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= 029361
         (194 letters)

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

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



>pdb|1UF9|A Chain A, Crystal Structure Of Tt1252 From Thermus Thermophilus
 pdb|1UF9|B Chain B, Crystal Structure Of Tt1252 From Thermus Thermophilus
 pdb|1UF9|C Chain C, Crystal Structure Of Tt1252 From Thermus Thermophilus
          Length = 203

 Score = 30.0 bits (66), Expect = 0.90,   Method: Compositional matrix adjust.
 Identities = 17/35 (48%), Positives = 21/35 (60%)

Query: 125 TKAALQEAYSTPMLPLDVLAEKPTENKLELAKRLL 159
           T AAL  ++  P+L LD LA +  ENK E  KRL 
Sbjct: 23  TVAALLRSWGYPVLDLDALAARARENKEEELKRLF 57


>pdb|2R48|A Chain A, Crystal Structure Of The Fructose Specific Iib Subunit
          Of Pts System From Bacillus Subtilis Subsp. Subtilis
          Str. 168
          Length = 106

 Score = 27.3 bits (59), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 18/72 (25%), Positives = 35/72 (48%), Gaps = 1/72 (1%)

Query: 28 VPFIVAHKKASLKRLKSGAERISVSIDIHNQGTSTAYDVSLTDDSWPQDKFDVISGNISQ 87
           P  +AH   + + L+  A+R+ VSI +  QG     +  LT++   +    +I+ + S 
Sbjct: 11 CPNGIAHTYXAAENLQKAADRLGVSIKVETQG-GIGVENKLTEEEIREADAIIIAADRSV 69

Query: 88 SWERLDAGGILS 99
          + +R     +LS
Sbjct: 70 NKDRFIGKKLLS 81


  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
   0.317    0.133    0.373 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,423,472
Number of Sequences: 62578
Number of extensions: 167581
Number of successful extensions: 356
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 352
Number of HSP's gapped (non-prelim): 5
length of query: 194
length of database: 14,973,337
effective HSP length: 94
effective length of query: 100
effective length of database: 9,091,005
effective search space: 909100500
effective search space used: 909100500
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: 49 (23.5 bits)