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= 017724
         (367 letters)

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

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



>pdb|4GJR|A Chain A, Crystal Structure Of The Tal Effector Dhax3 Bound To
           Methylated Dsdna
 pdb|4GJR|B Chain B, Crystal Structure Of The Tal Effector Dhax3 Bound To
           Methylated Dsdna
          Length = 499

 Score = 33.5 bits (75), Expect = 0.22,   Method: Compositional matrix adjust.
 Identities = 29/101 (28%), Positives = 48/101 (47%), Gaps = 12/101 (11%)

Query: 264 CFPCALTKKELANAAQLDAARKGAYVLNKCLDTIDRLVARLCTAIEG--DKQLVRLGLGG 321
           C    LT +++   A  D  ++        L+T+ RL+  LC A  G   +Q+V +   G
Sbjct: 395 CQAHGLTPEQVVAIASHDGGKQ-------ALETVQRLLPVLCQA-HGLTPQQVVAIASNG 446

Query: 322 GKEKHSIQEVVKQLRKNQPNFASLLKD-LEEHICLCFRPSF 361
           G  + +++ +V QL +  P  A+L  D L    CL  RP+ 
Sbjct: 447 GG-RPALESIVAQLSRPDPALAALTNDHLVALACLGGRPAL 486


>pdb|4GJP|A Chain A, Crystal Structure Of The Tal Effector Dhax3 Bound To Dsdna
           Containing Repetitive Methyl-Cpg
 pdb|4GJP|B Chain B, Crystal Structure Of The Tal Effector Dhax3 Bound To Dsdna
           Containing Repetitive Methyl-Cpg
          Length = 499

 Score = 33.1 bits (74), Expect = 0.22,   Method: Compositional matrix adjust.
 Identities = 29/101 (28%), Positives = 48/101 (47%), Gaps = 12/101 (11%)

Query: 264 CFPCALTKKELANAAQLDAARKGAYVLNKCLDTIDRLVARLCTAIEG--DKQLVRLGLGG 321
           C    LT +++   A  D  ++        L+T+ RL+  LC A  G   +Q+V +   G
Sbjct: 395 CQAHGLTPEQVVAIASHDGGKQ-------ALETVQRLLPVLCQA-HGLTPQQVVAIASNG 446

Query: 322 GKEKHSIQEVVKQLRKNQPNFASLLKD-LEEHICLCFRPSF 361
           G  + +++ +V QL +  P  A+L  D L    CL  RP+ 
Sbjct: 447 GG-RPALESIVAQLSRPDPALAALTNDHLVALACLGGRPAL 486


>pdb|4GG4|A Chain A, Crystal Structure Of The Tal Effector Dhax3 Bound To
           Specific Dna-Rna Hybrid
          Length = 499

 Score = 33.1 bits (74), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 29/101 (28%), Positives = 48/101 (47%), Gaps = 12/101 (11%)

Query: 264 CFPCALTKKELANAAQLDAARKGAYVLNKCLDTIDRLVARLCTAIEG--DKQLVRLGLGG 321
           C    LT +++   A  D  ++        L+T+ RL+  LC A  G   +Q+V +   G
Sbjct: 395 CQAHGLTPEQVVAIASHDGGKQ-------ALETVQRLLPVLCQA-HGLTPQQVVAIASNG 446

Query: 322 GKEKHSIQEVVKQLRKNQPNFASLLKD-LEEHICLCFRPSF 361
           G  + +++ +V QL +  P  A+L  D L    CL  RP+ 
Sbjct: 447 GG-RPALESIVAQLSRPDPALAALTNDHLVALACLGGRPAL 486


>pdb|3V6T|A Chain A, Crystal Structure Of The Dna-Bound Dhax3, A Tal Effector,
           At 1.85 Angstrom
 pdb|3V6T|B Chain B, Crystal Structure Of The Dna-Bound Dhax3, A Tal Effector,
           At 1.85 Angstrom
          Length = 499

 Score = 33.1 bits (74), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 24/74 (32%), Positives = 39/74 (52%), Gaps = 5/74 (6%)

Query: 291 NKCLDTIDRLVARLCTAIEG--DKQLVRLGLGGGKEKHSIQEVVKQLRKNQPNFASLLKD 348
            + L+T+ RL+  LC A  G   +Q+V +   GG  + +++ +V QL +  P  A+L  D
Sbjct: 422 KQALETVQRLLPVLCQA-HGLTPQQVVAIASNGGG-RPALESIVAQLSRPDPALAALTND 479

Query: 349 -LEEHICLCFRPSF 361
            L    CL  RP+ 
Sbjct: 480 HLVALACLGGRPAL 493


>pdb|3V6P|A Chain A, Crystal Structure Of The Dna-Binding Domain Of Dhax3, A
           Tal Effector
          Length = 442

 Score = 29.3 bits (64), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 24/87 (27%), Positives = 42/87 (48%), Gaps = 11/87 (12%)

Query: 264 CFPCALTKKELANAAQLDAARKGAYVLNKCLDTIDRLVARLCTAIEG--DKQLVRLGLGG 321
           C    LT +++   A  D  ++        L+T+ RL+  LC A  G   +Q+V +   G
Sbjct: 355 CQAHGLTPEQVVAIASHDGGKQ-------ALETVQRLLPVLCQA-HGLTPQQVVAIASNG 406

Query: 322 GKEKHSIQEVVKQLRKNQPNFASLLKD 348
           G  + +++ +V QL +  P  A+L  D
Sbjct: 407 GG-RPALESIVAQLSRPDPALAALTND 432


  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
   0.324    0.136    0.416 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,168,200
Number of Sequences: 62578
Number of extensions: 263556
Number of successful extensions: 788
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 768
Number of HSP's gapped (non-prelim): 22
length of query: 367
length of database: 14,973,337
effective HSP length: 100
effective length of query: 267
effective length of database: 8,715,537
effective search space: 2327048379
effective search space used: 2327048379
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: 52 (24.6 bits)