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= 018602
         (353 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 = 36.2 bits (82), Expect = 0.026,   Method: Compositional matrix adjust.
 Identities = 40/203 (19%), Positives = 79/203 (38%), Gaps = 13/203 (6%)

Query: 136 KITAACKSEDQTGGRDLVAKIKKWIKESERNKRCIVDYGAVSVLAAAFESFSKTCLDEHV 195
           ++T    S+D         K  + + +     + ++D GA+  L     S ++  L E +
Sbjct: 16  QMTQQLNSDDMQEQLSATRKFSQILSDGNEQIQAVIDAGALPALVQLLSSPNEQILQEAL 75

Query: 196 SVLEEILSTLTLLFPLAGEALTYLGSASSMHCMVWFLKSGDLSRRRNTVLVLREVISSDH 255
             L  I S          E +  +  A ++  +V  L S +    +  +  L  + S  +
Sbjct: 76  WALSNIASG-------GNEQIQAVIDAGALPALVQLLSSPNEQILQEALWALSNIASGGN 128

Query: 256 RRVNMFLEIEGAIESLYTLIKEPICPTATEASFVVVYHMITSASAADKPIQKFVDMGLVS 315
            ++   ++  GA+ +L  L+  P      EA    ++ +   AS  ++ IQ  +D G + 
Sbjct: 129 EQIQAVIDA-GALPALVQLLSSPNEQILQEA----LWALSNIASGGNEQIQAVIDAGALP 183

Query: 316 LLLETLVDAQRS-LCEKPWVFST 337
            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 = 7.4,   Method: Compositional matrix adjust.
 Identities = 13/40 (32%), Positives = 24/40 (60%)

Query: 128 VEVLEINSKITAACKSEDQTGGRDLVAKIKKWIKESERNK 167
           + VL+I+S +      ED+ G R LVA+++K +  ++  K
Sbjct: 139 IGVLDIDSTVFGRFTDEDEQGLRQLVAQLEKVLATTDYKK 178


  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
   0.321    0.133    0.388 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,102,528
Number of Sequences: 62578
Number of extensions: 326465
Number of successful extensions: 760
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: 754
Number of HSP's gapped (non-prelim): 17
length of query: 353
length of database: 14,973,337
effective HSP length: 100
effective length of query: 253
effective length of database: 8,715,537
effective search space: 2205030861
effective search space used: 2205030861
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)