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= psy10248
         (194 letters)

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

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



>pdb|1W4S|A Chain A, Crystal Structure Of The Proximal Bah Domain Of Polybromo
          Length = 174

 Score = 36.6 bits (83), Expect = 0.008,   Method: Compositional matrix adjust.
 Identities = 22/70 (31%), Positives = 35/70 (50%), Gaps = 1/70 (1%)

Query: 61  PFIAKVGALWENPEDGEMMVSLLWYYRPEHTEQGTSYRDNKDEIFASRHRDINSVACIED 120
           P I  +  LWE+   GE  +   W+YRP  T    + +  + E+F S + +   V+ I  
Sbjct: 44  PHIVCIERLWED-SAGEKWLYGCWFYRPNETFHLATRKFLEKEVFKSDYYNKVPVSKILG 102

Query: 121 KCYVLTYREY 130
           KC V+  +EY
Sbjct: 103 KCVVMFVKEY 112


>pdb|3SWR|A Chain A, Structure Of Human Dnmt1 (601-1600) In Complex With
           Sinefungin
          Length = 1002

 Score = 29.3 bits (64), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 13/42 (30%), Positives = 24/42 (57%), Gaps = 1/42 (2%)

Query: 38  IQGDIIQPRDCILLKSGTRKKDLPFIAKVGALWENPEDGEMM 79
           I  + ++  DC+ +      K L ++A+V ALWE+  +G+M 
Sbjct: 154 IDAETLEVGDCVSVIPDDSSKPL-YLARVTALWEDSSNGQMF 194


>pdb|3PTA|A Chain A, Crystal Structure Of Human Dnmt1(646-1600) In Complex With
           Dna
          Length = 956

 Score = 29.3 bits (64), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 13/42 (30%), Positives = 24/42 (57%), Gaps = 1/42 (2%)

Query: 38  IQGDIIQPRDCILLKSGTRKKDLPFIAKVGALWENPEDGEMM 79
           I  + ++  DC+ +      K L ++A+V ALWE+  +G+M 
Sbjct: 108 IDAETLEVGDCVSVIPDDSSKPL-YLARVTALWEDSSNGQMF 148


>pdb|1P6X|A Chain A, Crystal Structure Of Ehv4-Tk Complexed With Thy And So4
 pdb|1P6X|B Chain B, Crystal Structure Of Ehv4-Tk Complexed With Thy And So4
 pdb|1P72|A Chain A, Crystal Structure Of Ehv4-tk Complexed With Thy And Adp
 pdb|1P72|B Chain B, Crystal Structure Of Ehv4-tk Complexed With Thy And Adp
 pdb|1P73|A Chain A, Crystal Structure Of Ehv4-Tk Complexed With Tp4a
 pdb|1P73|B Chain B, Crystal Structure Of Ehv4-Tk Complexed With Tp4a
 pdb|1P73|C Chain C, Crystal Structure Of Ehv4-Tk Complexed With Tp4a
 pdb|1P73|D Chain D, Crystal Structure Of Ehv4-Tk Complexed With Tp4a
 pdb|1P75|A Chain A, Crystal Structure Of Ehv4-Tk Complexed With Tp5a
 pdb|1P75|B Chain B, Crystal Structure Of Ehv4-Tk Complexed With Tp5a
 pdb|1P75|C Chain C, Crystal Structure Of Ehv4-Tk Complexed With Tp5a
 pdb|1P75|D Chain D, Crystal Structure Of Ehv4-Tk Complexed With Tp5a
          Length = 334

 Score = 28.9 bits (63), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 28/62 (45%), Gaps = 16/62 (25%)

Query: 23  DEHPVVRN-CYPAMRHIQGDIIQPRDCILLKSGTRKKDLPFIAKVGALWENPEDGEMMVS 81
           D HPV    C+PA R++ GD+     C L+            A V  L   P+ G ++V+
Sbjct: 120 DRHPVASTVCFPAARYLLGDMSM---CALM------------AMVATLPREPQGGNIVVT 164

Query: 82  LL 83
            L
Sbjct: 165 TL 166


>pdb|3CZO|A Chain A, Crystal Structure Of Double Mutant Phenylalanine
           Ammonia-Lyase From Anabaena Variabilis
 pdb|3CZO|B Chain B, Crystal Structure Of Double Mutant Phenylalanine
           Ammonia-Lyase From Anabaena Variabilis
 pdb|3CZO|C Chain C, Crystal Structure Of Double Mutant Phenylalanine
           Ammonia-Lyase From Anabaena Variabilis
 pdb|3CZO|D Chain D, Crystal Structure Of Double Mutant Phenylalanine
           Ammonia-Lyase From Anabaena Variabilis
          Length = 539

 Score = 26.6 bits (57), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 22/77 (28%), Positives = 28/77 (36%), Gaps = 11/77 (14%)

Query: 2   GLQLLSRSLDPYYFKYGTSTSDEHPVVRNCYPAMRHIQG-----------DIIQPRDCIL 50
           GLQ+   S+ P    YG S +D  P     +    + QG           DI Q    I 
Sbjct: 394 GLQICGNSIXPLLTFYGNSIADRFPTHAEQFNQNINSQGYTSATLARRSVDIFQNYVAIA 453

Query: 51  LKSGTRKKDLPFIAKVG 67
           L  G +  DL    K G
Sbjct: 454 LXFGVQAVDLRTYKKTG 470


  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
   0.323    0.141    0.446 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,363,156
Number of Sequences: 62578
Number of extensions: 263751
Number of successful extensions: 475
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 470
Number of HSP's gapped (non-prelim): 9
length of query: 194
length of database: 14,973,337
effective HSP length: 94
effective length of query: 100
effective length of database: 9,091,005
effective search space: 909100500
effective search space used: 909100500
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)