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= 030305
         (179 letters)

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

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



>pdb|1AJR|A Chain A, Refinement And Comparison Of The Crystal Structures Of Pig
           Cytosolic Aspartate Aminotransferase And Its Complex
           With 2-Methylaspartate
 pdb|1AJR|B Chain B, Refinement And Comparison Of The Crystal Structures Of Pig
           Cytosolic Aspartate Aminotransferase And Its Complex
           With 2-Methylaspartate
 pdb|1AJS|B Chain B, Refinement And Comparison Of The Crystal Structures Of Pig
           Cytosolic Aspartate Aminotransferase And Its Complex
           With 2-Methylaspartate
          Length = 412

 Score = 27.3 bits (59), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 3/34 (8%)

Query: 120 GTGFIRVANEGNGYNIRVANGCDSGDRPVYKSNP 153
           GTG +R+  E   +  R  NG ++ D PVY S+P
Sbjct: 108 GTGALRIGAE---FLARWYNGTNNKDTPVYVSSP 138


>pdb|1AJS|A Chain A, Refinement And Comparison Of The Crystal Structures Of Pig
           Cytosolic Aspartate Aminotransferase And Its Complex
           With 2-Methylaspartate
          Length = 412

 Score = 27.3 bits (59), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 3/34 (8%)

Query: 120 GTGFIRVANEGNGYNIRVANGCDSGDRPVYKSNP 153
           GTG +R+  E   +  R  NG ++ D PVY S+P
Sbjct: 108 GTGALRIGAE---FLARWYNGTNNKDTPVYVSSP 138


>pdb|1JMJ|A Chain A, Crystal Structure Of Native Heparin Cofactor Ii
 pdb|1JMJ|B Chain B, Crystal Structure Of Native Heparin Cofactor Ii
          Length = 480

 Score = 27.3 bits (59), Expect = 5.0,   Method: Compositional matrix adjust.
 Identities = 12/30 (40%), Positives = 16/30 (53%)

Query: 148 VYKSNPATNDWIPSVEYDQGFISSKPNRSE 177
            +K N  TNDWIP  E D  ++  +   SE
Sbjct: 40  FHKENTVTNDWIPEGEEDDDYLDLEKIFSE 69


>pdb|1S1M|A Chain A, Crystal Structure Of E. Coli Ctp Synthetase
 pdb|1S1M|B Chain B, Crystal Structure Of E. Coli Ctp Synthetase
 pdb|2AD5|A Chain A, Mechanisms Of Feedback Regulation And Drug Resistance Of
           Ctp Synthetases: Structure Of The E. Coli Ctps/ctp
           Complex At 2.8- Angstrom Resolution.
 pdb|2AD5|B Chain B, Mechanisms Of Feedback Regulation And Drug Resistance Of
           Ctp Synthetases: Structure Of The E. Coli Ctps/ctp
           Complex At 2.8- Angstrom Resolution
          Length = 545

 Score = 26.9 bits (58), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 10/30 (33%), Positives = 17/30 (56%)

Query: 100 FVETQYYKQLVSIDKDHHTTGTGFIRVANE 129
           FV  Q++ +  S  +D H    GF++ A+E
Sbjct: 509 FVACQFHPEFTSTPRDGHPLFAGFVKAASE 538


>pdb|3AFG|A Chain A, Crystal Structure Of Pron-Tk-Sp From Thermococcus
           Kodakaraensis
 pdb|3AFG|B Chain B, Crystal Structure Of Pron-Tk-Sp From Thermococcus
           Kodakaraensis
          Length = 539

 Score = 26.6 bits (57), Expect = 9.0,   Method: Compositional matrix adjust.
 Identities = 16/59 (27%), Positives = 32/59 (54%), Gaps = 9/59 (15%)

Query: 4   AGVDQWTVTKPSRSDEVL--DAVEQVRIANRVRAQIDSMAPKRPTKPNRSEPDSIAPTN 60
           +G +++TV  P+ + +V+   AV++  +       I   + + PT  NR +P+ +AP N
Sbjct: 281 SGPNKYTVGSPAAASKVITVGAVDKYDV-------ITDFSSRGPTADNRLKPEVVAPGN 332


  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
   0.310    0.128    0.371 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,721,751
Number of Sequences: 62578
Number of extensions: 231692
Number of successful extensions: 362
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 359
Number of HSP's gapped (non-prelim): 7
length of query: 179
length of database: 14,973,337
effective HSP length: 93
effective length of query: 86
effective length of database: 9,153,583
effective search space: 787208138
effective search space used: 787208138
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 48 (23.1 bits)