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= psy12376
         (89 letters)

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

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



>pdb|3R2V|A Chain A, Crystal Structure Of Polymerase Basic Protein 2 E538-R753
           From Influenza A Virus AYOKOHAMA201703 H3N2
          Length = 216

 Score = 26.6 bits (57), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 12/27 (44%), Positives = 19/27 (70%), Gaps = 1/27 (3%)

Query: 25  RGNLTVYNH-MTSKRVPVLGKHTNTIV 50
           RGN  V+N+  T+KR+ +LGK   T++
Sbjct: 113 RGNSPVFNYNKTTKRLTILGKDAGTLI 139


>pdb|2VY6|A Chain A, Two Domains From The C-Terminal Region Of Influenza A
           Virus Polymerase Pb2 Subunit
          Length = 217

 Score = 26.6 bits (57), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 12/27 (44%), Positives = 19/27 (70%), Gaps = 1/27 (3%)

Query: 25  RGNLTVYNH-MTSKRVPVLGKHTNTIV 50
           RGN  V+N+  T+KR+ +LGK   T++
Sbjct: 114 RGNSPVFNYNKTTKRLTILGKDAGTLI 140


>pdb|2VY8|A Chain A, The 627-Domain From Influenza A Virus Polymerase Pb2
           Subunit With Glu-627
          Length = 157

 Score = 26.6 bits (57), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 12/27 (44%), Positives = 19/27 (70%), Gaps = 1/27 (3%)

Query: 25  RGNLTVYNH-MTSKRVPVLGKHTNTIV 50
           RGN  V+N+  T+KR+ +LGK   T++
Sbjct: 114 RGNSPVFNYNKTTKRLTILGKDAGTLI 140


>pdb|2VY7|A Chain A, The 627-Domain From Influenza A Virus Polymerase Pb2
           Subunit
          Length = 157

 Score = 26.6 bits (57), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 12/27 (44%), Positives = 19/27 (70%), Gaps = 1/27 (3%)

Query: 25  RGNLTVYNH-MTSKRVPVLGKHTNTIV 50
           RGN  V+N+  T+KR+ +LGK   T++
Sbjct: 114 RGNSPVFNYNKTTKRLTILGKDAGTLI 140


>pdb|3O5A|A Chain A, Crystal Structure Of Partially Reduced Periplasmic Nitrate
           Reductase From Cupriavidus Necator Using Ionic Liquids
          Length = 802

 Score = 25.4 bits (54), Expect = 8.4,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 29/60 (48%), Gaps = 2/60 (3%)

Query: 22  GTARGNLTVYN-HMTSKRVPVLGKHTNTIVGQVLAIGTARGNLTVYNHMTSKRVPVLGKH 80
           GT   N+ VYN H+ + ++   G    ++ GQ  A GTAR   T  + + +  V    KH
Sbjct: 354 GTWANNM-VYNLHLLTGKIATPGNSPFSLTGQPSACGTAREVGTFSHRLPADMVVTNPKH 412


>pdb|3ML1|A Chain A, Crystal Structure Of The Periplasmic Nitrate Reductase
           From Cupriavidus Necator
          Length = 802

 Score = 25.4 bits (54), Expect = 8.4,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 29/60 (48%), Gaps = 2/60 (3%)

Query: 22  GTARGNLTVYN-HMTSKRVPVLGKHTNTIVGQVLAIGTARGNLTVYNHMTSKRVPVLGKH 80
           GT   N+ VYN H+ + ++   G    ++ GQ  A GTAR   T  + + +  V    KH
Sbjct: 354 GTWANNM-VYNLHLLTGKIATPGNSPFSLTGQPSACGTAREVGTFSHRLPADMVVTNPKH 412


  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
   0.318    0.131    0.371 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,394,809
Number of Sequences: 62578
Number of extensions: 76895
Number of successful extensions: 152
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 149
Number of HSP's gapped (non-prelim): 7
length of query: 89
length of database: 14,973,337
effective HSP length: 56
effective length of query: 33
effective length of database: 11,468,969
effective search space: 378475977
effective search space used: 378475977
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)