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= 027559
         (222 letters)

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

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



>pdb|1EQQ|A Chain A, Single Stranded Dna Binding Protein And Ssdna Complex
 pdb|1EQQ|B Chain B, Single Stranded Dna Binding Protein And Ssdna Complex
 pdb|1EQQ|C Chain C, Single Stranded Dna Binding Protein And Ssdna Complex
 pdb|1EQQ|D Chain D, Single Stranded Dna Binding Protein And Ssdna Complex
          Length = 178

 Score = 28.9 bits (63), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 12/43 (27%), Positives = 25/43 (58%)

Query: 64  GDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVV 106
           G +A++  ++L+    +Y+ GQL +    D++G+     +VVV
Sbjct: 62  GKLAEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVV 104


>pdb|1EYG|A Chain A, Crystal Structure Of Chymotryptic Fragment Of E. Coli Ssb
           Bound To Two 35-Mer Single Strand Dnas
 pdb|1EYG|B Chain B, Crystal Structure Of Chymotryptic Fragment Of E. Coli Ssb
           Bound To Two 35-Mer Single Strand Dnas
 pdb|1EYG|C Chain C, Crystal Structure Of Chymotryptic Fragment Of E. Coli Ssb
           Bound To Two 35-Mer Single Strand Dnas
 pdb|1EYG|D Chain D, Crystal Structure Of Chymotryptic Fragment Of E. Coli Ssb
           Bound To Two 35-Mer Single Strand Dnas
          Length = 116

 Score = 28.9 bits (63), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 12/43 (27%), Positives = 25/43 (58%)

Query: 64  GDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVV 106
           G +A++  ++L+    +Y+ GQL +    D++G+     +VVV
Sbjct: 62  GKLAEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVV 104


>pdb|1KAW|A Chain A, Structure Of Single Stranded Dna Binding Protein (Ssb)
 pdb|1KAW|B Chain B, Structure Of Single Stranded Dna Binding Protein (Ssb)
 pdb|1KAW|C Chain C, Structure Of Single Stranded Dna Binding Protein (Ssb)
 pdb|1KAW|D Chain D, Structure Of Single Stranded Dna Binding Protein (Ssb)
          Length = 135

 Score = 28.9 bits (63), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 12/43 (27%), Positives = 25/43 (58%)

Query: 64  GDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVV 106
           G +A++  ++L+    +Y+ GQL +    D++G+     +VVV
Sbjct: 61  GKLAEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVV 103


>pdb|1QVC|A Chain A, Crystal Structure Analysis Of Single Stranded Dna Binding
           Protein (Ssb) From E.Coli
 pdb|1QVC|B Chain B, Crystal Structure Analysis Of Single Stranded Dna Binding
           Protein (Ssb) From E.Coli
 pdb|1QVC|C Chain C, Crystal Structure Analysis Of Single Stranded Dna Binding
           Protein (Ssb) From E.Coli
 pdb|1QVC|D Chain D, Crystal Structure Analysis Of Single Stranded Dna Binding
           Protein (Ssb) From E.Coli
          Length = 145

 Score = 28.9 bits (63), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 12/43 (27%), Positives = 25/43 (58%)

Query: 64  GDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVV 106
           G +A++  ++L+    +Y+ GQL +    D++G+     +VVV
Sbjct: 61  GKLAEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVV 103


>pdb|1SRU|A Chain A, Crystal Structure Of Full Length E. Coli Ssb Protein
 pdb|1SRU|B Chain B, Crystal Structure Of Full Length E. Coli Ssb Protein
 pdb|1SRU|C Chain C, Crystal Structure Of Full Length E. Coli Ssb Protein
 pdb|1SRU|D Chain D, Crystal Structure Of Full Length E. Coli Ssb Protein
          Length = 113

 Score = 28.9 bits (63), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 12/43 (27%), Positives = 25/43 (58%)

Query: 64  GDMAQLCQKHLKPNDFIYVTGQLHSYSKVDKNGKLCLCYKVVV 106
           G +A++  ++L+    +Y+ GQL +    D++G+     +VVV
Sbjct: 62  GKLAEVASEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVV 104


  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
   0.319    0.135    0.438 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,127,342
Number of Sequences: 62578
Number of extensions: 254144
Number of successful extensions: 471
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 466
Number of HSP's gapped (non-prelim): 6
length of query: 222
length of database: 14,973,337
effective HSP length: 95
effective length of query: 127
effective length of database: 9,028,427
effective search space: 1146610229
effective search space used: 1146610229
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)