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= 041340
         (236 letters)

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

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



>pdb|3PLS|A Chain A, Ron In Complex With Ligand Amp-Pnp
          Length = 298

 Score = 30.4 bits (67), Expect = 0.79,   Method: Compositional matrix adjust.
 Identities = 23/122 (18%), Positives = 51/122 (41%), Gaps = 15/122 (12%)

Query: 120 LLHGCHHKHPMDGLRLVFPPAATAVLLLPFW---KVLSLVSTPTTTPAL-----FGGGLL 171
           L+ G +H + +  + ++ PP     +LLP+     +L  + +P   P +     FG  + 
Sbjct: 75  LMRGLNHPNVLALIGIMLPPEGLPHVLLPYMCHGDLLQFIRSPQRNPTVKDLISFGLQVA 134

Query: 172 GYVMYDVTHYYLHHGQPSSEVPKNLKKYHLNHHFRIQNKGFGITSSLWDRVFGTLPQTKA 231
             + Y     ++H    +       +   L+  F ++   FG+   + DR + ++ Q + 
Sbjct: 135 RGMEYLAEQKFVHRDLAA-------RNCMLDESFTVKVADFGLARDILDREYYSVQQHRH 187

Query: 232 AE 233
           A 
Sbjct: 188 AR 189


>pdb|4E36|A Chain A, Crystal Structure Of The Human Endoplasmic Reticulum
           Aminopeptidase 2 Variant N392k
 pdb|4E36|B Chain B, Crystal Structure Of The Human Endoplasmic Reticulum
           Aminopeptidase 2 Variant N392k
          Length = 967

 Score = 30.4 bits (67), Expect = 0.80,   Method: Compositional matrix adjust.
 Identities = 19/68 (27%), Positives = 37/68 (54%), Gaps = 8/68 (11%)

Query: 160 TTTPALFGGGLLGYVMYDVTHYYLHHGQPSSEVPKNLKKYHLNHHFR--IQNKGFGITSS 217
           T++PAL  G     + Y  + Y++   +  S++ +NLK+Y L  +F+  I  + +    S
Sbjct: 691 TSSPALLEG-----LSYLESFYHMMDRRNISDISENLKRYLL-QYFKPVIDRQSWSDKGS 744

Query: 218 LWDRVFGT 225
           +WDR+  +
Sbjct: 745 VWDRMLRS 752


>pdb|3SE6|A Chain A, Crystal Structure Of The Human Endoplasmic Reticulum
           Aminopeptidase 2
 pdb|3SE6|B Chain B, Crystal Structure Of The Human Endoplasmic Reticulum
           Aminopeptidase 2
          Length = 967

 Score = 30.4 bits (67), Expect = 0.81,   Method: Compositional matrix adjust.
 Identities = 19/68 (27%), Positives = 37/68 (54%), Gaps = 8/68 (11%)

Query: 160 TTTPALFGGGLLGYVMYDVTHYYLHHGQPSSEVPKNLKKYHLNHHFR--IQNKGFGITSS 217
           T++PAL  G     + Y  + Y++   +  S++ +NLK+Y L  +F+  I  + +    S
Sbjct: 691 TSSPALLEG-----LSYLESFYHMMDRRNISDISENLKRYLL-QYFKPVIDRQSWSDKGS 744

Query: 218 LWDRVFGT 225
           +WDR+  +
Sbjct: 745 VWDRMLRS 752


>pdb|1QDL|A Chain A, The Crystal Structure Of Anthranilate Synthase From
           Sulfolobus Solfataricus
          Length = 422

 Score = 28.9 bits (63), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 11/31 (35%), Positives = 20/31 (64%), Gaps = 2/31 (6%)

Query: 163 PALFGGGLLGYVMYDVTHYY--LHHGQPSSE 191
           P LF GG++GY+ YD   ++  +   +P++E
Sbjct: 76  PGLFKGGMIGYISYDAVRFWEKIRDLKPAAE 106


>pdb|2W82|A Chain A, The Structure Of Arda
 pdb|2W82|B Chain B, The Structure Of Arda
 pdb|2W82|C Chain C, The Structure Of Arda
 pdb|2W82|D Chain D, The Structure Of Arda
          Length = 165

 Score = 27.3 bits (59), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 11/25 (44%), Positives = 14/25 (56%)

Query: 175 MYDVTHYYLHHGQPSSEVPKNLKKY 199
           MYDV  YY+       EVP +L+ Y
Sbjct: 113 MYDVARYYIEETGALGEVPASLQNY 137


  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
   0.327    0.141    0.477 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,983,072
Number of Sequences: 62578
Number of extensions: 342891
Number of successful extensions: 847
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 839
Number of HSP's gapped (non-prelim): 23
length of query: 236
length of database: 14,973,337
effective HSP length: 96
effective length of query: 140
effective length of database: 8,965,849
effective search space: 1255218860
effective search space used: 1255218860
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 50 (23.9 bits)