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= psy5439
         (381 letters)

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

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



>pdb|2NZW|A Chain A, Crystal Structure Of Alpha1,3-Fucosyltransferase
 pdb|2NZW|B Chain B, Crystal Structure Of Alpha1,3-Fucosyltransferase
 pdb|2NZW|C Chain C, Crystal Structure Of Alpha1,3-Fucosyltransferase
 pdb|2NZX|A Chain A, Crystal Structure Of Alpha1,3-Fucosyltransferase With Gdp
 pdb|2NZX|B Chain B, Crystal Structure Of Alpha1,3-Fucosyltransferase With Gdp
 pdb|2NZX|C Chain C, Crystal Structure Of Alpha1,3-Fucosyltransferase With Gdp
 pdb|2NZY|A Chain A, Crystal Structure Of Alpha1,3-Fucosyltransferase With Gdp-
           Fucose
 pdb|2NZY|B Chain B, Crystal Structure Of Alpha1,3-Fucosyltransferase With Gdp-
           Fucose
 pdb|2NZY|C Chain C, Crystal Structure Of Alpha1,3-Fucosyltransferase With Gdp-
           Fucose
          Length = 371

 Score = 35.4 bits (80), Expect = 0.055,   Method: Compositional matrix adjust.
 Identities = 26/78 (33%), Positives = 40/78 (51%), Gaps = 3/78 (3%)

Query: 249 TKYKFYLAFENSNCVDYITEKLYINGLSHNVLPIVMGARPEDYKKAAPMNSYIHVDDFPS 308
           ++YKF L FEN+    Y+TEK+     SH + PI  G+ P   K   P  S+++V DF +
Sbjct: 230 SQYKFNLCFENTQGYGYVTEKIIDAYFSHTI-PIYWGS-PSVAKDFNP-KSFVNVHDFKN 286

Query: 309 AKHLAEYLNKLDANDTLY 326
                +Y+  L  +   Y
Sbjct: 287 FDEAIDYIKYLHTHKNAY 304


>pdb|3PDF|A Chain A, Discovery Of Novel Cyanamide-Based Inhibitors Of Cathepsin
           C
          Length = 441

 Score = 30.4 bits (67), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 35/169 (20%), Positives = 66/169 (39%), Gaps = 13/169 (7%)

Query: 68  PKEDPGQDRIVNQLMYVPNNYDSKNVKKILLFNALTSWNVKLGS--SMFSNCPVNA-CAL 124
           PK  P    I  +++++P ++D +NV  I   + + +     GS  S  S   + A   +
Sbjct: 191 PKPAPLTAEIQQKILFLPTSWDWRNVHGINFVSPVRN-QASCGSCYSFASMGMLEARIRI 249

Query: 125 TTNKAESPFVWALYFLECPYHTQHVAHNDVFNWTATYRSDSDIVT----PYEKWVYYDDR 180
            TN +++P +     + C  + Q       +     Y  D  +V     PY       D 
Sbjct: 250 LTNNSQTPILSPQEVVSCSQYAQGCEGGFPYLIAGKYAQDFGLVEEACFPYTG----TDS 305

Query: 181 HKQMPLDKMKNYAANKTHKVAWFVSNCGAKNNRLQYAHELGKYIEVDIY 229
             +M  D  + Y++ + H V  F   C     +L+  H     +  ++Y
Sbjct: 306 PCKMKEDCFRYYSS-EYHYVGGFYGGCNEALMKLELVHHGPMAVAFEVY 353


  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    0.134    0.437 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,105,292
Number of Sequences: 62578
Number of extensions: 592941
Number of successful extensions: 1137
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1131
Number of HSP's gapped (non-prelim): 9
length of query: 381
length of database: 14,973,337
effective HSP length: 101
effective length of query: 280
effective length of database: 8,652,959
effective search space: 2422828520
effective search space used: 2422828520
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)