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= 028394
         (209 letters)

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

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



>pdb|2AHO|B Chain B, Structure Of The Archaeal Initiation Factor Eif2 Alpha-
           Gamma Heterodimer From Sulfolobus Solfataricus Complexed
           With Gdpnp
 pdb|3CW2|C Chain C, Crystal Structure Of The Intact Archaeal Translation
           Initiation Factor 2 From Sulfolobus Solfataricus .
 pdb|3CW2|D Chain D, Crystal Structure Of The Intact Archaeal Translation
           Initiation Factor 2 From Sulfolobus Solfataricus .
 pdb|3CW2|G Chain G, Crystal Structure Of The Intact Archaeal Translation
           Initiation Factor 2 From Sulfolobus Solfataricus .
 pdb|3CW2|H Chain H, Crystal Structure Of The Intact Archaeal Translation
           Initiation Factor 2 From Sulfolobus Solfataricus .
 pdb|3V11|B Chain B, Structure Of The Ternary Initiation Complex
           Aif2:gdpnp:methionylated Initiator Trna
          Length = 266

 Score = 32.0 bits (71), Expect = 0.22,   Method: Compositional matrix adjust.
 Identities = 25/103 (24%), Positives = 41/103 (39%), Gaps = 10/103 (9%)

Query: 27  CLEQERYALLQL----RHFFNDDQCLQNCWVDDENYSDCCQWERVECNDTTGRVI--KLD 80
            L++ R  ++++    R     D  L+    DDE      QW++++  D    ++  KL 
Sbjct: 57  VLKENRKVIVKVIRVDRRKGTVDVSLKKV-TDDERRKKNLQWKKIQRLDKILELVSQKLK 115

Query: 81  LRDTRNWESAEWYMNASLFTPFQQLESLYLIGNNI---AGCVE 120
           L +   WE   W + A    P   +E     G  I   AG  E
Sbjct: 116 LSEKDAWEQVAWKLEAKYGDPITAIEKAVKEGEKILIDAGVPE 158


>pdb|4G6F|H Chain H, Crystal Structure Of 10e8 Fab In Complex With An Hiv-1
           Gp41 Peptide
 pdb|4G6F|B Chain B, Crystal Structure Of 10e8 Fab In Complex With An Hiv-1
           Gp41 Peptide
          Length = 236

 Score = 28.5 bits (62), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 12/22 (54%), Positives = 17/22 (77%)

Query: 122 EGLDTLSRLNNLKFLYLDYNHF 143
           EG  T+SRLN++ FLYL+ N+ 
Sbjct: 67  EGRFTISRLNSINFLYLEMNNL 88


  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    0.141    0.472 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,673,881
Number of Sequences: 62578
Number of extensions: 200554
Number of successful extensions: 629
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 628
Number of HSP's gapped (non-prelim): 8
length of query: 209
length of database: 14,973,337
effective HSP length: 94
effective length of query: 115
effective length of database: 9,091,005
effective search space: 1045465575
effective search space used: 1045465575
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: 49 (23.5 bits)