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= 045003
         (93 letters)

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

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



>pdb|3IZY|P Chain P, Mammalian Mitochondrial Translation Initiation Factor 2
          Length = 537

 Score = 45.4 bits (106), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 18/30 (60%), Positives = 24/30 (80%)

Query: 4  DALRQTSVVAKEAGGITQHVGAFVIGMSTG 33
          D LR+T V A EAGGITQH+GAF++ + +G
Sbjct: 22 DKLRKTQVAAMEAGGITQHIGAFLVSLPSG 51


>pdb|2LKC|A Chain A, Free B.St If2-G2
 pdb|2LKD|A Chain A, If2-G2 Gdp Complex
          Length = 178

 Score = 39.3 bits (90), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 16/34 (47%), Positives = 24/34 (70%)

Query: 4  DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKF 37
          DA+R + V  +EAGGITQH+GA+ + ++   I F
Sbjct: 26 DAIRHSKVTEQEAGGITQHIGAYQVTVNDKKITF 59


>pdb|1ZO1|I Chain I, If2, If1, And Trna Fitted To Cryo-Em Data Of E. Coli 70s
          Initiation Complex
          Length = 501

 Score = 38.1 bits (87), Expect = 0.001,   Method: Composition-based stats.
 Identities = 16/32 (50%), Positives = 21/32 (65%)

Query: 6  LRQTSVVAKEAGGITQHVGAFVIGMSTGGIKF 37
          +R T V + EAGGITQH+GA+ +    G I F
Sbjct: 24 IRSTKVASGEAGGITQHIGAYHVETENGMITF 55


>pdb|1G7S|A Chain A, X-Ray Structure Of Translation Initiation Factor
          If2EIF5B Complexed With Gdp
 pdb|1G7T|A Chain A, X-Ray Structure Of Translation Initiation Factor
          If2EIF5B Complexed With Gdpnp
          Length = 594

 Score = 36.2 bits (82), Expect = 0.005,   Method: Composition-based stats.
 Identities = 15/27 (55%), Positives = 21/27 (77%)

Query: 4  DALRQTSVVAKEAGGITQHVGAFVIGM 30
          D +R ++V ++EAGGITQH+GA  I M
Sbjct: 23 DHIRGSAVASREAGGITQHIGATEIPM 49


>pdb|1G7R|A Chain A, X-Ray Structure Of Translation Initiation Factor
          If2EIF5B
          Length = 594

 Score = 35.0 bits (79), Expect = 0.012,   Method: Composition-based stats.
 Identities = 13/22 (59%), Positives = 19/22 (86%)

Query: 4  DALRQTSVVAKEAGGITQHVGA 25
          D +R ++V ++EAGGITQH+GA
Sbjct: 23 DHIRGSAVASREAGGITQHIGA 44


  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
   0.329    0.141    0.438 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,471,045
Number of Sequences: 62578
Number of extensions: 81344
Number of successful extensions: 159
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 153
Number of HSP's gapped (non-prelim): 6
length of query: 93
length of database: 14,973,337
effective HSP length: 60
effective length of query: 33
effective length of database: 11,218,657
effective search space: 370215681
effective search space used: 370215681
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 45 (21.9 bits)