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= 038812
(84 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZ6|H Chain H, Localization Of The Small Subunit Ribosomal Proteins
Into A 5.5 A Cryo-Em Map Of Triticum Aestivum
Translating 80s Ribosome
Length = 130
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 27/37 (72%)
Query: 47 ILNDALRAIVNAERRGKATVELQPISTVMSSFLNIMK 83
+LNDAL+ + NAE+RGK V ++P S V+ FL +M+
Sbjct: 6 VLNDALKTMYNAEKRGKRQVLIRPSSKVIIKFLIVMQ 42
>pdb|2ZKQ|HH Chain h, Structure Of A Mammalian Ribosomal 40s Subunit Within An
80s Complex Obtained By Docking Homology Models Of The
Rna And Proteins Into An 8.7 A Cryo-Em Map
Length = 130
Score = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 26/36 (72%)
Query: 47 ILNDALRAIVNAERRGKATVELQPISTVMSSFLNIM 82
+L DAL++I NAE+RGK V ++P S V+ FL +M
Sbjct: 6 VLADALKSINNAEKRGKRQVLIRPCSKVIVRFLTVM 41
>pdb|2XZM|H Chain H, 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|H Chain H, 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 = 130
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 26/37 (70%)
Query: 47 ILNDALRAIVNAERRGKATVELQPISTVMSSFLNIMK 83
IL + L+ +VNAE+ GK V L+P+S V+ FL IM+
Sbjct: 6 ILAECLKDLVNAEKMGKKQVLLRPVSKVVLKFLRIMQ 42
>pdb|3ZEY|J Chain J, High-resolution Cryo-electron Microscopy Structure Of
The Trypanosoma Brucei Ribosome
Length = 130
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 47 ILNDALRAIVNAERRGKATVELQPISTVMSSFLNIMK 83
+L +ALR I AERRGK V ++P S V+ FL +M+
Sbjct: 6 VLANALRCIAGAERRGKRQVLIRPSSKVVVKFLQVMQ 42
>pdb|1S1H|H Chain H, 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, 1s1h, Contains 40s Subunit. The 60s Ribosomal
Subunit Is In File 1s1i
Length = 129
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 47 ILNDALRAIVNAERRGKATVELQPISTVMSSFLNIMK 83
+L DAL AI NAE+ GK V ++P S V+ FL +M+
Sbjct: 5 VLADALNAINNAEKTGKRQVLIRPSSKVIIKFLQVMQ 41
>pdb|3IZB|H Chain H, Localization Of The Small Subunit Ribosomal Proteins
Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O2Z|O Chain O, Yeast 80s Ribosome. This Entry Consists Of The 40s
Subunit Of The First 80s In The Asymmetric Unit.
pdb|3O30|O Chain O, Yeast 80s Ribosome. This Entry Consists Of The 40s
Subunit Of The Second 80s In The Asymmetric Unit.
pdb|3U5C|W Chain W, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|W Chain W, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 130
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 47 ILNDALRAIVNAERRGKATVELQPISTVMSSFLNIMK 83
+L DAL AI NAE+ GK V ++P S V+ FL +M+
Sbjct: 6 VLADALNAINNAEKTGKRQVLIRPSSKVIIKFLQVMQ 42
>pdb|3JYV|H Chain H, Structure Of The 40s Rrna And Proteins And PE TRNA FOR
EUKARYOTIC Ribosome Based On Cryo-Em Map Of Thermomyces
Lanuginosus Ribosome At 8.9a Resolution
Length = 125
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 47 ILNDALRAIVNAERRGKATVELQPISTVMSSFLNIMK 83
+L DAL AI NAE+ GK V ++P S V+ FL +M+
Sbjct: 1 LLADALNAINNAEKTGKRQVLIRPSSKVIIKFLQVMQ 37
>pdb|1VT4|I Chain I, Structure Of The Drosophila Apoptosome
pdb|1VT4|J Chain J, Structure Of The Drosophila Apoptosome
pdb|1VT4|K Chain K, Structure Of The Drosophila Apoptosome
pdb|1VT4|L Chain L, Structure Of The Drosophila Apoptosome
pdb|1VT4|M Chain M, Structure Of The Drosophila Apoptosome
pdb|1VT4|N Chain N, Structure Of The Drosophila Apoptosome
pdb|1VT4|O Chain O, Structure Of The Drosophila Apoptosome
pdb|1VT4|P Chain P, Structure Of The Drosophila Apoptosome
pdb|3IZ8|A Chain A, Structure Of The Drosophila Apoptosome
pdb|3IZ8|B Chain B, Structure Of The Drosophila Apoptosome
pdb|3IZ8|C Chain C, Structure Of The Drosophila Apoptosome
pdb|3IZ8|D Chain D, Structure Of The Drosophila Apoptosome
pdb|3IZ8|E Chain E, Structure Of The Drosophila Apoptosome
pdb|3IZ8|F Chain F, Structure Of The Drosophila Apoptosome
pdb|3IZ8|G Chain G, Structure Of The Drosophila Apoptosome
pdb|3IZ8|H Chain H, Structure Of The Drosophila Apoptosome
Length = 1221
Score = 27.3 bits (59), Expect = 2.5, Method: Composition-based stats.
Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 11/58 (18%)
Query: 32 PSNIPREVQTVMGRRILNDALRAIVNAERRGKAT------VELQPISTVMSSFLNIMK 83
P ++PREV T RR L I + R G AT V ++T++ S LN+++
Sbjct: 315 PQDLPREVLTTNPRR-----LSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE 367
>pdb|2AHM|E Chain E, Crystal Structure Of Sars-Cov Super Complex Of
Non-Structural Proteins: The Hexadecamer
pdb|2AHM|F Chain F, Crystal Structure Of Sars-Cov Super Complex Of
Non-Structural Proteins: The Hexadecamer
pdb|2AHM|G Chain G, Crystal Structure Of Sars-Cov Super Complex Of
Non-Structural Proteins: The Hexadecamer
pdb|2AHM|H Chain H, Crystal Structure Of Sars-Cov Super Complex Of
Non-Structural Proteins: The Hexadecamer
Length = 203
Score = 25.8 bits (55), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 42 VMGRRILNDALRAIVNAERRGKATVELQPISTV 74
M R++ NDAL I+N R G + + P++T
Sbjct: 98 TMLRKLDNDALNNIINNARDGCVPLNIIPLTTA 130
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
0.319 0.131 0.360
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,512,149
Number of Sequences: 62578
Number of extensions: 39173
Number of successful extensions: 118
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 110
Number of HSP's gapped (non-prelim): 9
length of query: 84
length of database: 14,973,337
effective HSP length: 52
effective length of query: 32
effective length of database: 11,719,281
effective search space: 375016992
effective search space used: 375016992
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)