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= psy1571
         (164 letters)

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

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



>pdb|1YOE|A Chain A, Crystal Structure Of A The E. Coli Pyrimidine Nucleoside
           Hydrolase Ybek With Bound Ribose
          Length = 322

 Score = 28.1 bits (61), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 9/27 (33%), Positives = 16/27 (59%)

Query: 86  VNYPIHEKCFITFILTSEVYMIVTCWI 112
           V  P+H+ C I ++L  E++  V  W+
Sbjct: 246 VGAPLHDPCTIAWLLKPELFTSVERWV 272


>pdb|3G5I|A Chain A, Crystal Structure Of The E.Coli Riha Pyrimidine
           Nucleosidase Bound To A Iminoribitol-Based Inhibitor
 pdb|3G5I|B Chain B, Crystal Structure Of The E.Coli Riha Pyrimidine
           Nucleosidase Bound To A Iminoribitol-Based Inhibitor
 pdb|3G5I|C Chain C, Crystal Structure Of The E.Coli Riha Pyrimidine
           Nucleosidase Bound To A Iminoribitol-Based Inhibitor
 pdb|3G5I|D Chain D, Crystal Structure Of The E.Coli Riha Pyrimidine
           Nucleosidase Bound To A Iminoribitol-Based Inhibitor
          Length = 312

 Score = 28.1 bits (61), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 9/27 (33%), Positives = 16/27 (59%)

Query: 86  VNYPIHEKCFITFILTSEVYMIVTCWI 112
           V  P+H+ C I ++L  E++  V  W+
Sbjct: 236 VGAPLHDPCTIAWLLKPELFTSVERWV 262


>pdb|1U60|A Chain A, Mcsg Apc5046 Probable Glutaminase Ybas
 pdb|1U60|B Chain B, Mcsg Apc5046 Probable Glutaminase Ybas
 pdb|1U60|C Chain C, Mcsg Apc5046 Probable Glutaminase Ybas
 pdb|1U60|D Chain D, Mcsg Apc5046 Probable Glutaminase Ybas
          Length = 310

 Score = 26.6 bits (57), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 22/84 (26%), Positives = 37/84 (44%), Gaps = 10/84 (11%)

Query: 40  IIYLLAYQEY-YREVLKRRSLYLAQIAALLNIIEIVSLLALTLVPSAVNYPIHEKCF--- 95
           I +LL    Y Y + ++   +Y  Q + LLN IE+ +L A TL    VN   H++     
Sbjct: 171 IAWLLYSAGYLYCDAMEACDVYTRQCSTLLNTIELATLGA-TLAAGGVNPLTHKRVLQAD 229

Query: 96  -----ITFILTSEVYMIVTCWIYK 114
                +  ++   +Y     W Y+
Sbjct: 230 NVPYILAEMMMEGLYGRSGDWAYR 253


  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
   0.329    0.142    0.432 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,353,550
Number of Sequences: 62578
Number of extensions: 145261
Number of successful extensions: 302
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 300
Number of HSP's gapped (non-prelim): 4
length of query: 164
length of database: 14,973,337
effective HSP length: 91
effective length of query: 73
effective length of database: 9,278,739
effective search space: 677347947
effective search space used: 677347947
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: 47 (22.7 bits)