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= 007744
         (591 letters)

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

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



>pdb|3DEC|A Chain A, Crystal Structure Of A Glycosyl Hydrolases Family 2
           Protein From Bacteroides Thetaiotaomicron
          Length = 1000

 Score = 32.3 bits (72), Expect = 0.68,   Method: Compositional matrix adjust.
 Identities = 28/113 (24%), Positives = 48/113 (42%), Gaps = 14/113 (12%)

Query: 245 LTDQFVHERLTDERYQAGVMELEQHINSSGNLDAVTSVTLKDGT---------KIRAPES 295
           + D  V   L  E Y+ G+ ELE  +  + +  +  + TLKD +         K+ +  S
Sbjct: 224 IADYKVTSLLEKEHYKEGIFELEVAVGGTASGTSSIAYTLKDASDKTVLEGSRKLESHGS 283

Query: 296 ARIAYDDEPRLMLLQEWNLFDSMLCSSYIATKLKTWSDNGMKKLKLLLARMGF 348
             +   DE RL  ++ WN     L +  +  K     D G K  ++   ++GF
Sbjct: 284 GNLIVFDEQRLPDVRRWNAEHPELYTLLLELK-----DAGGKVTEITGTKVGF 331


>pdb|2AJQ|A Chain A, Structure Of Replicative Dna Polymerase Provides Insigts
           Into The Mechanisms For Processivity, Frameshifting And
           Editing
 pdb|2AJQ|F Chain F, Structure Of Replicative Dna Polymerase Provides Insigts
           Into The Mechanisms For Processivity, Frameshifting And
           Editing
          Length = 704

 Score = 29.6 bits (65), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 26/99 (26%), Positives = 43/99 (43%), Gaps = 3/99 (3%)

Query: 282 VTLKDGTKIRAPESARIAYDDEPRLMLLQEWNLFDSMLCSSYIATKLKTWSDNGMKKLKL 341
           +   +G K   P   ++A     R   L   N  D+++ S  I + LK      ++  KL
Sbjct: 56  IVFHNGHKYDVPALTKLAKLQLNREFHLPRENCIDTLVLSRLIHSNLKDTDMGLLRSGKL 115

Query: 342 LLARMGFALVDCQQKFQYMNLEVKRKMKDEFERFLPEYG 380
              R G   ++    + Y   E+K + KD+F+R L E G
Sbjct: 116 PGKRFGSHALEA---WGYRLGEMKGEYKDDFKRMLEEQG 151


>pdb|4A42|A Chain A, Cpgh89cbm32-6 Produced By Clostridium Perfringens
 pdb|4A42|B Chain B, Cpgh89cbm32-6 Produced By Clostridium Perfringens
          Length = 149

 Score = 29.3 bits (64), Expect = 6.3,   Method: Composition-based stats.
 Identities = 21/72 (29%), Positives = 33/72 (45%), Gaps = 5/72 (6%)

Query: 86  LINWGSHRDLKRVLNLGPKARVFVVDSHRPIHLHNLSDGNDNVVVLYTPDDEQQADLAYD 145
           L+  GSH   +   NL  K    V  +      +NL DGN+N   L+ P  E++  + +D
Sbjct: 14  LVPRGSHXASE---NLAXKDETKVEVTSNNSEANNLRDGNEN--TLWVPGQEEEKSVTFD 68

Query: 146 FNVSALAHAIDL 157
            +      AID+
Sbjct: 69  LSKEKDISAIDI 80


  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    0.135    0.398 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,234,047
Number of Sequences: 62578
Number of extensions: 636169
Number of successful extensions: 1288
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1288
Number of HSP's gapped (non-prelim): 5
length of query: 591
length of database: 14,973,337
effective HSP length: 104
effective length of query: 487
effective length of database: 8,465,225
effective search space: 4122564575
effective search space used: 4122564575
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: 54 (25.4 bits)