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= psy3963
         (128 letters)

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

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



>pdb|2GEZ|A Chain A, Crystal Structure Of Potassium-Independent Plant
           Asparaginase
 pdb|2GEZ|C Chain C, Crystal Structure Of Potassium-Independent Plant
           Asparaginase
 pdb|2GEZ|E Chain E, Crystal Structure Of Potassium-Independent Plant
           Asparaginase
 pdb|2GEZ|G Chain G, Crystal Structure Of Potassium-Independent Plant
           Asparaginase
          Length = 195

 Score = 29.6 bits (65), Expect = 0.43,   Method: Compositional matrix adjust.
 Identities = 15/53 (28%), Positives = 21/53 (39%)

Query: 40  VVRSYTMESTYCGFDQGSFKIGTKESMKIVRGLIEFCTRVLKKTPYFYCDFHG 92
           +  S T+E      D  + K G    +  V   I     V+ KTP+ Y  F G
Sbjct: 76  LTNSGTVEMEASIMDGNTMKCGAVSGLSTVLNPISLARLVMDKTPHIYLAFQG 128


>pdb|1PZ7|A Chain A, Modulation Of Agrin Function By Alternative Splicing And
          Ca2+ Binding
 pdb|1PZ7|B Chain B, Modulation Of Agrin Function By Alternative Splicing And
          Ca2+ Binding
          Length = 204

 Score = 27.7 bits (60), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 1/49 (2%)

Query: 16 KSSHYKIERSKESTARITIWREYGVVRS-YTMESTYCGFDQGSFKIGTK 63
          +S+H+++    E+T  + +W   G+ RS Y   +   GF Q  + +G+K
Sbjct: 48 QSNHFELSIKTEATQGLILWSGKGLERSDYIALAIVDGFVQMMYDLGSK 96


>pdb|1PZ8|A Chain A, Modulation Of Agrin Function By Alternative Splicing And
          Ca2+ Binding
 pdb|1PZ8|B Chain B, Modulation Of Agrin Function By Alternative Splicing And
          Ca2+ Binding
 pdb|1PZ8|C Chain C, Modulation Of Agrin Function By Alternative Splicing And
          Ca2+ Binding
 pdb|1PZ8|D Chain D, Modulation Of Agrin Function By Alternative Splicing And
          Ca2+ Binding
 pdb|1PZ9|A Chain A, Modulation Of Agrin Function By Alternative Splicing And
          Ca2+ Binding
 pdb|1PZ9|B Chain B, Modulation Of Agrin Function By Alternative Splicing And
          Ca2+ Binding
          Length = 201

 Score = 27.7 bits (60), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 1/49 (2%)

Query: 16 KSSHYKIERSKESTARITIWREYGVVRS-YTMESTYCGFDQGSFKIGTK 63
          +S+H+++    E+T  + +W   G+ RS Y   +   GF Q  + +G+K
Sbjct: 45 QSNHFELSIKTEATQGLILWSGKGLERSDYIALAIVDGFVQMMYDLGSK 93


>pdb|1Q56|A Chain A, Nmr Structure Of The B0 Isoform Of The Agrin G3 Domain
          In Its Ca2+ Bound State
          Length = 195

 Score = 27.3 bits (59), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 1/49 (2%)

Query: 16 KSSHYKIERSKESTARITIWREYGVVRS-YTMESTYCGFDQGSFKIGTK 63
          +S+H+++    E+T  + +W   G+ RS Y   +   GF Q  + +G+K
Sbjct: 39 QSNHFELSIKTEATQGLILWSGKGLERSDYIALAIVDGFVQMMYDLGSK 87


  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
   0.323    0.136    0.421 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,763,398
Number of Sequences: 62578
Number of extensions: 133912
Number of successful extensions: 218
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 216
Number of HSP's gapped (non-prelim): 5
length of query: 128
length of database: 14,973,337
effective HSP length: 87
effective length of query: 41
effective length of database: 9,529,051
effective search space: 390691091
effective search space used: 390691091
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)