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= psy15650
(211 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3U5C|I Chain I, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|I Chain I, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 200
Score = 119 bits (299), Expect = 8e-28, Method: Compositional matrix adjust.
Identities = 73/171 (42%), Positives = 89/171 (52%), Gaps = 47/171 (27%)
Query: 2 TRGGNKKYRALRIDQGNFSWGSECCTRKTRIIDVVYNASNNELVRTKTLVKNAIVVIDAT 61
TRGGNKKYRALRI+ GNFSW SE ++KTRI VVY+ SNNELVRT TL K AIV IDAT
Sbjct: 48 TRGGNKKYRALRIETGNFSWASEGISKKTRIAGVVYHPSNNELVRTNTLTKAAIVQIDAT 107
Query: 62 PFRQWYETYYALPIGRRKTGKLDVQQLTPSLDPEEYTLYVPVVVTRSTELSVLTRAISHG 121
PFRQW+E +Y +G++K K EE T V +++ E RA S
Sbjct: 108 PFRQWFEAHYGQTLGKKKNVK------------EEET----VAKSKNAERKWAARAAS-- 149
Query: 122 DLNTEAEEAVLNXXXXXXXXXXXXXXXXHAKVEQAIEEQFQTGRILVSILS 172
AK+E ++E QF GR+ I S
Sbjct: 150 -----------------------------AKIESSVESQFSAGRLYACISS 171
>pdb|2XZM|2 Chain 2, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 1
pdb|2XZN|2 Chain 2, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 2
Length = 208
Score = 118 bits (296), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 52/77 (67%), Positives = 67/77 (87%)
Query: 3 RGGNKKYRALRIDQGNFSWGSECCTRKTRIIDVVYNASNNELVRTKTLVKNAIVVIDATP 62
RGG+ K+RALR+ +GNFSWGSE TRKT+I+DV YNA+NNELVRTKTLVKN+IV ID+TP
Sbjct: 57 RGGHLKFRALRLCEGNFSWGSENITRKTKILDVKYNATNNELVRTKTLVKNSIVEIDSTP 116
Query: 63 FRQWYETYYALPIGRRK 79
FR+WY+ +Y + +G +K
Sbjct: 117 FREWYKLHYGIDLGLKK 133
>pdb|3ZEY|5 Chain 5, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 220
Score = 112 bits (281), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 49/81 (60%), Positives = 62/81 (76%)
Query: 2 TRGGNKKYRALRIDQGNFSWGSECCTRKTRIIDVVYNASNNELVRTKTLVKNAIVVIDAT 61
RGGN K R LR+D GNF+WG+E ++ RI+DVVYNA++NELVRTKTLVKN IVV+DA
Sbjct: 48 ARGGNFKLRGLRLDTGNFAWGTEASAQRARILDVVYNATSNELVRTKTLVKNCIVVVDAA 107
Query: 62 PFRQWYETYYALPIGRRKTGK 82
PFR WY +Y + +G K+ K
Sbjct: 108 PFRLWYAKHYGIDLGASKSKK 128
>pdb|1QCA|A Chain A, Quadruple Mutant Q92c, N146f, Y168f, I172v Type Iii Cat
Complexed With Fusidic Acid. Crystals Grown At Ph 6.3.
X-Ray Data Collected At Room Temperature
Length = 213
Score = 31.6 bits (70), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 64 RQWYETY-YALPIGRRKTGKLDVQQLTPSLDPEEYTLYVPVVV 105
R+ +E Y + LP G T K+D+ L SLD Y Y PV++
Sbjct: 14 REHFEFYRHRLPCGFSLTSKIDITTLKKSLDDSAYKFY-PVMI 55
>pdb|2CLA|A Chain A, Crystal Structure Of The Asp-199-Asn Mutant Of
Chloramphenicol Acetyltransferase To 2.35 Angstroms
Resolution. Structural Consequences Of Disruption Of A
Buried Salt-Bridge
Length = 213
Score = 31.2 bits (69), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 64 RQWYETY-YALPIGRRKTGKLDVQQLTPSLDPEEYTLYVPVVV 105
R+ +E Y + LP G T K+D+ L SLD Y Y PV++
Sbjct: 14 REHFEFYRHRLPCGFSLTSKIDITTLKKSLDDSAYKFY-PVMI 55
>pdb|4CLA|A Chain A, Alternative Binding Modes For Chloramphenicol And
1-substituted Chloramphenicol Analogues Revealed By
Site-directed Mutagenesis And X-ray Crystallography Of
Chloramphenicol Acetyltransferase
Length = 213
Score = 31.2 bits (69), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 64 RQWYETY-YALPIGRRKTGKLDVQQLTPSLDPEEYTLYVPVVV 105
R+ +E Y + LP G T K+D+ L SLD Y Y PV++
Sbjct: 14 REHFEFYRHRLPCGFSLTSKIDITTLKKSLDDSAYKFY-PVMI 55
>pdb|1CLA|A Chain A, Evidence For Transition-State Stabilization By Serine-148
In The Catalytic Mechanism Of Chloramphenicol
Acetyltransferase
Length = 213
Score = 31.2 bits (69), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 64 RQWYETY-YALPIGRRKTGKLDVQQLTPSLDPEEYTLYVPVVV 105
R+ +E Y + LP G T K+D+ L SLD Y Y PV++
Sbjct: 14 REHFEFYRHRLPCGFSLTSKIDITTLKKSLDDSAYKFY-PVMI 55
>pdb|3CLA|A Chain A, Refined Crystal Structure Of Type Iii Chloramphenicol
Acetyltransferase At 1.75 Angstroms Resolution
Length = 213
Score = 31.2 bits (69), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 64 RQWYETY-YALPIGRRKTGKLDVQQLTPSLDPEEYTLYVPVVV 105
R+ +E Y + LP G T K+D+ L SLD Y Y PV++
Sbjct: 14 REHFEFYRHRLPCGFSLTSKIDITTLKKSLDDSAYKFY-PVMI 55
>pdb|1CIA|A Chain A, Replacement Of Catalytic Histidine-195 Of Chloramphenicol
Acetyltransferase: Evidence For A General Base Role For
Glutamate
Length = 213
Score = 31.2 bits (69), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 64 RQWYETY-YALPIGRRKTGKLDVQQLTPSLDPEEYTLYVPVVV 105
R+ +E Y + LP G T K+D+ L SLD Y Y PV++
Sbjct: 14 REHFEFYRHRLPCGFSLTSKIDITTLKKSLDDSAYKFY-PVMI 55
>pdb|3J20|J Chain J, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (30s Ribosomal Subunit)
Length = 127
Score = 30.4 bits (67), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 1/55 (1%)
Query: 2 TRGGNKKYRALRIDQGNFSWGSECCTRKTRIIDVVYNASNNELVRTKTLVKNAIV 56
T GGN+K R N + RK RII V+ N +N + R + K AI+
Sbjct: 48 TYGGNRKVRLTAAAYANV-FDKSGKGRKVRIIRVIENPANRQFARRNIITKGAII 101
>pdb|2YO0|A Chain A, Salmonella Enterica Sada 1049-1304 Fused To Gcn4
Adaptors (Sadak9-Cfi)
pdb|2YO1|A Chain A, Salmonella Enterica Sada 1049-1304 Fused To Gcn4
Adaptors (Sadak9-Cfii)
pdb|2YO1|B Chain B, Salmonella Enterica Sada 1049-1304 Fused To Gcn4
Adaptors (Sadak9-Cfii)
pdb|2YO1|C Chain C, Salmonella Enterica Sada 1049-1304 Fused To Gcn4
Adaptors (Sadak9-Cfii)
Length = 322
Score = 27.7 bits (60), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 42 NELVRTKTLVKNAIVVIDATPFRQWY 67
NE+ R K L++NAI + TP + ++
Sbjct: 20 NEIARIKKLIQNAIGAVTTTPTKYYH 45
>pdb|2EL7|A Chain A, Crystal Structure Of Tryptophanyl-Trna Synthetase From
Thermus Thermophilus
pdb|2EL7|B Chain B, Crystal Structure Of Tryptophanyl-Trna Synthetase From
Thermus Thermophilus
Length = 337
Score = 27.3 bits (59), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 91 SLDPEEYTLYVPVVVTRSTELS-VLTRAISHGDL 123
LDPE+ TL+V V TELS V T GDL
Sbjct: 73 GLDPEKVTLFVQSHVPEHTELSWVFTTLTPLGDL 106
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
0.316 0.129 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,148,633
Number of Sequences: 62578
Number of extensions: 177072
Number of successful extensions: 533
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 525
Number of HSP's gapped (non-prelim): 18
length of query: 211
length of database: 14,973,337
effective HSP length: 95
effective length of query: 116
effective length of database: 9,028,427
effective search space: 1047297532
effective search space used: 1047297532
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 49 (23.5 bits)