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= psy16535
         (333 letters)

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

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



>pdb|1WY5|A Chain A, Crystal Structure Of Isoluecyl-Trna Lysidine Synthetase
 pdb|1WY5|B Chain B, Crystal Structure Of Isoluecyl-Trna Lysidine Synthetase
 pdb|2E21|A Chain A, Crystal Structure Of Tils In A Complex With Amppnp From
           Aquifex Aeolicus.
 pdb|2E21|B Chain B, Crystal Structure Of Tils In A Complex With Amppnp From
           Aquifex Aeolicus.
 pdb|2E21|C Chain C, Crystal Structure Of Tils In A Complex With Amppnp From
           Aquifex Aeolicus.
 pdb|2E21|D Chain D, Crystal Structure Of Tils In A Complex With Amppnp From
           Aquifex Aeolicus.
 pdb|2E89|A Chain A, Crystal Structure Of Aquifex Aeolicus Tils In A Complex
           With Atp, Magnesium Ion, And L-Lysine
 pdb|2E89|C Chain C, Crystal Structure Of Aquifex Aeolicus Tils In A Complex
           With Atp, Magnesium Ion, And L-Lysine
 pdb|2E89|D Chain D, Crystal Structure Of Aquifex Aeolicus Tils In A Complex
           With Atp, Magnesium Ion, And L-Lysine
 pdb|2E89|B Chain B, Crystal Structure Of Aquifex Aeolicus Tils In A Complex
           With Atp, Magnesium Ion, And L-Lysine
          Length = 317

 Score = 35.4 bits (80), Expect = 0.048,   Method: Compositional matrix adjust.
 Identities = 22/81 (27%), Positives = 35/81 (43%), Gaps = 8/81 (9%)

Query: 103 GVDCVATGHNADDIAETVLMNVLRGD--------IARLQRCTDIITYAYEKEIVMYAYYK 154
           G DC+AT H+ +D+ ET L+   RG         + + +     + Y    EI  YA +K
Sbjct: 125 GFDCIATAHHLNDLLETSLLFFTRGTGLDGLIGFLPKEEVIRRPLYYVKRSEIEEYAKFK 184

Query: 155 KLVYFSTECIFAPNAYRGHAR 175
            L +   E  +  +  R   R
Sbjct: 185 GLRWVEDETNYEVSIPRNRIR 205


>pdb|3A2K|A Chain A, Crystal Structure Of Tils Complexed With Trna
 pdb|3A2K|B Chain B, Crystal Structure Of Tils Complexed With Trna
          Length = 464

 Score = 32.0 bits (71), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 12/25 (48%), Positives = 18/25 (72%)

Query: 107 VATGHNADDIAETVLMNVLRGDIAR 131
           VA GH+ DD  ET+LM ++RG  ++
Sbjct: 123 VAVGHHGDDQVETILMRLVRGSTSK 147


>pdb|2KUA|A Chain A, Solution Structure Of A Divergent Bcl-2 Protein
          Length = 170

 Score = 29.6 bits (65), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 6/52 (11%)

Query: 246 RSVQDRIRQENYSKVQSITGYRDDSLETVKQNKEDYQMDLKILSYDELYGWT 297
           RSV  +I+QE+     S    R + LE VK      QM  K+LS D+ + W+
Sbjct: 48  RSVTRQIQQEHQEFFSSFCESRGNRLELVK------QMADKLLSKDQDFSWS 93


>pdb|3S81|A Chain A, Crystal Structure Of Putative Aspartate Racemase From
           Salmonella Typhimurium
 pdb|3S81|B Chain B, Crystal Structure Of Putative Aspartate Racemase From
           Salmonella Typhimurium
 pdb|3S81|C Chain C, Crystal Structure Of Putative Aspartate Racemase From
           Salmonella Typhimurium
 pdb|3S81|D Chain D, Crystal Structure Of Putative Aspartate Racemase From
           Salmonella Typhimurium
          Length = 268

 Score = 28.9 bits (63), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 28/135 (20%), Positives = 56/135 (41%), Gaps = 17/135 (12%)

Query: 30  DRGAAMLGVDCVATGHNADDTDDIAETVLMNVLRGDIARLQRCTDIITIGRKNNCTFCGV 89
           D GA  + + C    +  DD  ++A+  ++++L   +  +      + +   N     G+
Sbjct: 97  DAGAECIVIPCNTAHYWFDDLQNVAKARMISILDATLGDIPPSARHVGLLATNATLATGL 156

Query: 90  FRRQALDRGAAM---------LGVDCVATGHNADDIAETVLM------NVLRGDIARLQR 134
           ++++AL RG  +         L +  + T    D  A   L+       + RG  A +  
Sbjct: 157 YQKKALARGLTLIQPEDAGQALVMQAIYTLKRGDKTAAQALLLPQIDSLIARGAQAIIMG 216

Query: 135 CTDI--ITYAYEKEI 147
           CT+I  I   +E+ I
Sbjct: 217 CTEIPLIVAGHERAI 231


  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
   0.322    0.137    0.411 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,320,800
Number of Sequences: 62578
Number of extensions: 359691
Number of successful extensions: 860
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 855
Number of HSP's gapped (non-prelim): 8
length of query: 333
length of database: 14,973,337
effective HSP length: 99
effective length of query: 234
effective length of database: 8,778,115
effective search space: 2054078910
effective search space used: 2054078910
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: 52 (24.6 bits)