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= psy4188
         (98 letters)

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

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



>pdb|3MX6|A Chain A, Crystal Structure Of Methionine Aminopeptidase From
           Ricketts Prowazekii Bound To Methionine
 pdb|3MX6|B Chain B, Crystal Structure Of Methionine Aminopeptidase From
           Ricketts Prowazekii Bound To Methionine
          Length = 262

 Score = 28.5 bits (62), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 11/63 (17%)

Query: 17  DATAPEIKLTKEDLLISDIHSLVNSYRDT-------NFTGRSIARIFHGIPSPNFPAIVF 69
           DA    I++ +    + DI   + SY +        ++TG  I R+FH  PS     + +
Sbjct: 132 DAMMKGIEVVRPGAKLGDIGYAIQSYAEKHNYSVVRDYTGHGIGRVFHDKPS----ILNY 187

Query: 70  GRN 72
           GRN
Sbjct: 188 GRN 190


>pdb|3MR1|A Chain A, Crystal Structure Of Methionine Aminopeptidase From
           Ricketts Prowazekii
 pdb|3MR1|B Chain B, Crystal Structure Of Methionine Aminopeptidase From
           Ricketts Prowazekii
 pdb|3MR1|C Chain C, Crystal Structure Of Methionine Aminopeptidase From
           Ricketts Prowazekii
 pdb|3MR1|D Chain D, Crystal Structure Of Methionine Aminopeptidase From
           Ricketts Prowazekii
          Length = 252

 Score = 28.1 bits (61), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 11/63 (17%)

Query: 17  DATAPEIKLTKEDLLISDIHSLVNSYRDT-------NFTGRSIARIFHGIPSPNFPAIVF 69
           DA    I++ +    + DI   + SY +        ++TG  I R+FH  PS     + +
Sbjct: 132 DAMMKGIEVVRPGAKLGDIGYAIQSYAEKHNYSVVRDYTGHGIGRVFHDKPS----ILNY 187

Query: 70  GRN 72
           GRN
Sbjct: 188 GRN 190


>pdb|4GNV|A Chain A, Crystal Structure Of Beta-Hexosaminidase 1 From
          Burkholderia Cenocepacia J2315 With Bound
          N-Acetyl-D-Glucosamine
 pdb|4GNV|B Chain B, Crystal Structure Of Beta-Hexosaminidase 1 From
          Burkholderia Cenocepacia J2315 With Bound
          N-Acetyl-D-Glucosamine
          Length = 350

 Score = 26.6 bits (57), Expect = 4.3,   Method: Composition-based stats.
 Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 2/43 (4%)

Query: 8  RYFQDENDVDATAPEIKLTKEDLLISDIHS--LVNSYRDTNFT 48
          R+FQ+   + A    I+  +ED+LI+  H    V  +R   FT
Sbjct: 46 RHFQNRAQLTALTDSIRAVREDILIAVDHEGGRVQRFRTDGFT 88


>pdb|4G6C|A Chain A, Crystal Structure Of Beta-Hexosaminidase 1 From
          Burkholderia Cenocepacia J2315
 pdb|4G6C|B Chain B, Crystal Structure Of Beta-Hexosaminidase 1 From
          Burkholderia Cenocepacia J2315
          Length = 348

 Score = 26.6 bits (57), Expect = 4.3,   Method: Composition-based stats.
 Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 2/43 (4%)

Query: 8  RYFQDENDVDATAPEIKLTKEDLLISDIHS--LVNSYRDTNFT 48
          R+FQ+   + A    I+  +ED+LI+  H    V  +R   FT
Sbjct: 44 RHFQNRAQLTALTDSIRAVREDILIAVDHEGGRVQRFRTDGFT 86


  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
   0.325    0.140    0.420 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,010,562
Number of Sequences: 62578
Number of extensions: 116934
Number of successful extensions: 288
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 288
Number of HSP's gapped (non-prelim): 5
length of query: 98
length of database: 14,973,337
effective HSP length: 64
effective length of query: 34
effective length of database: 10,968,345
effective search space: 372923730
effective search space used: 372923730
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)