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= 018361
         (357 letters)

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

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



>pdb|3V46|A Chain A, Crystal Structure Of Yeast Cdc73 C-Terminal Domain
          Length = 170

 Score = 64.7 bits (156), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 36/107 (33%), Positives = 59/107 (55%), Gaps = 5/107 (4%)

Query: 236 PIILVPSASQTLITIYNVKEFLEDGVYIPTDVKVKNMNGMRPECVTVQKKFSRDRDQVVK 295
           PIIL+PSA+ +++T+ N+K+FL +  Y    V  +N+  +    V ++K F R   + ++
Sbjct: 15  PIILIPSAASSILTVANIKQFLLESKY----VNPRNLPSVPNGLVNIEKNFERI-SRPIR 69

Query: 296 AYEVRDKPSTMKSEDWDRVVAVFVLGKEWQFKEWPFKDHVEIFNKSK 342
              V +     K E WDRVVA+F  G  WQF  + +    E+F + K
Sbjct: 70  FIIVDNTRMFTKPEYWDRVVAIFTTGHTWQFNNYQWNSPQELFQRCK 116


>pdb|4DM4|A Chain A, The Conserved Domain Of Yeast Cdc73
 pdb|4DM4|B Chain B, The Conserved Domain Of Yeast Cdc73
          Length = 167

 Score = 64.3 bits (155), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 36/107 (33%), Positives = 59/107 (55%), Gaps = 5/107 (4%)

Query: 236 PIILVPSASQTLITIYNVKEFLEDGVYIPTDVKVKNMNGMRPECVTVQKKFSRDRDQVVK 295
           PIIL+PSA+ +++T+ N+K+FL +  Y    V  +N+  +    V ++K F R   + ++
Sbjct: 4   PIILIPSAASSILTVANIKQFLLESKY----VNPRNLPSVPNGLVNIEKNFERI-SRPIR 58

Query: 296 AYEVRDKPSTMKSEDWDRVVAVFVLGKEWQFKEWPFKDHVEIFNKSK 342
              V +     K E WDRVVA+F  G  WQF  + +    E+F + K
Sbjct: 59  FIIVDNTRMFTKPEYWDRVVAIFTTGHTWQFNNYQWNSPQELFQRCK 105


>pdb|2XQ1|A Chain A, Crystal Structure Of Peroxisomal Catalase From The Yeast
           Hansenula Polymorpha
 pdb|2XQ1|B Chain B, Crystal Structure Of Peroxisomal Catalase From The Yeast
           Hansenula Polymorpha
 pdb|2XQ1|C Chain C, Crystal Structure Of Peroxisomal Catalase From The Yeast
           Hansenula Polymorpha
 pdb|2XQ1|D Chain D, Crystal Structure Of Peroxisomal Catalase From The Yeast
           Hansenula Polymorpha
 pdb|2XQ1|E Chain E, Crystal Structure Of Peroxisomal Catalase From The Yeast
           Hansenula Polymorpha
 pdb|2XQ1|F Chain F, Crystal Structure Of Peroxisomal Catalase From The Yeast
           Hansenula Polymorpha
 pdb|2XQ1|G Chain G, Crystal Structure Of Peroxisomal Catalase From The Yeast
           Hansenula Polymorpha
 pdb|2XQ1|H Chain H, Crystal Structure Of Peroxisomal Catalase From The Yeast
           Hansenula Polymorpha
 pdb|2XQ1|I Chain I, Crystal Structure Of Peroxisomal Catalase From The Yeast
           Hansenula Polymorpha
 pdb|2XQ1|J Chain J, Crystal Structure Of Peroxisomal Catalase From The Yeast
           Hansenula Polymorpha
 pdb|2XQ1|K Chain K, Crystal Structure Of Peroxisomal Catalase From The Yeast
           Hansenula Polymorpha
 pdb|2XQ1|L Chain L, Crystal Structure Of Peroxisomal Catalase From The Yeast
           Hansenula Polymorpha
 pdb|2XQ1|M Chain M, Crystal Structure Of Peroxisomal Catalase From The Yeast
           Hansenula Polymorpha
 pdb|2XQ1|N Chain N, Crystal Structure Of Peroxisomal Catalase From The Yeast
           Hansenula Polymorpha
 pdb|2XQ1|O Chain O, Crystal Structure Of Peroxisomal Catalase From The Yeast
           Hansenula Polymorpha
 pdb|2XQ1|P Chain P, Crystal Structure Of Peroxisomal Catalase From The Yeast
           Hansenula Polymorpha
          Length = 509

 Score = 29.6 bits (65), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 21/77 (27%), Positives = 37/77 (48%), Gaps = 5/77 (6%)

Query: 35  PSSIETAYRSKQGNLYTL--QTVVYFIKHYNLKHTDYIQRARSNKLPAVTLPDRKPLYEY 92
           P    T + ++ GNL  +   T ++FI+   +K   +I   + N  PA  L D    ++Y
Sbjct: 121 PRGFATKFYTEDGNLDLVYNNTPIFFIRD-PIKFPHFIHTQKRN--PATNLKDPNMFWDY 177

Query: 93  LTGVTDSADQIETVIAN 109
           LT   +S  Q+  + +N
Sbjct: 178 LTANDESLHQVMYLFSN 194


  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    0.137    0.403 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,490,934
Number of Sequences: 62578
Number of extensions: 362547
Number of successful extensions: 828
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 824
Number of HSP's gapped (non-prelim): 6
length of query: 357
length of database: 14,973,337
effective HSP length: 100
effective length of query: 257
effective length of database: 8,715,537
effective search space: 2239893009
effective search space used: 2239893009
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)