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= 016521
         (388 letters)

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

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



>pdb|1RW9|A Chain A, Crystal Structure Of The Arthrobacter Aurescens
           Chondroitin Ac Lyase
          Length = 757

 Score = 28.1 bits (61), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 20/73 (27%), Positives = 37/73 (50%), Gaps = 7/73 (9%)

Query: 288 QWSGALALGATSAISHVVLGQFKTCIILLGNYYIFGANPGTTSIC-GAFVAIV-GMSFYT 345
           +WSGA ALG  +A+   ++G  +T +    ++++     G  ++C GA ++   G    T
Sbjct: 473 EWSGATALGEVAAVGQHLVGPGRTGLTARKSWFV----SGDVTVCLGADISTASGAKVET 528

Query: 346 YLNLCNSKHQSSK 358
            ++  N  HQ S 
Sbjct: 529 IVDHRN-LHQGSN 540


>pdb|1RWA|A Chain A, Crystal Structure Of Arthrobacter Aurescens Chondroitin Ac
           Lyase
 pdb|1RWC|A Chain A, Crystal Structure Of Arthrobacter Aurescens Chondroitin Ac
           Lyase
 pdb|1RWF|A Chain A, Crystal Structure Of Arthrobacter Aurescens Chondroitin Ac
           Lyase In Complex With Chondroitin Tetrasaccharide
 pdb|1RWG|A Chain A, Crystal Structure Of Arthrobacter Aurescens Chondroitin Ac
           Lyase In Complex With Chondroitin Tetrasaccharide
 pdb|1RWH|A Chain A, Crystal Structure Of Arthrobacter Aurescens Chondroitin Ac
           Lyase In Complex With Chondroitin Tetrasaccharide
          Length = 757

 Score = 28.1 bits (61), Expect = 7.8,   Method: Compositional matrix adjust.
 Identities = 20/73 (27%), Positives = 37/73 (50%), Gaps = 7/73 (9%)

Query: 288 QWSGALALGATSAISHVVLGQFKTCIILLGNYYIFGANPGTTSIC-GAFVAIV-GMSFYT 345
           +WSGA ALG  +A+   ++G  +T +    ++++     G  ++C GA ++   G    T
Sbjct: 473 EWSGATALGEVAAVGQHLVGPGRTGLTARKSWFV----SGDVTVCLGADISTASGAKVET 528

Query: 346 YLNLCNSKHQSSK 358
            ++  N  HQ S 
Sbjct: 529 IVDHRN-LHQGSN 540


  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
   0.324    0.136    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,784,159
Number of Sequences: 62578
Number of extensions: 403159
Number of successful extensions: 778
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 776
Number of HSP's gapped (non-prelim): 5
length of query: 388
length of database: 14,973,337
effective HSP length: 101
effective length of query: 287
effective length of database: 8,652,959
effective search space: 2483399233
effective search space used: 2483399233
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)