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= 048427
         (261 letters)

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

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



>pdb|2R82|A Chain A, Pyruvate Phosphate Dikinase (Ppdk) Triple Mutant
           R219eE271RS262D Adapts A Second Conformational State
          Length = 874

 Score = 30.0 bits (66), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 29/94 (30%), Positives = 39/94 (41%), Gaps = 17/94 (18%)

Query: 49  PTDKSTAVEKAETTRDNIPACDKAKDYLAAVGRTF-KKIDKAEKGNYLRLLANTQ-YDGV 106
           P D  TAV        N       K   +  G  F +  D  EKG Y R L N Q  D V
Sbjct: 230 PGDWGTAVNVQTMVFGN-------KGETSGTGVAFTRNPDTGEKGIYGRYLINAQGEDVV 282

Query: 107 SGVREHILKMTSYHKKLKEMDVDLPDDYLVFQNL 140
           +GVR          + + +++ D+PD Y  F +L
Sbjct: 283 AGVR--------TPQPITQLENDMPDCYKQFMDL 308


>pdb|3GEE|A Chain A, Crystal Structure Of Mnme From Chlorobium Tepidum In
           Complex With Gdp And Folinic Acid
 pdb|3GEI|A Chain A, Crystal Structure Of Mnme From Chlorobium Tepidum In
           Complex With Gcp
 pdb|3GEI|B Chain B, Crystal Structure Of Mnme From Chlorobium Tepidum In
           Complex With Gcp
 pdb|3GEI|C Chain C, Crystal Structure Of Mnme From Chlorobium Tepidum In
           Complex With Gcp
          Length = 476

 Score = 29.6 bits (65), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 15/57 (26%), Positives = 32/57 (56%), Gaps = 4/57 (7%)

Query: 106 VSGVREHILKMTSYHKKLKEMDVDLPDDYLVFQNLESLPPQFGNLRSQYNTQRDTWN 162
           + G+RE +++  +    L E+++D  ++ + FQ+ + L  Q   LRS+ N   D++ 
Sbjct: 173 LGGLREQLIRSCA----LIELELDFSEEDVEFQSRDELTMQIETLRSEVNRLIDSYQ 225


>pdb|4A9A|C Chain C, Structure Of Rbg1 In Complex With Tma46 Dfrp Domain
 pdb|4A9A|D Chain D, Structure Of Rbg1 In Complex With Tma46 Dfrp Domain
          Length = 142

 Score = 28.1 bits (61), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 21/58 (36%)

Query: 110 REHILKMTSYHKKLKEMDVDLPDDYLVFQNLESLPPQFGNLRSQYNTQRDTWNITELT 167
           RE ILKM++ +K  +  + D+PDD                      TQ   W++TE T
Sbjct: 70  REIILKMSAENKSFETDNADMPDDV---------------------TQGSAWDLTEFT 106


  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
   0.316    0.132    0.385 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,483,609
Number of Sequences: 62578
Number of extensions: 232693
Number of successful extensions: 492
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 492
Number of HSP's gapped (non-prelim): 5
length of query: 261
length of database: 14,973,337
effective HSP length: 97
effective length of query: 164
effective length of database: 8,903,271
effective search space: 1460136444
effective search space used: 1460136444
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)