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= psy2844
(100 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3U5E|L Chain L, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|L Chain L, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|L Chain L, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 199
Score = 49.7 bits (117), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 38/92 (41%), Positives = 51/92 (55%), Gaps = 12/92 (13%)
Query: 2 ESLQLNIQRLKEYKSKLIVFPRREKKKLRKGEATPEERKVATQLKGPLMPIRQSKPKSKA 61
E N+QRLKEY+SK+IVFPR K PE +V + PI Q +A
Sbjct: 107 EIFDANVQRLKEYQSKIIVFPRNGK--------APEAEQVLS--AAATFPIAQPATDVEA 156
Query: 62 RIPSEAEKKFSAFQTLRMARADAKLVGIREKK 93
R + + SAF+TLR+AR++ K GIREK+
Sbjct: 157 RAVQDNGE--SAFRTLRLARSEKKFRGIREKR 186
>pdb|3ZF7|N Chain N, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 218
Score = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 24/43 (55%), Positives = 32/43 (74%), Gaps = 1/43 (2%)
Query: 2 ESLQLNIQRLKEYKSKLIVFPRREKKKLRKGEATPEERKVATQ 44
E + +N+QRLK Y SKL++FP +KK +KG+AT EE K ATQ
Sbjct: 112 EGMNINVQRLKTYMSKLVLFP-LNRKKPQKGDATEEEVKAATQ 153
>pdb|4A18|U Chain U, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 1
pdb|4A1B|U Chain U, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 3.
pdb|4A1D|U Chain U, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 4.
pdb|4A19|U Chain U, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 2
Length = 206
Score = 33.1 bits (74), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 15/26 (57%), Positives = 20/26 (76%)
Query: 2 ESLQLNIQRLKEYKSKLIVFPRREKK 27
ESL+LN +RL Y SKL++FPR + K
Sbjct: 105 ESLELNKKRLLAYVSKLVLFPRHQGK 130
>pdb|3E4B|A Chain A, Crystal Structure Of Algk From Pseudomonas Fluorescens
Wcs374r
pdb|3E4B|B Chain B, Crystal Structure Of Algk From Pseudomonas Fluorescens
Wcs374r
pdb|3E4B|C Chain C, Crystal Structure Of Algk From Pseudomonas Fluorescens
Wcs374r
pdb|3E4B|D Chain D, Crystal Structure Of Algk From Pseudomonas Fluorescens
Wcs374r
Length = 452
Score = 28.9 bits (63), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 20/29 (68%)
Query: 28 KLRKGEATPEERKVATQLKGPLMPIRQSK 56
+L K + TPE +ATQL+ PL P ++++
Sbjct: 382 QLAKAQDTPEANDLATQLEAPLTPAQRAE 410
>pdb|3SKS|A Chain A, Crystal Structure Of A Putative Oligoendopeptidase F From
Bacillus Anthracis Str. Ames
Length = 567
Score = 26.2 bits (56), Expect = 4.6, Method: Composition-based stats.
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 5/59 (8%)
Query: 37 EERKVATQLKGPLMPIRQSKPKSKARIPSEAEKKFSAFQTLRMARADAKLVGIREKKAR 95
EER ++ L+P Q K +S+ + SEA F A + R +LV +R K A+
Sbjct: 158 EERTLSQ-----LIPFMQGKERSERKAASEAYYGFLAENEEELDRIYDELVKVRTKIAK 211
>pdb|1UG1|A Chain A, Sh3 Domain Of Hypothetical Protein Baa76854.1
Length = 92
Score = 25.4 bits (54), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 19/28 (67%)
Query: 66 EAEKKFSAFQTLRMARADAKLVGIREKK 93
+AE+ F+A Q L ++ + LVG+ +KK
Sbjct: 21 QAERNFNAAQDLDVSLLEGDLVGVIKKK 48
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
0.313 0.128 0.333
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,302,455
Number of Sequences: 62578
Number of extensions: 71648
Number of successful extensions: 183
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 160
Number of HSP's gapped (non-prelim): 23
length of query: 100
length of database: 14,973,337
effective HSP length: 66
effective length of query: 34
effective length of database: 10,843,189
effective search space: 368668426
effective search space used: 368668426
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 45 (21.9 bits)