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= 039536
         (150 letters)

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

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



>pdb|1WKQ|A Chain A, Crystal Structure Of Bacillus Subtilis Guanine Deaminase.
           The First Domain-Swapped Structure In The Cytidine
           Deaminase Superfamily
 pdb|1WKQ|B Chain B, Crystal Structure Of Bacillus Subtilis Guanine Deaminase.
           The First Domain-Swapped Structure In The Cytidine
           Deaminase Superfamily
          Length = 164

 Score = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 29/60 (48%), Positives = 34/60 (56%), Gaps = 1/60 (1%)

Query: 92  DHE-FLSKAVEEAYKGVECGDGGPFGAXXXXXXXXXXSCHNMVLKHTDPTAHAEVTAVRE 150
           +HE FL +AV  A +GV  G GGPFGA             N V    DPTAHAEVTA+R+
Sbjct: 10  NHETFLKRAVTLACEGVNAGIGGPFGAVIVKDGAIIAEGQNNVTTSNDPTAHAEVTAIRK 69


>pdb|1TIY|A Chain A, X-Ray Structure Of Guanine Deaminase From Bacillus
           Subtilis Northeast Structural Genomics Consortium Target
           Sr160
 pdb|1TIY|B Chain B, X-Ray Structure Of Guanine Deaminase From Bacillus
           Subtilis Northeast Structural Genomics Consortium Target
           Sr160
          Length = 164

 Score = 51.2 bits (121), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 29/60 (48%), Positives = 34/60 (56%), Gaps = 1/60 (1%)

Query: 92  DHE-FLSKAVEEAYKGVECGDGGPFGAXXXXXXXXXXSCHNMVLKHTDPTAHAEVTAVRE 150
           +HE FL +AV  A +GV  G GGPFGA             N V    DPTAHAEVTA+R+
Sbjct: 2   NHETFLKRAVTLACEGVNAGIGGPFGAVIVKDGAIIAEGQNNVTTSNDPTAHAEVTAIRK 61


>pdb|1WWR|A Chain A, Crystal Structure Of Trna Adenosine Deaminase Tada From
           Aquifex Aeolicus
 pdb|1WWR|B Chain B, Crystal Structure Of Trna Adenosine Deaminase Tada From
           Aquifex Aeolicus
 pdb|1WWR|C Chain C, Crystal Structure Of Trna Adenosine Deaminase Tada From
           Aquifex Aeolicus
 pdb|1WWR|D Chain D, Crystal Structure Of Trna Adenosine Deaminase Tada From
           Aquifex Aeolicus
          Length = 171

 Score = 37.0 bits (84), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 22/56 (39%), Positives = 29/56 (51%), Gaps = 1/56 (1%)

Query: 95  FLSKAVEEAYKGVECGDGGPFGAXXXXXXXXXXSCHNMVLKHTDPTAHAEVTAVRE 150
           FL  A+ EA +  E G+  P GA            HN V +  DPTAHAE+ A++E
Sbjct: 26  FLKVALREAKRAFEKGEV-PVGAIIVKEGEIISKAHNSVEELKDPTAHAEMLAIKE 80


>pdb|2B3J|A Chain A, Crystal Structure Of Staphylococcus Aureus Trna Adenosine
           Deaminase, Tada, In Complex With Rna
 pdb|2B3J|B Chain B, Crystal Structure Of Staphylococcus Aureus Trna Adenosine
           Deaminase, Tada, In Complex With Rna
 pdb|2B3J|C Chain C, Crystal Structure Of Staphylococcus Aureus Trna Adenosine
           Deaminase, Tada, In Complex With Rna
 pdb|2B3J|D Chain D, Crystal Structure Of Staphylococcus Aureus Trna Adenosine
           Deaminase, Tada, In Complex With Rna
          Length = 159

 Score = 32.0 bits (71), Expect = 0.15,   Method: Compositional matrix adjust.
 Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 1/57 (1%)

Query: 92  DHEFLSKAVEEAYKGVECGDGGPFGAXXXXXXXXXXSCHNMVLKHTDPTAHAEVTAV 148
           D  F++ A+EEA K  + G+  P GA            HN+      PTAHAE  A+
Sbjct: 7   DIYFMTLAIEEAKKAAQLGEV-PIGAIITKDDEVIARAHNLRETLQQPTAHAEHIAI 62


>pdb|1Z3A|A Chain A, Crystal Structure Of Trna Adenosine Deaminase Tada From
           Escherichia Coli
 pdb|1Z3A|B Chain B, Crystal Structure Of Trna Adenosine Deaminase Tada From
           Escherichia Coli
          Length = 168

 Score = 26.6 bits (57), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 13/37 (35%), Positives = 17/37 (45%)

Query: 114 PFGAXXXXXXXXXXSCHNMVLKHTDPTAHAEVTAVRE 150
           P GA             N  +   DPTAHAE+ A+R+
Sbjct: 30  PVGAVLVHNNRVIGEGWNRPIGRHDPTAHAEIMALRQ 66


>pdb|3OCQ|A Chain A, Crystal Structure Of Trna-Specific Adenosine Deaminase
           From Salmonella Enterica
          Length = 183

 Score = 26.2 bits (56), Expect = 8.0,   Method: Compositional matrix adjust.
 Identities = 13/37 (35%), Positives = 17/37 (45%)

Query: 114 PFGAXXXXXXXXXXSCHNMVLKHTDPTAHAEVTAVRE 150
           P GA             N  +   DPTAHAE+ A+R+
Sbjct: 40  PVGAVLVHNHRVIGEGWNRPIGRHDPTAHAEIMALRQ 76


  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    0.128    0.373 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,626,959
Number of Sequences: 62578
Number of extensions: 105266
Number of successful extensions: 168
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: 163
Number of HSP's gapped (non-prelim): 6
length of query: 150
length of database: 14,973,337
effective HSP length: 90
effective length of query: 60
effective length of database: 9,341,317
effective search space: 560479020
effective search space used: 560479020
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)