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= psy12809
         (153 letters)

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

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



>pdb|3AIH|A Chain A, Human Os-9 Mrh Domain Complexed With Alpha3,Alpha6-Man5
 pdb|3AIH|B Chain B, Human Os-9 Mrh Domain Complexed With Alpha3,Alpha6-Man5
          Length = 124

 Score = 62.0 bits (149), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 42/130 (32%), Positives = 63/130 (48%), Gaps = 15/130 (11%)

Query: 23  PCSYRLESYWTYEVCHGRYVRQFH-EDRESKKEVKLQEYYLGRWDKTLNKLQDSPEGVMG 81
           PC  + + +WTYE C+GR+++Q+H ED E K EV    YY   +D      + S +  + 
Sbjct: 4   PCLLKTKDWWTYEFCYGRHIQQYHMEDSEIKGEVLYLGYYQSAFDWDDETAKASKQHRLK 63

Query: 82  FKKIEGIKLPYLEINMTDGTLCDLNGEPRETRVLYMCHS----TGRHDIYSLKETSTCKY 137
                     Y      +G+ CDLNG PRE  V ++C      +G + I  + E  +C Y
Sbjct: 64  ---------RYHSQTYGNGSKCDLNGRPREAEVRFLCDEGAGISGDY-IDRVDEPLSCSY 113

Query: 138 EVIILTSLLC 147
            + I T  LC
Sbjct: 114 VLTIRTPRLC 123


>pdb|4A4A|A Chain A, Cpgh89 (E483q, E601q), From Clostridium Perfringens, In
           Complex With Its Substrate Glcnac-Alpha-1,4-Galactose
          Length = 914

 Score = 29.6 bits (65), Expect = 0.66,   Method: Composition-based stats.
 Identities = 14/44 (31%), Positives = 22/44 (50%)

Query: 58  QEYYLGRWDKTLNKLQDSPEGVMGFKKIEGIKLPYLEINMTDGT 101
           ++YY  RW+K +N LQ   +G      I+  K+ Y  +N    T
Sbjct: 833 EDYYYARWEKWINGLQAELDGGAKAPNIDWFKMEYDWVNKKSDT 876


>pdb|2VC9|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
           In Complex With 2-Acetamido-1,2-Dideoxynojirmycin
 pdb|2VCA|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
           In Complex With Beta-N-Acetyl-D-Glucosamine
 pdb|2VCB|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
           In Complex With Pugnac
 pdb|2VCC|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
          Length = 891

 Score = 29.6 bits (65), Expect = 0.67,   Method: Composition-based stats.
 Identities = 14/44 (31%), Positives = 22/44 (50%)

Query: 58  QEYYLGRWDKTLNKLQDSPEGVMGFKKIEGIKLPYLEINMTDGT 101
           ++YY  RW+K +N LQ   +G      I+  K+ Y  +N    T
Sbjct: 810 EDYYYARWEKWINGLQAELDGGAKAPNIDWFKMEYDWVNKKSDT 853


  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    0.139    0.435 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,955,499
Number of Sequences: 62578
Number of extensions: 201604
Number of successful extensions: 313
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 309
Number of HSP's gapped (non-prelim): 4
length of query: 153
length of database: 14,973,337
effective HSP length: 90
effective length of query: 63
effective length of database: 9,341,317
effective search space: 588502971
effective search space used: 588502971
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: 47 (22.7 bits)