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= psy2238
         (311 letters)

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

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



>pdb|2I13|A Chain A, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
           Triplets
 pdb|2I13|B Chain B, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
           Triplets
          Length = 190

 Score = 30.4 bits (67), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 23/51 (45%), Gaps = 1/51 (1%)

Query: 184 YSCLRCKICFC-EDHARRKGFKYEKNKPIPCPKCGFETSQTKDLSMSTRSH 233
           Y+C  C   F   DH       +   KP  CP+CG   S  KDL+   R+H
Sbjct: 22  YACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTH 72


>pdb|1MEY|C Chain C, Crystal Structure Of A Designed Zinc Finger Protein Bound
           To Dna
 pdb|1MEY|F Chain F, Crystal Structure Of A Designed Zinc Finger Protein Bound
           To Dna
 pdb|1MEY|G Chain G, Crystal Structure Of A Designed Zinc Finger Protein Bound
           To Dna
          Length = 87

 Score = 27.7 bits (60), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 1/51 (1%)

Query: 184 YSCLRCKICFCEDHARRKGFK-YEKNKPIPCPKCGFETSQTKDLSMSTRSH 233
           Y C  C   F +    +K  + +   KP  CP+CG   SQ+ DL    R+H
Sbjct: 5   YKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTH 55


  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
   0.325    0.136    0.462 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,526,200
Number of Sequences: 62578
Number of extensions: 291575
Number of successful extensions: 793
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 779
Number of HSP's gapped (non-prelim): 18
length of query: 311
length of database: 14,973,337
effective HSP length: 99
effective length of query: 212
effective length of database: 8,778,115
effective search space: 1860960380
effective search space used: 1860960380
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: 51 (24.3 bits)