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= 028431
         (209 letters)

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

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



>pdb|1ZXU|A Chain A, X-Ray Structure Of Protein From Arabidopsis Thaliana
           At5g01750
 pdb|2Q4M|A Chain A, Ensemble Refinement Of The Crystal Structure Of Protein
           From Arabidopsis Thaliana At5g01750
          Length = 217

 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 47/191 (24%), Positives = 86/191 (45%), Gaps = 8/191 (4%)

Query: 6   AAVLVADEYIYKQETHLTVFKTSLFFQNDGFTVYNCRGELVFRVDSYGPDTRDKDEHVLM 65
             V+V  +Y         + +      +  F + +  G L+F+V    P     D+ VL+
Sbjct: 24  GGVVVDPKYCAPYPIDXAIVRKXXSLTDGNFVITDVNGNLLFKVKE--PVFGLHDKRVLL 81

Query: 66  DAHGKCLLTVRRKRPSLHHRWEGYSGERTDGQKPXXXXXXXXXXXXXXXXXEMY--ENPG 123
           D  G  ++T+R K  S H RW+ + G  TD Q+                  +++   N  
Sbjct: 82  DGSGTPVVTLREKXVSXHDRWQVFRGGSTD-QRDLLYTVKRSSXLQLKTKLDVFLGHNKD 140

Query: 124 E---EYQIEGNFWQRSCTIFNAMKESVAEIRRKVDASTQVLLAKDVFLLSVKPGFDGAFA 180
           E   +++++G++ +RSC ++    +++     +      V L KD F ++V P  D AF 
Sbjct: 141 EKRCDFRVKGSWLERSCVVYAGESDAIVAQXHRKHTVQSVFLGKDNFSVTVYPNVDYAFI 200

Query: 181 MGLVLVLDQIN 191
             LV++LD +N
Sbjct: 201 ASLVVILDDVN 211


>pdb|2WSK|A Chain A, Crystal Structure Of Glycogen Debranching Enzyme Glgx From
           Escherichia Coli K-12
          Length = 657

 Score = 28.5 bits (62), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 22/83 (26%), Positives = 36/83 (43%), Gaps = 5/83 (6%)

Query: 6   AAVLVADEYIYKQETHLTVFKTSLFFQNDGFTVYNCRGELVFRVDSYGPDTRDKDEHVLM 65
           A    A   ++K+   L     +L   +DGFT+ +C        ++ G + RD   +   
Sbjct: 415 AGRFAASSDVFKRNGRLPSAAINLVTAHDGFTLRDCVCFNHKHNEANGEENRDGTNNNYS 474

Query: 66  DAHGK-----CLLTVRRKRPSLH 83
           + HGK      L  V R+R S+H
Sbjct: 475 NNHGKEGLGGSLDLVERRRDSIH 497


>pdb|2GBC|A Chain A, Native Dpp-Iv (Cd26) From Rat
 pdb|2GBC|B Chain B, Native Dpp-Iv (Cd26) From Rat
 pdb|2GBF|A Chain A, Rat Dpp-Iv With Alkynyl Cyanopyrrolidine #1
 pdb|2GBF|B Chain B, Rat Dpp-Iv With Alkynyl Cyanopyrrolidine #1
 pdb|2GBG|A Chain A, Rat Dpp-Iv With Alkynyl Cyanopyrrolidine #2
 pdb|2GBG|B Chain B, Rat Dpp-Iv With Alkynyl Cyanopyrrolidine #2
 pdb|2GBI|A Chain A, Rat Dpp-Iv With Xanthine Inhibitor 4
 pdb|2GBI|B Chain B, Rat Dpp-Iv With Xanthine Inhibitor 4
 pdb|2I3Z|A Chain A, Rat Dpp-iv With Xanthine Mimetic Inhibitor #7
 pdb|2I3Z|B Chain B, Rat Dpp-iv With Xanthine Mimetic Inhibitor #7
 pdb|2OAE|A Chain A, Crystal Structure Of Rat Dipeptidyl Peptidase (Dppiv)
          With Thiazole-Based Peptide Mimetic #31
 pdb|2OAE|B Chain B, Crystal Structure Of Rat Dipeptidyl Peptidase (Dppiv)
          With Thiazole-Based Peptide Mimetic #31
 pdb|4FFV|A Chain A, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
          Dpp-Iv, Cd26) In Complex With 11a19 Fab
 pdb|4FFV|B Chain B, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
          Dpp-Iv, Cd26) In Complex With 11a19 Fab
 pdb|4FFW|A Chain A, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
          Dpp-Iv, Cd26) In Complex With Fab + Sitagliptin
 pdb|4FFW|B Chain B, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
          Dpp-Iv, Cd26) In Complex With Fab + Sitagliptin
          Length = 730

 Score = 26.6 bits (57), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 11/32 (34%), Positives = 20/32 (62%), Gaps = 5/32 (15%)

Query: 13 EYIYKQETHLTVF-----KTSLFFQNDGFTVY 39
          EY+YKQE ++ +F      +S+F +N  F ++
Sbjct: 28 EYLYKQENNILLFNAEHGNSSIFLENSTFEIF 59


  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    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,195,616
Number of Sequences: 62578
Number of extensions: 229702
Number of successful extensions: 375
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 373
Number of HSP's gapped (non-prelim): 3
length of query: 209
length of database: 14,973,337
effective HSP length: 94
effective length of query: 115
effective length of database: 9,091,005
effective search space: 1045465575
effective search space used: 1045465575
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: 49 (23.5 bits)