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= psy3546
         (164 letters)

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

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



>pdb|1G55|A Chain A, Structure Of Human Dnmt2, An Enigmatic Dna
           Methyltransferase Homologue
          Length = 343

 Score = 53.1 bits (126), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 31/88 (35%), Positives = 45/88 (51%), Gaps = 18/88 (20%)

Query: 15  GLQKDIADARCTALSYLIETIPANFPGDRLDHYTTQAVKGWKRKLSGIFRTPNVKGFEGS 74
           G Q D+ D+R  +  ++++ +P      RL            +KL       NVKGFE S
Sbjct: 85  GRQGDMTDSRTNSFLHILDILP------RL------------QKLPKYILLENVKGFEVS 126

Query: 75  RSRDLITSMLTRAGFRFQEFLLSPTQFG 102
            +RDL+   +   GF++QEFLLSPT  G
Sbjct: 127 STRDLLIQTIENXGFQYQEFLLSPTSLG 154


>pdb|4H0N|A Chain A, Crystal Structure Of Spodoptera Frugiperda Dnmt2
           E260a/e261a/k263a Mutant
 pdb|4H0N|B Chain B, Crystal Structure Of Spodoptera Frugiperda Dnmt2
           E260a/e261a/k263a Mutant
 pdb|4H0N|C Chain C, Crystal Structure Of Spodoptera Frugiperda Dnmt2
           E260a/e261a/k263a Mutant
 pdb|4H0N|D Chain D, Crystal Structure Of Spodoptera Frugiperda Dnmt2
           E260a/e261a/k263a Mutant
          Length = 333

 Score = 40.8 bits (94), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 18/37 (48%), Positives = 21/37 (56%)

Query: 67  NVKGFEGSRSRDLITSMLTRAGFRFQEFLLSPTQFGT 103
           NVKGFE S  R+L    L    F +QEFLL P+  G 
Sbjct: 119 NVKGFENSTVRNLFIDKLKECNFIYQEFLLCPSTVGV 155


>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex
 pdb|2ATX|B Chain B, Crystal Structure Of The Tc10 Gppnhp Complex
          Length = 194

 Score = 28.1 bits (61), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 12/41 (29%), Positives = 18/41 (43%)

Query: 25 CTALSYLIETIPANFPGDRLDHYTTQAVKGWKRKLSGIFRT 65
          C  +SY  +  P  +     DHY      G K+ L G++ T
Sbjct: 33 CLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDT 73


  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
   0.319    0.135    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,596,518
Number of Sequences: 62578
Number of extensions: 133263
Number of successful extensions: 266
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 263
Number of HSP's gapped (non-prelim): 4
length of query: 164
length of database: 14,973,337
effective HSP length: 91
effective length of query: 73
effective length of database: 9,278,739
effective search space: 677347947
effective search space used: 677347947
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)