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= 027724
         (219 letters)

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

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



>pdb|2ADC|A Chain A, Solution Structure Of Polypyrimidine Tract Binding Protein
           Rbd34 Complexed With Cucucu Rna
 pdb|2EVZ|A Chain A, Structure Of Rna Binding Domains 3 And 4 Of Polypyrimidine
           Tract Binding Protein
          Length = 229

 Score = 31.6 bits (70), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 3/46 (6%)

Query: 117 GDPETTLTKVYPVCPAHVGKQPIARWY---FPPEVDYRLAALPPSA 159
           G  +  LTK Y   P H  K+P ++ +   FPP     L+ +PPS 
Sbjct: 118 GQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSV 163


>pdb|1QM9|A Chain A, Nmr, Representative Structure
          Length = 198

 Score = 31.6 bits (70), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 3/46 (6%)

Query: 117 GDPETTLTKVYPVCPAHVGKQPIARWY---FPPEVDYRLAALPPSA 159
           G  +  LTK Y   P H  K+P ++ +   FPP     L+ +PPS 
Sbjct: 87  GQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSV 132


>pdb|1YGY|A Chain A, Crystal Structure Of D-3-Phosphoglycerate Dehydrogenase
           From Mycobacterium Tuberculosis
 pdb|1YGY|B Chain B, Crystal Structure Of D-3-Phosphoglycerate Dehydrogenase
           From Mycobacterium Tuberculosis
 pdb|3DC2|A Chain A, Crystal Structure Of Serine Bound D-3-Phosphoglycerate
           Dehydrogenase From Mycobacterium Tuberculosis
 pdb|3DC2|B Chain B, Crystal Structure Of Serine Bound D-3-Phosphoglycerate
           Dehydrogenase From Mycobacterium Tuberculosis
          Length = 529

 Score = 30.0 bits (66), Expect = 0.95,   Method: Compositional matrix adjust.
 Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 14/75 (18%)

Query: 125 KVYPVCPAHVGKQPIARWYFPPEVDYRLAALPPSAKGLV--VWIIEAKVLSKSELQFLAL 182
           K+ P   A +G Q   RW   P+ D  LAA+P +   LV     ++A+VL+ +       
Sbjct: 12  KLAPSTVAALGDQVEVRWVDGPDRDKLLAAVPEADALLVRSATTVDAEVLAAA------- 64

Query: 183 LPTLRPKVRVIAECG 197
                PK++++A  G
Sbjct: 65  -----PKLKIVARAG 74


>pdb|3DDN|A Chain A, Crystal Structure Of Hydroxypyruvic Acid Phosphate Bound
           D-3- Phosphoglycerate Dehydrogenase In Mycobacterium
           Tuberculosis
 pdb|3DDN|B Chain B, Crystal Structure Of Hydroxypyruvic Acid Phosphate Bound
           D-3- Phosphoglycerate Dehydrogenase In Mycobacterium
           Tuberculosis
          Length = 528

 Score = 30.0 bits (66), Expect = 0.99,   Method: Compositional matrix adjust.
 Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 14/75 (18%)

Query: 125 KVYPVCPAHVGKQPIARWYFPPEVDYRLAALPPSAKGLV--VWIIEAKVLSKSELQFLAL 182
           K+ P   A +G Q   RW   P+ D  LAA+P +   LV     ++A+VL+ +       
Sbjct: 11  KLAPSTVAALGDQVEVRWVDGPDRDKLLAAVPEADALLVRSATTVDAEVLAAA------- 63

Query: 183 LPTLRPKVRVIAECG 197
                PK++++A  G
Sbjct: 64  -----PKLKIVARAG 73


  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
   0.320    0.137    0.434 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,262,591
Number of Sequences: 62578
Number of extensions: 220854
Number of successful extensions: 411
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 411
Number of HSP's gapped (non-prelim): 5
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)