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= 006760
         (632 letters)

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

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



>pdb|2DMC|A Chain A, Solution Structure Of The 18th Filamin Domain From Human
           Filamin-B
          Length = 116

 Score = 33.1 bits (74), Expect = 0.51,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 9/63 (14%)

Query: 276 RYCQQIEQGSWAVVNVSYDSPQFSSQCQSHRFPSG----CLIQDLPNGYSKVTWV----- 326
           R C Q++ GS A   +       SS   S + PSG    CL++ LPN +  ++++     
Sbjct: 22  RRCSQVKLGSAADFLLDISETDLSSLTASIKAPSGRDEPCLLKRLPNNHIGISFIPREVG 81

Query: 327 EHL 329
           EHL
Sbjct: 82  EHL 84


>pdb|3PQS|A Chain A, The Crystal Structures Of Porcine Pathogen Aph87_tbpb
          Length = 521

 Score = 29.6 bits (65), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 4/55 (7%)

Query: 42 PPVTEDSYFDEQKLRMENAQLKEELDRVSSIAAKYIGRPISQLPPVQPIHISSLD 96
          P  T+ +Y DE+  + +    KEELD++   A  Y+ +    +P V+   IS +D
Sbjct: 14 PEKTKVNYTDEETQKRK----KEELDKLMEPALGYVTKIPVNIPSVRKTEISEID 64


>pdb|1PJ5|A Chain A, Crystal Structure Of Dimethylglycine Oxidase Of
           Arthrobacter Globiformis In Complex With Acetate
 pdb|1PJ6|A Chain A, Crystal Structure Of Dimethylglycine Oxidase Of
           Arthrobacter Globiformis In Complex With Folic Acid
 pdb|1PJ7|A Chain A, Structure Of Dimethylglycine Oxidase Of Arthrobacter
           Globiformis In Complex With Folinic Acid
          Length = 830

 Score = 28.9 bits (63), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 38/74 (51%), Gaps = 5/74 (6%)

Query: 380 LGGVIPSPDGKRSMMKLAQRMVSSFCTSISTSNRHRG-TTISGLNEVGVRVTLHKSMDPG 438
           LGG+    DG  S  +  Q ++     + S    +RG TT++G+ + G RVT  ++ D  
Sbjct: 137 LGGLHVPSDGLASAARAVQLLIKR---TESAGVTYRGSTTVTGIEQSGGRVTGVQTADGV 193

Query: 439 QPNGVVLNAATTFW 452
            P  +V++ A  FW
Sbjct: 194 IPADIVVSCA-GFW 206


>pdb|3GSI|A Chain A, Crystal Structure Of D552a Dimethylglycine Oxidase Mutant
           Of Arthrobacter Globiformis In Complex With
           Tetrahydrofolate
          Length = 827

 Score = 28.9 bits (63), Expect = 9.5,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 38/74 (51%), Gaps = 5/74 (6%)

Query: 380 LGGVIPSPDGKRSMMKLAQRMVSSFCTSISTSNRHRG-TTISGLNEVGVRVTLHKSMDPG 438
           LGG+    DG  S  +  Q ++     + S    +RG TT++G+ + G RVT  ++ D  
Sbjct: 134 LGGLHVPSDGLASAARAVQLLIKR---TESAGVTYRGSTTVTGIEQSGGRVTGVQTADGV 190

Query: 439 QPNGVVLNAATTFW 452
            P  +V++ A  FW
Sbjct: 191 IPADIVVSCA-GFW 203


  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
   0.318    0.132    0.393 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,471,919
Number of Sequences: 62578
Number of extensions: 686821
Number of successful extensions: 1800
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1800
Number of HSP's gapped (non-prelim): 8
length of query: 632
length of database: 14,973,337
effective HSP length: 105
effective length of query: 527
effective length of database: 8,402,647
effective search space: 4428194969
effective search space used: 4428194969
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)