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= psy1871
(139 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZ6|V Chain V, Localization Of The Small Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 108
Score = 95.5 bits (236), Expect = 8e-21, Method: Compositional matrix adjust.
Identities = 44/72 (61%), Positives = 57/72 (79%)
Query: 63 LNNQVLFDKASYDKLLKEVPAYKLITPSVVSERLKVRGSLARKALEELLQKGLIKQVVKH 122
+NN VLFDKA+YDKLL EVP YK ITPSV+SERL++ GSLAR+A+++L +G I+ V H
Sbjct: 37 VNNSVLFDKATYDKLLSEVPKYKQITPSVLSERLRINGSLARQAIKDLESRGAIRVVSVH 96
Query: 123 HAQVIYTRTTKG 134
+Q+IYTR T
Sbjct: 97 SSQLIYTRATNA 108
>pdb|3ZEY|U Chain U, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 113
Score = 73.6 bits (179), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 35/68 (51%), Positives = 49/68 (72%)
Query: 63 LNNQVLFDKASYDKLLKEVPAYKLITPSVVSERLKVRGSLARKALEELLQKGLIKQVVKH 122
L N V+FDK + DKL+KEVP YK+ITPS++S+RLK+ +LA K L+ L ++GLI+ V
Sbjct: 42 LQNAVMFDKETMDKLMKEVPKYKVITPSIISDRLKISVALAGKGLQHLCRQGLIRLVSCS 101
Query: 123 HAQVIYTR 130
+YTR
Sbjct: 102 SKFRVYTR 109
>pdb|3IZB|V Chain V, Localization Of The Small Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O2Z|Q Chain Q, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O30|Q Chain Q, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5C|Z Chain Z, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|Z Chain Z, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 108
Score = 72.4 bits (176), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 34/72 (47%), Positives = 50/72 (69%)
Query: 64 NNQVLFDKASYDKLLKEVPAYKLITPSVVSERLKVRGSLARKALEELLQKGLIKQVVKHH 123
+ V+ D+ YD++LKEVP Y+ ++ SV+ +RLK+ GSLAR AL L ++G+IK + KH
Sbjct: 37 QHAVILDQEKYDRILKEVPTYRYVSVSVLVDRLKIGGSLARIALRHLEKEGIIKPISKHS 96
Query: 124 AQVIYTRTTKGD 135
Q IYTR T +
Sbjct: 97 KQAIYTRATASE 108
>pdb|2XZM|8 Chain 8, 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|8 Chain 8, 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 = 143
Score = 40.0 bits (92), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 41/68 (60%), Gaps = 1/68 (1%)
Query: 63 LNNQVLFDKASYDKLLKE-VPAYKLITPSVVSERLKVRGSLARKALEELLQKGLIKQVVK 121
+N+ V +K + + ++ K++T S V E+LKV GSLAR+ + + + L+++V K
Sbjct: 39 VNHAVFIEKKNVESIINNPSKVGKVLTVSTVVEKLKVNGSLARQLMRTMADRKLVEKVAK 98
Query: 122 HHAQVIYT 129
+ Q +Y+
Sbjct: 99 NGNQWVYS 106
>pdb|3J21|J Chain J, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 141
Score = 26.6 bits (57), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 22/38 (57%)
Query: 83 AYKLITPSVVSERLKVRGSLARKALEELLQKGLIKQVV 120
A ++TP V ++RG +AR+A E ++ G I ++
Sbjct: 103 AAVIVTPEGVPRGTEIRGPVAREAAERWVRIGSIASII 140
>pdb|2VN2|A Chain A, Crystal Structure Of The N-Terminal Domain Of Dnad Protein
From Geobacillus Kaustophilus Hta426
pdb|2VN2|B Chain B, Crystal Structure Of The N-Terminal Domain Of Dnad Protein
From Geobacillus Kaustophilus Hta426
pdb|2VN2|C Chain C, Crystal Structure Of The N-Terminal Domain Of Dnad Protein
From Geobacillus Kaustophilus Hta426
pdb|2VN2|D Chain D, Crystal Structure Of The N-Terminal Domain Of Dnad Protein
From Geobacillus Kaustophilus Hta426
Length = 128
Score = 25.8 bits (55), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 19/29 (65%)
Query: 88 TPSVVSERLKVRGSLARKALEELLQKGLI 116
TP+ ++ER+ V + + + LLQKG+I
Sbjct: 53 TPAELAERMTVSAAECMEMVRRLLQKGMI 81
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
0.315 0.131 0.361
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,917,354
Number of Sequences: 62578
Number of extensions: 73389
Number of successful extensions: 315
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 306
Number of HSP's gapped (non-prelim): 11
length of query: 139
length of database: 14,973,337
effective HSP length: 89
effective length of query: 50
effective length of database: 9,403,895
effective search space: 470194750
effective search space used: 470194750
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: 46 (22.3 bits)