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= psy13098
(81 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CYB|A Chain A, Crystal Structure Of Tyrosyl-Trna Synthetase Complexed
With L-Tyrosine From Archaeoglobus Fulgidus
pdb|2CYB|B Chain B, Crystal Structure Of Tyrosyl-Trna Synthetase Complexed
With L-Tyrosine From Archaeoglobus Fulgidus
Length = 323
Score = 26.9 bits (58), Expect = 3.0, Method: Composition-based stats.
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 44 TENRARKYMDSVRKRKGLPVQDKLV 68
T NRAR+ MD V +RK P+ +++
Sbjct: 133 TLNRARRSMDEVSRRKEDPMVSQMI 157
>pdb|3JYW|V Chain V, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
Length = 142
Score = 25.4 bits (54), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 27/65 (41%), Gaps = 20/65 (30%)
Query: 11 GLRYF------FWFQVINIDPYWEPRTEEEYLHFGDKADTENRARKYMDSVRKRKGLPVQ 64
G+RYF FW V+N+D W E DK D +Y+ S K PV
Sbjct: 51 GMRYFHKQQAHFWKPVLNLDKLWTLIPE-------DKRD------QYLKSASKETA-PVI 96
Query: 65 DKLVA 69
D L A
Sbjct: 97 DTLAA 101
>pdb|3O58|Y Chain Y, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|Y Chain Y, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit
Length = 149
Score = 25.4 bits (54), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 27/65 (41%), Gaps = 20/65 (30%)
Query: 11 GLRYF------FWFQVINIDPYWEPRTEEEYLHFGDKADTENRARKYMDSVRKRKGLPVQ 64
G+RYF FW V+N+D W E DK D +Y+ S K PV
Sbjct: 57 GMRYFHKQQAHFWKPVLNLDKLWTLIPE-------DKRD------QYLKSASKETA-PVI 102
Query: 65 DKLVA 69
D L A
Sbjct: 103 DTLAA 107
>pdb|1S1I|V Chain V, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From
Yeast Obtained By Docking Atomic Models For Rna And
Protein Components Into A 11.7 A Cryo-Em Map. This File,
1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is
In File 1s1h
Length = 148
Score = 25.4 bits (54), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 27/65 (41%), Gaps = 20/65 (30%)
Query: 11 GLRYF------FWFQVINIDPYWEPRTEEEYLHFGDKADTENRARKYMDSVRKRKGLPVQ 64
G+RYF FW V+N+D W E DK D +Y+ S K PV
Sbjct: 56 GMRYFHKQQAHFWKPVLNLDKLWTLIPE-------DKRD------QYLKSASKETA-PVI 101
Query: 65 DKLVA 69
D L A
Sbjct: 102 DTLAA 106
>pdb|3IZS|O Chain O, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3U5E|AA Chain a, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|AA Chain a, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|AA Chain a, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 149
Score = 25.4 bits (54), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 27/65 (41%), Gaps = 20/65 (30%)
Query: 11 GLRYF------FWFQVINIDPYWEPRTEEEYLHFGDKADTENRARKYMDSVRKRKGLPVQ 64
G+RYF FW V+N+D W E DK D +Y+ S K PV
Sbjct: 57 GMRYFHKQQAHFWKPVLNLDKLWTLIPE-------DKRD------QYLKSASKETA-PVI 102
Query: 65 DKLVA 69
D L A
Sbjct: 103 DTLAA 107
>pdb|3PR3|A Chain A, Crystal Structure Of Plasmodium Falciparum
Glucose-6-Phosphate Isomerase (Pf14_0341) In Complex
With Fructose-6-Phosphate
pdb|3PR3|B Chain B, Crystal Structure Of Plasmodium Falciparum
Glucose-6-Phosphate Isomerase (Pf14_0341) In Complex
With Fructose-6-Phosphate
pdb|3QKI|A Chain A, Crystal Structure Of Glucose-6-Phosphate Isomerase
(Pf14_0341) From Plasmodium Falciparum 3d7
pdb|3QKI|B Chain B, Crystal Structure Of Glucose-6-Phosphate Isomerase
(Pf14_0341) From Plasmodium Falciparum 3d7
pdb|3QKI|C Chain C, Crystal Structure Of Glucose-6-Phosphate Isomerase
(Pf14_0341) From Plasmodium Falciparum 3d7
Length = 597
Score = 25.4 bits (54), Expect = 8.7, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 4/56 (7%)
Query: 28 EPRTEEEYLHFGDKADTENRARK----YMDSVRKRKGLPVQDKLVAHAEKQRTVKR 79
E +T++ + DK +E+ +K YMD R+R +KLV +AE+ K+
Sbjct: 38 EEKTKDLKDYLNDKNRSESLIKKFKNFYMDLSRQRYSEKTLNKLVEYAEEVELKKK 93
>pdb|1AX4|A Chain A, Tryptophanase From Proteus Vulgaris
pdb|1AX4|B Chain B, Tryptophanase From Proteus Vulgaris
pdb|1AX4|C Chain C, Tryptophanase From Proteus Vulgaris
pdb|1AX4|D Chain D, Tryptophanase From Proteus Vulgaris
Length = 467
Score = 25.4 bits (54), Expect = 9.2, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 20/44 (45%), Gaps = 6/44 (13%)
Query: 28 EPRTEEEYLHFGDKADTENRARKYMDSVRKRKGLPVQDKLVAHA 71
E TEEEYLH+ KY+ + G+P+Q HA
Sbjct: 317 EEGTEEEYLHY------RIGQVKYLGDRLREAGIPIQYPTGGHA 354
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
0.322 0.138 0.439
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,461,697
Number of Sequences: 62578
Number of extensions: 87480
Number of successful extensions: 224
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 223
Number of HSP's gapped (non-prelim): 7
length of query: 81
length of database: 14,973,337
effective HSP length: 50
effective length of query: 31
effective length of database: 11,844,437
effective search space: 367177547
effective search space used: 367177547
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)