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= psy931
         (108 letters)

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

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



>pdb|2WAE|A Chain A, Penicillin-Binding Protein 2b (Pbp-2b) From Streptococcus
           Pneumoniae (Strain 5204)
          Length = 680

 Score = 26.6 bits (57), Expect = 3.7,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 4/65 (6%)

Query: 12  FPPESLGTMIPKSGGDYAYINEAFGPLPAFLYMWVALFVIMPTGNAVTALTFAQYILQPI 71
            P ES G ++PK      +I  AFG    +  M +A +V     N V     A +I++ I
Sbjct: 495 LPDESTG-LVPKEYNFANFITNAFGQFDNYTPMQLAQYVATIANNGV---RLAPHIVEGI 550

Query: 72  WPHCD 76
           + + D
Sbjct: 551 YDNND 555


>pdb|2WAD|A Chain A, Penicillin-Binding Protein 2b (Pbp-2b) From Streptococcus
           Pneumoniae (Strain 5204)
 pdb|2WAD|B Chain B, Penicillin-Binding Protein 2b (Pbp-2b) From Streptococcus
           Pneumoniae (Strain 5204)
 pdb|2WAD|C Chain C, Penicillin-Binding Protein 2b (Pbp-2b) From Streptococcus
           Pneumoniae (Strain 5204)
          Length = 680

 Score = 26.6 bits (57), Expect = 3.7,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 4/65 (6%)

Query: 12  FPPESLGTMIPKSGGDYAYINEAFGPLPAFLYMWVALFVIMPTGNAVTALTFAQYILQPI 71
            P ES G ++PK      +I  AFG    +  M +A +V     N V     A +I++ I
Sbjct: 495 LPDESTG-LVPKEYNFANFITNAFGQFDNYTPMQLAQYVATIANNGV---RLAPHIVEGI 550

Query: 72  WPHCD 76
           + + D
Sbjct: 551 YDNND 555


>pdb|3MGA|A Chain A, 2.4 Angstrom Crystal Structure Of Ferric Enterobactin
           Esterase (Fes) From Salmonella Typhimurium
 pdb|3MGA|B Chain B, 2.4 Angstrom Crystal Structure Of Ferric Enterobactin
           Esterase (Fes) From Salmonella Typhimurium
          Length = 407

 Score = 25.4 bits (54), Expect = 7.8,   Method: Composition-based stats.
 Identities = 12/26 (46%), Positives = 15/26 (57%)

Query: 55  GNAVTALTFAQYILQPIWPHCDPPYS 80
           G+AV+AL      LQP W   + PYS
Sbjct: 146 GHAVSALEXPDAPLQPGWDRPETPYS 171


>pdb|1QQW|A Chain A, Crystal Structure Of Human Erythrocyte Catalase
 pdb|1QQW|B Chain B, Crystal Structure Of Human Erythrocyte Catalase
 pdb|1QQW|C Chain C, Crystal Structure Of Human Erythrocyte Catalase
 pdb|1QQW|D Chain D, Crystal Structure Of Human Erythrocyte Catalase
 pdb|1F4J|A Chain A, Structure Of Tetragonal Crystals Of Human Erythrocyte
           Catalase
 pdb|1F4J|B Chain B, Structure Of Tetragonal Crystals Of Human Erythrocyte
           Catalase
 pdb|1F4J|C Chain C, Structure Of Tetragonal Crystals Of Human Erythrocyte
           Catalase
 pdb|1F4J|D Chain D, Structure Of Tetragonal Crystals Of Human Erythrocyte
           Catalase
          Length = 527

 Score = 25.4 bits (54), Expect = 9.4,   Method: Composition-based stats.
 Identities = 14/52 (26%), Positives = 21/52 (40%), Gaps = 1/52 (1%)

Query: 27  DYAYINEAFGPLPAFLYMWVALFVIMPTGNAVTALTFAQYILQPIWPHCDPP 78
           DY  I + F  +    Y     ++ + T N      F  + L  +WPH D P
Sbjct: 259 DYG-IRDLFNAIATGKYPSWTFYIQVMTFNQAETFPFNPFDLTKVWPHKDYP 309


  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
   0.328    0.141    0.468 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,426,034
Number of Sequences: 62578
Number of extensions: 121185
Number of successful extensions: 269
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 264
Number of HSP's gapped (non-prelim): 12
length of query: 108
length of database: 14,973,337
effective HSP length: 72
effective length of query: 36
effective length of database: 10,467,721
effective search space: 376837956
effective search space used: 376837956
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: 45 (21.9 bits)