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= 021419
         (312 letters)

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

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



>pdb|4DB8|A Chain A, Designed Armadillo-Repeat Protein
 pdb|4DB8|B Chain B, Designed Armadillo-Repeat Protein
 pdb|4DB8|C Chain C, Designed Armadillo-Repeat Protein
 pdb|4DB8|D Chain D, Designed Armadillo-Repeat Protein
          Length = 252

 Score = 37.4 bits (85), Expect = 0.011,   Method: Compositional matrix adjust.
 Identities = 40/203 (19%), Positives = 79/203 (38%), Gaps = 13/203 (6%)

Query: 95  KITAACKSEDQTGGRDLVAKIKKWIKESERNKRCIVDYGAVSVLAAAFESFSKTCLDEHV 154
           ++T    S+D         K  + + +     + ++D GA+  L     S ++  L E +
Sbjct: 16  QMTQQLNSDDMQEQLSATRKFSQILSDGNEQIQAVIDAGALPALVQLLSSPNEQILQEAL 75

Query: 155 SVLEEILSTLTLLFPLAGEALTYLGSASSMHCMVWFLKSGDLSRRRNTVLVLREVISSDH 214
             L  I S          E +  +  A ++  +V  L S +    +  +  L  + S  +
Sbjct: 76  WALSNIASG-------GNEQIQAVIDAGALPALVQLLSSPNEQILQEALWALSNIASGGN 128

Query: 215 RRVNMFLEIEGAIESLYTLIKEPICPTATEASFVVVYHMITSASAADKPIQKFVDMGLVS 274
            ++   ++  GA+ +L  L+  P      EA    ++ +   AS  ++ IQ  +D G + 
Sbjct: 129 EQIQAVIDA-GALPALVQLLSSPNEQILQEA----LWALSNIASGGNEQIQAVIDAGALP 183

Query: 275 LLLETLVDAQRS-LCEKPWVFST 296
            L++ L       L E  W  S 
Sbjct: 184 ALVQLLSSPNEQILQEALWALSN 206


>pdb|1VHM|A Chain A, Crystal Structure Of An Hypothetical Protein
 pdb|1VHM|B Chain B, Crystal Structure Of An Hypothetical Protein
          Length = 195

 Score = 28.1 bits (61), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 13/40 (32%), Positives = 24/40 (60%)

Query: 87  VEVLEINSKITAACKSEDQTGGRDLVAKIKKWIKESERNK 126
           + VL+I+S +      ED+ G R LVA+++K +  ++  K
Sbjct: 139 IGVLDIDSTVFGRFTDEDEQGLRQLVAQLEKVLATTDYKK 178


>pdb|4DBA|A Chain A, Designed Armadillo Repeat Protein (Yiim3aii)
 pdb|4DBA|B Chain B, Designed Armadillo Repeat Protein (Yiim3aii)
 pdb|4DBA|C Chain C, Designed Armadillo Repeat Protein (Yiim3aii)
 pdb|4DBA|D Chain D, Designed Armadillo Repeat Protein (Yiim3aii)
          Length = 210

 Score = 27.7 bits (60), Expect = 8.8,   Method: Compositional matrix adjust.
 Identities = 26/143 (18%), Positives = 56/143 (39%), Gaps = 8/143 (5%)

Query: 95  KITAACKSEDQTGGRDLVAKIKKWIKESERNKRCIVDYGAVSVLAAAFESFSKTCLDEHV 154
           ++T    S+D         K  + + +     + ++D GA+  L     S ++  L E +
Sbjct: 16  QMTQQLNSDDMQEQLSATRKFSQILSDGNEQIQAVIDAGALPALVQLLSSPNEQILQEAL 75

Query: 155 SVLEEILSTLTLLFPLAGEALTYLGSASSMHCMVWFLKSGDLSRRRNTVLVLREVISSDH 214
             L  I S          E +  +  A ++  +V  L S +    +  +  L  + S  +
Sbjct: 76  WALSNIASG-------GNEQIQAVIDAGALPALVQLLSSPNEQILQEALWALSNIASGGN 128

Query: 215 RRVNMFLEIEGAIESLYTLIKEP 237
            ++   ++  GA+ +L  L+  P
Sbjct: 129 EQIQAVIDA-GALPALVQLLSSP 150


>pdb|4DB9|A Chain A, Designed Armadillo Repeat Protein (Yiiim3aiii)
 pdb|4DB9|B Chain B, Designed Armadillo Repeat Protein (Yiiim3aiii)
 pdb|4DB9|C Chain C, Designed Armadillo Repeat Protein (Yiiim3aiii)
 pdb|4DB9|D Chain D, Designed Armadillo Repeat Protein (Yiiim3aiii)
 pdb|4DB9|E Chain E, Designed Armadillo Repeat Protein (Yiiim3aiii)
 pdb|4DB9|F Chain F, Designed Armadillo Repeat Protein (Yiiim3aiii)
          Length = 210

 Score = 27.7 bits (60), Expect = 9.6,   Method: Compositional matrix adjust.
 Identities = 22/111 (19%), Positives = 46/111 (41%), Gaps = 8/111 (7%)

Query: 127 RCIVDYGAVSVLAAAFESFSKTCLDEHVSVLEEILSTLTLLFPLAGEALTYLGSASSMHC 186
           + ++D GA+  L     S ++  L E +  L  I S          E +  +  A ++  
Sbjct: 48  QAVIDAGALPALVQLLSSPNEQILQEALWALSNIASG-------GNEQIQAVIDAGALPA 100

Query: 187 MVWFLKSGDLSRRRNTVLVLREVISSDHRRVNMFLEIEGAIESLYTLIKEP 237
           +V  L S +    +  +  L  + S  + ++   ++  GA+ +L  L+  P
Sbjct: 101 LVQLLSSPNEQILQEALWALSNIASGGNEQIQAVIDA-GALPALVQLLSSP 150


  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
   0.320    0.133    0.382 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,117,806
Number of Sequences: 62578
Number of extensions: 286345
Number of successful extensions: 713
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 707
Number of HSP's gapped (non-prelim): 17
length of query: 312
length of database: 14,973,337
effective HSP length: 99
effective length of query: 213
effective length of database: 8,778,115
effective search space: 1869738495
effective search space used: 1869738495
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: 51 (24.3 bits)