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= 027689
         (220 letters)

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

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



>pdb|1VCM|A Chain A, Crystal Structure Of T.Th. Hb8 Ctp Synthetase
 pdb|1VCN|A Chain A, Crystal Structure Of T.th. Hb8 Ctp Synthetase Complex With
           Sulfate Anion
          Length = 550

 Score = 27.3 bits (59), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 36/143 (25%), Positives = 59/143 (41%), Gaps = 26/143 (18%)

Query: 58  PSPSKYVYVFQREYATVDPALVDYVGTDEATTCVGLVIRNRRNRMTSIAHMDNPEIVDIG 117
           P P KYV++           +V  +G    T+ +G ++R R  R+T+I  +D    VD G
Sbjct: 9   PRPRKYVFITG--------GVVSSLGKGILTSSLGALLRARGYRVTAI-KIDPYVNVDAG 59

Query: 118 LCQMLS----LVVDHDLDAELDVYLIGGFDDASPNHANGTTISECYSDMDGYSLPLCRKL 173
             +        V     + +LD+     F D   +  N  T  + Y       L + +K 
Sbjct: 60  TMRPYEHGEVFVTADGAETDLDIGHYERFLDMDLSRGNNLTTGQVY-------LSVIQK- 111

Query: 174 VDTLQRRQEKFHVQTLHVLGHNT 196
               +RR E +  QT+ V+ H T
Sbjct: 112 ----ERRGE-YLSQTVQVIPHIT 129


>pdb|1VCO|A Chain A, Crystal Structure Of T.Th. Hb8 Ctp Synthetase Complex With
           Glutamine
          Length = 550

 Score = 27.3 bits (59), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 36/143 (25%), Positives = 59/143 (41%), Gaps = 26/143 (18%)

Query: 58  PSPSKYVYVFQREYATVDPALVDYVGTDEATTCVGLVIRNRRNRMTSIAHMDNPEIVDIG 117
           P P KYV++           +V  +G    T+ +G ++R R  R+T+I  +D    VD G
Sbjct: 9   PRPRKYVFITG--------GVVSSLGKGILTSSLGALLRARGYRVTAI-KIDPYVNVDAG 59

Query: 118 LCQMLS----LVVDHDLDAELDVYLIGGFDDASPNHANGTTISECYSDMDGYSLPLCRKL 173
             +        V     + +LD+     F D   +  N  T  + Y       L + +K 
Sbjct: 60  TMRPYEHGEVFVTADGAETDLDIGHYERFLDMDLSRGNNLTTGQVY-------LSVIQK- 111

Query: 174 VDTLQRRQEKFHVQTLHVLGHNT 196
               +RR E +  QT+ V+ H T
Sbjct: 112 ----ERRGE-YLSQTVQVIPHIT 129


  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
   0.321    0.138    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,081,123
Number of Sequences: 62578
Number of extensions: 234712
Number of successful extensions: 420
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 419
Number of HSP's gapped (non-prelim): 3
length of query: 220
length of database: 14,973,337
effective HSP length: 95
effective length of query: 125
effective length of database: 9,028,427
effective search space: 1128553375
effective search space used: 1128553375
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)