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= 035336
         (67 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|3IZ6|T Chain T, Localization Of The Small Subunit Ribosomal Proteins
          Into A 5.5 A Cryo-Em Map Of Triticum Aestivum
          Translating 80s Ribosome
          Length = 82

 Score =  109 bits (273), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 47/61 (77%), Positives = 57/61 (93%)

Query: 1  MQNEEGQNMDLYIPRKCSATNRLITSKDHAAVQINIGHVDADGIYTGQFSTFALCGFVRA 60
          MQNEEGQ +DLY+PRKCSATNR+IT+KDHA+VQINIGHVD +G+Y G+F+TFAL GF+RA
Sbjct: 1  MQNEEGQMVDLYVPRKCSATNRIITAKDHASVQINIGHVDENGLYDGRFTTFALSGFIRA 60

Query: 61 Q 61
          Q
Sbjct: 61 Q 61


>pdb|3IZB|T Chain T, Localization Of The Small Subunit Ribosomal Proteins
          Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
          Translating 80s Ribosome
 pdb|3U5C|V Chain V, The Structure Of The Eukaryotic Ribosome At 3.0 A
          Resolution. This Entry Contains Proteins Of The 40s
          Subunit, Ribosome A
 pdb|3U5G|V Chain V, The Structure Of The Eukaryotic Ribosome At 3.0 A
          Resolution. This Entry Contains Proteins Of The 40s
          Subunit, Ribosome B
          Length = 87

 Score = 78.6 bits (192), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 33/62 (53%), Positives = 50/62 (80%), Gaps = 1/62 (1%)

Query: 1  MQNEEGQNMDLYIPRKCSATNRLITSKDHAAVQINIGHVDADG-IYTGQFSTFALCGFVR 59
          M+N++GQ ++LY+PRKCSATNR+I + DHA+VQIN+  VD +G    G++ T+AL G+VR
Sbjct: 1  MENDKGQLVELYVPRKCSATNRIIKADDHASVQINVAKVDEEGRAIPGEYVTYALSGYVR 60

Query: 60 AQ 61
          ++
Sbjct: 61 SR 62


>pdb|3ZEY|R Chain R, High-resolution Cryo-electron Microscopy Structure Of
          The Trypanosoma Brucei Ribosome
          Length = 194

 Score = 75.9 bits (185), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 35/59 (59%), Positives = 44/59 (74%)

Query: 3  NEEGQNMDLYIPRKCSATNRLITSKDHAAVQINIGHVDADGIYTGQFSTFALCGFVRAQ 61
          NEEG N+DLYIPRKC ATN LITS DH+AVQI I +VD +G+  G  +T  + G++R Q
Sbjct: 8  NEEGVNVDLYIPRKCHATNSLITSFDHSAVQIAIANVDPNGVIDGTTTTLCIAGYLRCQ 66


>pdb|2XZM|Z Chain Z, 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|Z Chain Z, 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 = 97

 Score = 58.2 bits (139), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 25/59 (42%), Positives = 38/59 (64%)

Query: 3  NEEGQNMDLYIPRKCSATNRLITSKDHAAVQINIGHVDADGIYTGQFSTFALCGFVRAQ 61
          N++ + +D Y+PRKC  +N+LI S D ++VQI I  V  +G  TG  +   LCG VR++
Sbjct: 18 NDKKEKIDAYLPRKCDWSNKLIFSNDQSSVQIAIAEVGENGQATGSKTNVVLCGSVRSK 76


  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
   0.326    0.138    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,852,078
Number of Sequences: 62578
Number of extensions: 53678
Number of successful extensions: 203
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 198
Number of HSP's gapped (non-prelim): 4
length of query: 67
length of database: 14,973,337
effective HSP length: 38
effective length of query: 29
effective length of database: 12,595,373
effective search space: 365265817
effective search space used: 365265817
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)