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= psy12509
         (194 letters)

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

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



>pdb|3RCE|A Chain A, Bacterial Oligosaccharyltransferase Pglb
          Length = 724

 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 23/83 (27%), Positives = 47/83 (56%), Gaps = 1/83 (1%)

Query: 93  WLLNI-TIDIRNVCVFLAPFFSSLTTIVTYLLTKEVKDTGSGLVAAAMISIVPGYISRSV 151
           WL +I      ++ ++++ FF+SL  +   L+ +E K T  G +AA + SI   Y +R++
Sbjct: 90  WLYSILPFSFESIILYMSTFFASLIVVPIILIAREYKLTTYGFIAALLGSIANSYYNRTM 149

Query: 152 AGSYDNEAIAIFCMLLTYYSWIK 174
           +G YD + + +   +L   ++I+
Sbjct: 150 SGYYDTDMLVLVLPMLILLTFIR 172


>pdb|4AEF|A Chain A, The Crystal Structure Of Thermostable Amylase From The
           Pyrococcus
 pdb|4AEF|B Chain B, The Crystal Structure Of Thermostable Amylase From The
           Pyrococcus
          Length = 645

 Score = 26.9 bits (58), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 26/99 (26%), Positives = 39/99 (39%), Gaps = 15/99 (15%)

Query: 25  FSVLRFESVIHEFDPYFNYRTTKFLVEEGYYKFHNWFDDRAWYPL-------GRIIGGTI 77
           F VL  E    E   Y  ++   F +E     F  W  DR +Y +        R I G  
Sbjct: 176 FEVLTMEGAKFE---YGQFKARPFSIE-----FPTWVIDRVFYQIMPDKFARSRKIQGIA 227

Query: 78  YPGLMVTSAVLYHLMWLLNITIDIRNVCVFLAPFFSSLT 116
           YP        L  +   ++  +++    ++L P FSSLT
Sbjct: 228 YPKDKYWGGDLIGIKEKIDHLVNLGINAIYLTPIFSSLT 266


  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
   0.328    0.140    0.440 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,706,102
Number of Sequences: 62578
Number of extensions: 218751
Number of successful extensions: 443
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 439
Number of HSP's gapped (non-prelim): 15
length of query: 194
length of database: 14,973,337
effective HSP length: 94
effective length of query: 100
effective length of database: 9,091,005
effective search space: 909100500
effective search space used: 909100500
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 49 (23.5 bits)