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= 000667
         (1363 letters)

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

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



>pdb|1BQQ|M Chain M, Crystal Structure Of The Mt1-Mmp--Timp-2 Complex
 pdb|1BUV|M Chain M, Crystal Structure Of The Mt1-Mmp-Timp-2 Complex
          Length = 174

 Score = 33.1 bits (74), Expect = 1.0,   Method: Composition-based stats.
 Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 1/63 (1%)

Query: 1149 EVSANDAIREALSLYESMGDLRKQEAAYAYFQLAC-YQRDCFLKFLESDHKKNNLPKGEN 1207
            E +  +AIR+A  ++ES   LR +E  YAY +     Q D  + F E  H  +    GE 
Sbjct: 24   EYATYEAIRKAFRVWESATPLRFREVPYAYIREGHEKQADIMIFFAEGFHGDSTPFDGEG 83

Query: 1208 SFV 1210
             F+
Sbjct: 84   GFL 86


>pdb|3MA2|D Chain D, Complex Membrane Type-1 Matrix Metalloproteinase (Mt1-Mmp)
            With Tissue Inhibitor Of Metalloproteinase-1 (Timp-1)
 pdb|3MA2|A Chain A, Complex Membrane Type-1 Matrix Metalloproteinase (Mt1-Mmp)
            With Tissue Inhibitor Of Metalloproteinase-1 (Timp-1)
          Length = 181

 Score = 33.1 bits (74), Expect = 1.0,   Method: Composition-based stats.
 Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 1/63 (1%)

Query: 1149 EVSANDAIREALSLYESMGDLRKQEAAYAYFQLAC-YQRDCFLKFLESDHKKNNLPKGEN 1207
            E +  +AIR+A  ++ES   LR +E  YAY +     Q D  + F E  H  +    GE 
Sbjct: 26   EYATYEAIRKAFRVWESATPLRFREVPYAYIREGHEKQADIMIFFAEGFHGDSTPFDGEG 85

Query: 1208 SFV 1210
             F+
Sbjct: 86   GFL 88


>pdb|1QCX|A Chain A, Pectin Lyase B
          Length = 359

 Score = 32.0 bits (71), Expect = 2.7,   Method: Composition-based stats.
 Identities = 12/37 (32%), Positives = 20/37 (54%)

Query: 243 WDVARQVTPLTWLEAWLDNVMASVPELAICYHENGVV 279
           W  A Q      L +W DN  AS P++++ Y + G++
Sbjct: 66  WGTASQCQVAINLHSWCDNYQASAPKVSVTYDKAGIL 102


>pdb|1W07|A Chain A, Arabidopsis Thaliana Acyl-Coa Oxidase 1
 pdb|1W07|B Chain B, Arabidopsis Thaliana Acyl-Coa Oxidase 1
          Length = 659

 Score = 30.8 bits (68), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 16/42 (38%), Positives = 22/42 (52%)

Query: 914 SKVSTQVEFASRDKPKVKNGGIFKYLEDPVVGDAENNLSSAL 955
           SKV+ + E+   D PK    G   Y+   +V DA N LS A+
Sbjct: 259 SKVTREGEYVPSDVPKQLVYGTMVYVRQTIVADASNALSRAV 300


  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
   0.316    0.130    0.379 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 37,713,962
Number of Sequences: 62578
Number of extensions: 1478927
Number of successful extensions: 3403
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 3399
Number of HSP's gapped (non-prelim): 10
length of query: 1363
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1252
effective length of database: 8,027,179
effective search space: 10050028108
effective search space used: 10050028108
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (26.9 bits)