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= psy6173
         (137 letters)

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

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



>pdb|1HVX|A Chain A, Bacillus Stearothermophilus Alpha-Amylase
          Length = 515

 Score = 28.5 bits (62), Expect = 1.3,   Method: Composition-based stats.
 Identities = 13/32 (40%), Positives = 16/32 (50%)

Query: 82  KGHARLGVKHTDSKDKEPSKALLKSVSPGFQP 113
           K    L V   D+ D EP +AL   V P F+P
Sbjct: 317 KDQPTLAVTFVDNHDTEPGQALQSWVDPWFKP 348


>pdb|2OSW|A Chain A, Endo-Glycoceramidase Ii From Rhodococcus Sp.
 pdb|2OSW|B Chain B, Endo-Glycoceramidase Ii From Rhodococcus Sp.
 pdb|2OYK|A Chain A, Endo-Glycoceramidase Ii From Rhodococcus Sp.:
           Cellobiose-Like Isofagomine Complex
 pdb|2OYK|B Chain B, Endo-Glycoceramidase Ii From Rhodococcus Sp.:
           Cellobiose-Like Isofagomine Complex
 pdb|2OYL|A Chain A, Endo-Glycoceramidase Ii From Rhodococcus Sp.:
           Cellobiose-Like Imidazole Complex
 pdb|2OYL|B Chain B, Endo-Glycoceramidase Ii From Rhodococcus Sp.:
           Cellobiose-Like Imidazole Complex
 pdb|2OYM|A Chain A, Endo-Glycoceramidase Ii From Rhodococcus Sp.:
           Five-Membered Iminocyclitol Complex
 pdb|2OYM|B Chain B, Endo-Glycoceramidase Ii From Rhodococcus Sp.:
           Five-Membered Iminocyclitol Complex
          Length = 481

 Score = 28.1 bits (61), Expect = 1.5,   Method: Composition-based stats.
 Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 4/43 (9%)

Query: 23  DDPRLAVKKICFCPVTGTLLIAGTAGHVILAKLSTKTSTDVTV 65
           DDPR   ++I +CP    L +    GH  LA    +T TDVT+
Sbjct: 281 DDPRAGQQRIAYCPHLYPLPLDIGDGHEGLA----RTLTDVTI 319


>pdb|2OSY|A Chain A, Endo-Glycoceramidase Ii From Rhodococcus Sp.: Lactosyl-
           Enzyme Intermediate
 pdb|2OSY|B Chain B, Endo-Glycoceramidase Ii From Rhodococcus Sp.: Lactosyl-
           Enzyme Intermediate
          Length = 481

 Score = 28.1 bits (61), Expect = 1.5,   Method: Composition-based stats.
 Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 4/43 (9%)

Query: 23  DDPRLAVKKICFCPVTGTLLIAGTAGHVILAKLSTKTSTDVTV 65
           DDPR   ++I +CP    L +    GH  LA    +T TDVT+
Sbjct: 281 DDPRAGQQRIAYCPHLYPLPLDIGDGHEGLA----RTLTDVTI 319


>pdb|2OSX|A Chain A, Endo-glycoceramidase Ii From Rhodococcus Sp.: Ganglioside
           Gm3 Complex
          Length = 481

 Score = 28.1 bits (61), Expect = 1.6,   Method: Composition-based stats.
 Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 4/43 (9%)

Query: 23  DDPRLAVKKICFCPVTGTLLIAGTAGHVILAKLSTKTSTDVTV 65
           DDPR   ++I +CP    L +    GH  LA    +T TDVT+
Sbjct: 281 DDPRAGQQRIAYCPHLYPLPLDIGDGHEGLA----RTLTDVTI 319


  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
   0.317    0.132    0.403 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,909,861
Number of Sequences: 62578
Number of extensions: 128051
Number of successful extensions: 232
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 228
Number of HSP's gapped (non-prelim): 10
length of query: 137
length of database: 14,973,337
effective HSP length: 89
effective length of query: 48
effective length of database: 9,403,895
effective search space: 451386960
effective search space used: 451386960
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: 46 (22.3 bits)