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= 033740
         (112 letters)

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

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



>pdb|3U5C|AA Chain a, The Structure Of The Eukaryotic Ribosome At 3.0 A
           Resolution. This Entry Contains Proteins Of The 40s
           Subunit, Ribosome A
 pdb|3U5G|AA Chain a, The Structure Of The Eukaryotic Ribosome At 3.0 A
           Resolution. This Entry Contains Proteins Of The 40s
           Subunit, Ribosome B
          Length = 119

 Score = 90.5 bits (223), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 43/83 (51%), Positives = 51/83 (61%)

Query: 18  VNFIRCSNCGKCCPKDKAIKRFLVRNIVEQAAVRDVQDACIYDNYVLPKLYAKMQYCVSC 77
           V  +RC NC K  PKDKAIKR  +RNIVE AAVRD+ +A +Y  Y LPK Y K+ YCVSC
Sbjct: 18  VKPVRCVNCSKSIPKDKAIKRMAIRNIVEAAAVRDLSEASVYPEYALPKTYNKLHYCVSC 77

Query: 78  AIHSHXXXXXXXXXXXXXEPPKR 100
           AIH+               PP+R
Sbjct: 78  AIHARIVRVRSREDRKNRAPPQR 100


>pdb|2XZM|5 Chain 5, 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|5 Chain 5, 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 = 119

 Score = 71.2 bits (173), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 31/61 (50%), Positives = 46/61 (75%), Gaps = 2/61 (3%)

Query: 23 CSNCGKCCPKDKAIKRFLVRNIVEQAAVRDVQDACIYDN--YVLPKLYAKMQYCVSCAIH 80
          C+NCG+   KDKA+KR+ VR++V+ ++ RD+Q    ++N    +PKLY K+QYC+SCAIH
Sbjct: 23 CTNCGRQVAKDKAVKRYTVRDMVDPSSKRDIQQKLAFENEKQGIPKLYVKLQYCISCAIH 82

Query: 81 S 81
          S
Sbjct: 83 S 83


>pdb|3ZEY|V Chain V, High-resolution Cryo-electron Microscopy Structure Of
          The Trypanosoma Brucei Ribosome
          Length = 111

 Score = 68.9 bits (167), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 30/66 (45%), Positives = 46/66 (69%), Gaps = 2/66 (3%)

Query: 18 VNFIRCSNCGKCCPKDKAIKRFLVRNIVEQAAVRDVQDACIY--DNYVLPKLYAKMQYCV 75
          V  + C NC +  PKDK++ RF+VR +++QA+ RDV +A +     + +PKLY K +YC+
Sbjct: 20 VRPVHCFNCSRLVPKDKSVGRFVVRRMLDQASARDVAEASLIYGSGFPMPKLYMKQRYCI 79

Query: 76 SCAIHS 81
          +CAIHS
Sbjct: 80 ACAIHS 85


  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
   0.334    0.141    0.476 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,242,860
Number of Sequences: 62578
Number of extensions: 61201
Number of successful extensions: 164
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 159
Number of HSP's gapped (non-prelim): 3
length of query: 112
length of database: 14,973,337
effective HSP length: 76
effective length of query: 36
effective length of database: 10,217,409
effective search space: 367826724
effective search space used: 367826724
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 45 (21.9 bits)