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= 034587
(90 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZ6|S Chain S, Localization Of The Small Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 146
Score = 137 bits (344), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 64/84 (76%), Positives = 75/84 (89%)
Query: 6 TSMARKIYLRQGLGVGSFRRIYGGSKRNGSRPPHFCKSSGAIARHILQQLQNMNIIDIEP 65
S+ARKIYLRQG+GVG F++IYGG +RNGSRPPHFCKSSGAI+R+ILQQLQ M IID++P
Sbjct: 61 ASIARKIYLRQGIGVGGFQKIYGGRQRNGSRPPHFCKSSGAISRNILQQLQKMGIIDVDP 120
Query: 66 KGGRRITSSGQRDLDQVAGRIVVA 89
KGGR ITS G+RDLDQVAGR+ V
Sbjct: 121 KGGRLITSQGRRDLDQVAGRVDVT 144
>pdb|3JYV|T Chain T, 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 = 141
Score = 87.4 bits (215), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 39/82 (47%), Positives = 59/82 (71%)
Query: 6 TSMARKIYLRQGLGVGSFRRIYGGSKRNGSRPPHFCKSSGAIARHILQQLQNMNIIDIEP 65
S+AR IY+R+ +GVG ++YGG+K G RP +SG+I R +LQ L+ + I++I P
Sbjct: 56 ASVARHIYMRKQVGVGKLNKLYGGAKSRGVRPYKHIDASGSINRKVLQALEKIGIVEISP 115
Query: 66 KGGRRITSSGQRDLDQVAGRIV 87
KGGRRI+ +GQRDLD++A + +
Sbjct: 116 KGGRRISENGQRDLDRIAAQTL 137
>pdb|3IZB|S Chain S, Localization Of The Small Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O2Z|M Chain M, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O30|M Chain M, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5C|T Chain T, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|T Chain T, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 144
Score = 87.0 bits (214), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 39/82 (47%), Positives = 59/82 (71%)
Query: 6 TSMARKIYLRQGLGVGSFRRIYGGSKRNGSRPPHFCKSSGAIARHILQQLQNMNIIDIEP 65
S+AR IY+R+ +GVG ++YGG+K G RP +SG+I R +LQ L+ + I++I P
Sbjct: 59 ASVARHIYMRKQVGVGKLNKLYGGAKSRGVRPYKHIDASGSINRKVLQALEKIGIVEISP 118
Query: 66 KGGRRITSSGQRDLDQVAGRIV 87
KGGRRI+ +GQRDLD++A + +
Sbjct: 119 KGGRRISENGQRDLDRIAAQTL 140
>pdb|3J20|U Chain U, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (30s Ribosomal Subunit)
Length = 150
Score = 59.7 bits (143), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 31/82 (37%), Positives = 45/82 (54%)
Query: 5 VTSMARKIYLRQGLGVGSFRRIYGGSKRNGSRPPHFCKSSGAIARHILQQLQNMNIIDIE 64
V S+ R++YL +G+ R YGG K G P F K+ G+I R LQQL+ ++
Sbjct: 55 VASILRRVYLDGPVGIERLRTYYGGRKNRGHAPEKFYKAGGSIIRKALQQLEAAGFVEKV 114
Query: 65 PKGGRRITSSGQRDLDQVAGRI 86
P GR IT G+ LD++A +
Sbjct: 115 PGKGRVITPKGRSFLDKIATEL 136
>pdb|2V7F|A Chain A, Structure Of P. Abyssi Rps19 Protein
Length = 150
Score = 59.7 bits (143), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 31/82 (37%), Positives = 45/82 (54%)
Query: 5 VTSMARKIYLRQGLGVGSFRRIYGGSKRNGSRPPHFCKSSGAIARHILQQLQNMNIIDIE 64
V S+ R++YL +G+ R YGG K G P F K+ G+I R LQQL+ ++
Sbjct: 55 VASILRRVYLDGPVGIERLRTYYGGRKNRGHAPERFYKAGGSIIRKALQQLEAAGFVEKV 114
Query: 65 PKGGRRITSSGQRDLDQVAGRI 86
P GR IT G+ LD++A +
Sbjct: 115 PGKGRVITPKGRSFLDKIATEL 136
>pdb|2XZM|T Chain T, 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|T Chain T, 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 = 155
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 45/87 (51%), Gaps = 5/87 (5%)
Query: 7 SMARKIYLRQGLGVGSFRRIYGGSKRNGSRPPHFCKSSGAIARHILQQLQNMNII----- 61
++ARK+YL+ G+ + + I+G +K G+ G I R L+ L+++ II
Sbjct: 63 ALARKVYLKPHTGISTLKHIFGSNKDRGNLRNKHQACHGKILRWALKSLEDLKIIRKDKN 122
Query: 62 DIEPKGGRRITSSGQRDLDQVAGRIVV 88
K R IT G +L+++A +I +
Sbjct: 123 SATKKFSRVITKEGMTELNRIATQIAI 149
>pdb|3ZEY|O Chain O, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 167
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 41/84 (48%)
Query: 5 VTSMARKIYLRQGLGVGSFRRIYGGSKRNGSRPPHFCKSSGAIARHILQQLQNMNIIDIE 64
++ R +YLR G+G G + + K GSRP ++S + + L + +++
Sbjct: 74 CAAVLRAVYLRPGVGYGGLSKRFSSKKNRGSRPEITTRASKGLLHWCCKSLTKLELLEKC 133
Query: 65 PKGGRRITSSGQRDLDQVAGRIVV 88
G R+T G++ D +A +I +
Sbjct: 134 KGAGHRVTKLGRKVADTIAFKIAL 157
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
0.321 0.138 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,549,958
Number of Sequences: 62578
Number of extensions: 88685
Number of successful extensions: 175
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 168
Number of HSP's gapped (non-prelim): 10
length of query: 90
length of database: 14,973,337
effective HSP length: 57
effective length of query: 33
effective length of database: 11,406,391
effective search space: 376410903
effective search space used: 376410903
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)