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= 010176
         (516 letters)

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

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



>pdb|4A18|J Chain J, T.Thermophila 60s Ribosomal Subunit In Complex With
           Initiation Factor 6. This File Contains 26s Rrna And
           Proteins Of Molecule 1
 pdb|4A1B|J Chain J, T.Thermophila 60s Ribosomal Subunit In Complex With
           Initiation Factor 6. This File Contains 26s Rrna And
           Proteins Of Molecule 3.
 pdb|4A1D|J Chain J, T.Thermophila 60s Ribosomal Subunit In Complex With
           Initiation Factor 6. This File Contains 26s Rrna And
           Proteins Of Molecule 4.
 pdb|4A19|J Chain J, T.Thermophila 60s Ribosomal Subunit In Complex With
           Initiation Factor 6. This File Contains 26s Rrna And
           Proteins Of Molecule 2
          Length = 248

 Score = 33.5 bits (75), Expect = 0.30,   Method: Compositional matrix adjust.
 Identities = 15/44 (34%), Positives = 22/44 (50%)

Query: 67  VARQMGFDDTNECPQLCKLAYEYLKKSKGCEDNIYEYFSKEAEP 110
           +AR+  F+++N+    CKL   Y   S G  +N Y  F  E  P
Sbjct: 4   MARRCQFENSNDIGVFCKLTSAYCLVSVGASENFYSVFESELVP 47


>pdb|3B4Y|A Chain A, Fgd1 (Rv0407) From Mycobacterium Tuberculosis
 pdb|3B4Y|B Chain B, Fgd1 (Rv0407) From Mycobacterium Tuberculosis
          Length = 356

 Score = 29.3 bits (64), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 27/116 (23%), Positives = 48/116 (41%), Gaps = 13/116 (11%)

Query: 250 ADAFKETDVIYRALSSKGHHDDMLQTAELV----HQSSTDAASSLLVTALNEGRDVIMDG 305
           A+ F   +++  A++++ H  D    ++      HQ      S    TA+ E  + ++ G
Sbjct: 32  AEQFAPRELVELAVAAEAHGXDSATVSDHFQPWRHQGGHAPFSLSWXTAVGERTNRLLLG 91

Query: 306 TLSWVP-------FVEQTIAMARNVHKSRYRMGVGY--KVNEDGTVIENYWEQVKE 352
           T    P        + Q  A    ++ +R  +GVG    +NE  T  E  W + KE
Sbjct: 92  TSVLTPTFRYNPAVIAQAFATXGXLYPNRVFLGVGTGEALNEIATGYEGAWPEFKE 147


  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
   0.318    0.133    0.388 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,180,266
Number of Sequences: 62578
Number of extensions: 557959
Number of successful extensions: 1184
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1183
Number of HSP's gapped (non-prelim): 3
length of query: 516
length of database: 14,973,337
effective HSP length: 103
effective length of query: 413
effective length of database: 8,527,803
effective search space: 3521982639
effective search space used: 3521982639
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)