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= psy10905
         (219 letters)

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

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



>pdb|4A0G|A Chain A, Structure Of Bifunctional Dapa Aminotransferase-Dtb
           Synthetase From Arabidopsis Thaliana In Its Apo Form.
 pdb|4A0G|B Chain B, Structure Of Bifunctional Dapa Aminotransferase-Dtb
           Synthetase From Arabidopsis Thaliana In Its Apo Form.
 pdb|4A0G|C Chain C, Structure Of Bifunctional Dapa Aminotransferase-Dtb
           Synthetase From Arabidopsis Thaliana In Its Apo Form.
 pdb|4A0G|D Chain D, Structure Of Bifunctional Dapa Aminotransferase-Dtb
           Synthetase From Arabidopsis Thaliana In Its Apo Form.
 pdb|4A0H|A Chain A, Structure Of Bifunctional Dapa Aminotransferase-Dtb
           Synthetase From Arabidopsis Thaliana Bound To 7-Keto
           8-Amino Pelargonic Acid (Kapa)
 pdb|4A0H|B Chain B, Structure Of Bifunctional Dapa Aminotransferase-Dtb
           Synthetase From Arabidopsis Thaliana Bound To 7-Keto
           8-Amino Pelargonic Acid (Kapa)
 pdb|4A0R|A Chain A, Structure Of Bifunctional Dapa Aminotransferase-Dtb
           Synthetase From Arabidopsis Thaliana Bound To
           Dethiobiotin (Dtb).
 pdb|4A0R|B Chain B, Structure Of Bifunctional Dapa Aminotransferase-Dtb
           Synthetase From Arabidopsis Thaliana Bound To
           Dethiobiotin (Dtb)
          Length = 831

 Score = 30.4 bits (67), Expect = 0.74,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 26/45 (57%)

Query: 58  VISNVDVSFLVSSPSTSAWVWSYVYPGCSVYQWDTQARSIVNKLD 102
           V + +  SFL+  PS+SA    Y+ P  + +  D+ +R + +KLD
Sbjct: 51  VSTGIAASFLLQQPSSSATKLLYLKPIQTGFPSDSDSRFVFSKLD 95


>pdb|4A0F|A Chain A, Structure Of Selenomethionine Substituted Bifunctional
           Dapa Aminotransferase-Dethiobiotin Synthetase From
           Arabidopsis Thaliana In Its Apo Form.
 pdb|4A0F|B Chain B, Structure Of Selenomethionine Substituted Bifunctional
           Dapa Aminotransferase-Dethiobiotin Synthetase From
           Arabidopsis Thaliana In Its Apo Form
          Length = 831

 Score = 30.4 bits (67), Expect = 0.81,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 26/45 (57%)

Query: 58  VISNVDVSFLVSSPSTSAWVWSYVYPGCSVYQWDTQARSIVNKLD 102
           V + +  SFL+  PS+SA    Y+ P  + +  D+ +R + +KLD
Sbjct: 51  VSTGIAASFLLQQPSSSATKLLYLKPIQTGFPSDSDSRFVFSKLD 95


>pdb|3P0B|A Chain A, Thermus Thermophilus Family Gh57 Branching Enzyme: Crystal
           Structure, Mechanism Of Action And Products Formed
          Length = 540

 Score = 30.0 bits (66), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 4/46 (8%)

Query: 46  VTSHDTVNHFHPVISNVDVSFLVSSPSTSAWVWS--YVYPGCSVYQ 89
           V S +   H H + S + V  L  +P T+  VWS  Y YPG  +Y+
Sbjct: 264 VESQEATYHVHELESGLRV--LARNPETTLQVWSADYGYPGEGLYR 307


>pdb|1UFA|A Chain A, Crystal Structure Of Tt1467 From Thermus Thermophilus Hb8
          Length = 520

 Score = 29.6 bits (65), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 4/46 (8%)

Query: 46  VTSHDTVNHFHPVISNVDVSFLVSSPSTSAWVWS--YVYPGCSVYQ 89
           V S +   H H + S + V  L  +P T+  VWS  Y YPG  +Y+
Sbjct: 244 VESQEATYHVHELESGLRV--LARNPETTLQVWSADYGYPGEGLYR 287


>pdb|1FEP|A Chain A, Ferric Enterobactin Receptor
          Length = 724

 Score = 29.3 bits (64), Expect = 1.7,   Method: Composition-based stats.
 Identities = 12/30 (40%), Positives = 19/30 (63%)

Query: 84  GCSVYQWDTQARSIVNKLDCSKLVPCSESL 113
           G  +YQWD   +++V  L+ S  VP SE++
Sbjct: 549 GTDLYQWDNVPKAVVEGLEGSLNVPVSETV 578


  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    0.131    0.418 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,507,750
Number of Sequences: 62578
Number of extensions: 239729
Number of successful extensions: 492
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 488
Number of HSP's gapped (non-prelim): 6
length of query: 219
length of database: 14,973,337
effective HSP length: 95
effective length of query: 124
effective length of database: 9,028,427
effective search space: 1119524948
effective search space used: 1119524948
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)