------VLWSNDPYKNLQVG 228
>pdb|3TP9|A Chain A, Crystal Structure Of Alicyclobacillus Acidocaldarius
Protein With Beta-Lactamase And Rhodanese Domains
pdb|3TP9|B Chain B, Crystal Structure Of Alicyclobacillus Acidocaldarius
Protein With Beta-Lactamase And Rhodanese Domains
Length = 474
Score = 25.4 bits (54), Expect = 8.6, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 25/50 (50%)
Query: 22 WEKETLQSYSGRINKIDDILQRNKVPIIVGGTNYYIESLLWTILLDNKTN 71
W+ E +++Y R+ K D L V I+V T + + +L D KT+
Sbjct: 89 WKSEYVKAYPHRLLKDGDELHFGNVRIVVXHTPGHTPEHVSYLLYDGKTS 138
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 0.138 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,524,058
Number of Sequences: 62578
Number of extensions: 133151
Number of successful extensions: 331
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 321
Number of HSP's gapped (non-prelim): 21
length of query: 110
length of database: 14,973,337
effective HSP length: 74
effective length of query: 36
effective length of database: 10,342,565
effective search space: 372332340
effective search space used: 372332340
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)