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= 018884
         (349 letters)

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

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



>pdb|3RWN|A Chain A, Atomic Structure Of Bacteriophage Sf6 Tail Needle Knob
 pdb|3RWN|B Chain B, Atomic Structure Of Bacteriophage Sf6 Tail Needle Knob
 pdb|3RWN|C Chain C, Atomic Structure Of Bacteriophage Sf6 Tail Needle Knob
          Length = 161

 Score = 28.5 bits (62), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 23/75 (30%), Positives = 33/75 (44%), Gaps = 7/75 (9%)

Query: 80  ATLVQYFITSGSSPGYVLDAMRHANERNALFQKISTTSKQPASSKNGNMVITMEGSRPGR 139
            TL  +F T       V + M   NE   LF K+S     P+ + N +M +T  GS P  
Sbjct: 54  GTLAPFFDT-------VNNKMVVFNENKTLFFKLSIVGTWPSGTANRSMQLTFSGSVPDT 106

Query: 140 SFSGSNATSWTKLVL 154
             S  N+ + T  +L
Sbjct: 107 LVSSRNSATTTDNIL 121


>pdb|2WAA|A Chain A, Structure Of A Family Two Carbohydrate Esterase From
           Cellvibrio Japonicus
          Length = 347

 Score = 28.5 bits (62), Expect = 6.1,   Method: Compositional matrix adjust.
 Identities = 13/31 (41%), Positives = 18/31 (58%), Gaps = 1/31 (3%)

Query: 134 GSRPGRSFSGSNATSWTKLVLDLYPPGTSIR 164
           GSR       SN  SW  +++D +PP TSI+
Sbjct: 49  GSRLTAEMQSSNGNSWIDVIIDNHPP-TSIK 78


  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
   0.327    0.139    0.469 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,541,535
Number of Sequences: 62578
Number of extensions: 345180
Number of successful extensions: 893
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: 892
Number of HSP's gapped (non-prelim): 3
length of query: 349
length of database: 14,973,337
effective HSP length: 100
effective length of query: 249
effective length of database: 8,715,537
effective search space: 2170168713
effective search space used: 2170168713
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 52 (24.6 bits)