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= psy2298
         (366 letters)

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

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



>pdb|3NRR|A Chain A, Co-Crystal Structure Of Dihydrofolate
           Reductase-Thymidylate Synthase From Babesia Bovis With
           Dump, Raltitrexed And Nadp
 pdb|3NRR|B Chain B, Co-Crystal Structure Of Dihydrofolate
           Reductase-Thymidylate Synthase From Babesia Bovis With
           Dump, Raltitrexed And Nadp
          Length = 515

 Score = 29.6 bits (65), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 31/128 (24%), Positives = 51/128 (39%), Gaps = 16/128 (12%)

Query: 38  VQADLEREDGEVYNELVYKDSSTFLKGTQSSNPHNDYCQHFVDTGQRPQNFIRDVGLADR 97
           +   L R   EV   LVY+D ST ++  +++ PHN   + F+  G      + D GL D+
Sbjct: 88  INVILSRTVKEVPGCLVYEDLSTAIRDLRANVPHN---KIFILGGSFLYKEVLDNGLCDK 144

Query: 98  F------EEYPKLRELIKLKDDLIAETATPPM---FLKCDVKEFNLKELNVKFDVIHIEP 148
                  +EYP       + D       +P     F+  D   +  K+    F     +P
Sbjct: 145 IYLTRLNKEYPGDTYFPDIPDTFEITAISPTFSTDFVSYDFVIYERKDCKTVFP----DP 200

Query: 149 PLEEYQRT 156
           P ++   T
Sbjct: 201 PFDQLLMT 208


>pdb|3I3R|A Chain A, X-Ray Structure Dihydrofolate ReductaseTHYMIDYLATE
           SYNTHASE FROM Babesia Bovis At 2.35a Resolution
 pdb|3I3R|B Chain B, X-Ray Structure Dihydrofolate ReductaseTHYMIDYLATE
           SYNTHASE FROM Babesia Bovis At 2.35a Resolution
 pdb|3K2H|A Chain A, Co-Crystal Structure Of Dihydrofolate ReductaseTHYMIDYLATE
           SYNTHASE From Babesia Bovis With Dump, Pemetrexed And
           Nadp
 pdb|3K2H|B Chain B, Co-Crystal Structure Of Dihydrofolate ReductaseTHYMIDYLATE
           SYNTHASE From Babesia Bovis With Dump, Pemetrexed And
           Nadp
 pdb|3KJR|A Chain A, Crystal Structure Of Dihydrofolate ReductaseTHYMIDYLATE
           SYNTHASE FROM Babesia Bovis Determined Using Slipchip
           Based Microfluidics
 pdb|3KJR|B Chain B, Crystal Structure Of Dihydrofolate ReductaseTHYMIDYLATE
           SYNTHASE FROM Babesia Bovis Determined Using Slipchip
           Based Microfluidics
          Length = 511

 Score = 29.6 bits (65), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 31/128 (24%), Positives = 51/128 (39%), Gaps = 16/128 (12%)

Query: 38  VQADLEREDGEVYNELVYKDSSTFLKGTQSSNPHNDYCQHFVDTGQRPQNFIRDVGLADR 97
           +   L R   EV   LVY+D ST ++  +++ PHN   + F+  G      + D GL D+
Sbjct: 84  INVILSRTVKEVPGCLVYEDLSTAIRDLRANVPHN---KIFILGGSFLYKEVLDNGLCDK 140

Query: 98  F------EEYPKLRELIKLKDDLIAETATPPM---FLKCDVKEFNLKELNVKFDVIHIEP 148
                  +EYP       + D       +P     F+  D   +  K+    F     +P
Sbjct: 141 IYLTRLNKEYPGDTYFPDIPDTFEITAISPTFSTDFVSYDFVIYERKDCKTVFP----DP 196

Query: 149 PLEEYQRT 156
           P ++   T
Sbjct: 197 PFDQLLMT 204


>pdb|3FIM|B Chain B, Crystal Structure Of Aryl-Alcohol-Oxidase From Pleurotus
           Eryingii
          Length = 566

 Score = 28.9 bits (63), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 10/23 (43%), Positives = 14/23 (60%)

Query: 151 EEYQRTLGVTNMQGWSWDQIMQL 173
           E++ R   VT  +GW+WD I Q 
Sbjct: 101 EDFDRYAAVTGDEGWNWDNIQQF 123


>pdb|3U62|A Chain A, Crystal Structure Of Shikimate Dehydrogenase From
           Thermotoga Maritima
          Length = 253

 Score = 28.9 bits (63), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 18/60 (30%), Positives = 32/60 (53%)

Query: 103 KLRELIKLKDDLIAETATPPMFLKCDVKEFNLKELNVKFDVIHIEPPLEEYQRTLGVTNM 162
           +L E++K    L   T+      +  V + +LK L++ +DVI+ + PL    R LGV ++
Sbjct: 159 QLDEVVKKAKSLFNTTSVGMKGEELPVSDDSLKNLSLVYDVIYFDTPLVVKARKLGVKHI 218


>pdb|1AYZ|A Chain A, Crystal Structure Of The Saccharomyces Cerevisiae
           Ubiquitin- Conjugating Enzyme Rad6 (Ubc2) At 2.6a
           Resolution
 pdb|1AYZ|B Chain B, Crystal Structure Of The Saccharomyces Cerevisiae
           Ubiquitin- Conjugating Enzyme Rad6 (Ubc2) At 2.6a
           Resolution
 pdb|1AYZ|C Chain C, Crystal Structure Of The Saccharomyces Cerevisiae
           Ubiquitin- Conjugating Enzyme Rad6 (Ubc2) At 2.6a
           Resolution
          Length = 169

 Score = 28.1 bits (61), Expect = 8.8,   Method: Compositional matrix adjust.
 Identities = 12/35 (34%), Positives = 18/35 (51%)

Query: 219 NASNPGHSKNIEAKAVFQRTKEHCLMGIKGTVRRS 253
           N  NP    N+EA  +F+  K   +  +K TV +S
Sbjct: 114 NDPNPASPANVEAATLFKDHKSQYVKRVKETVEKS 148


  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    0.420 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,993,217
Number of Sequences: 62578
Number of extensions: 458953
Number of successful extensions: 958
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 955
Number of HSP's gapped (non-prelim): 5
length of query: 366
length of database: 14,973,337
effective HSP length: 100
effective length of query: 266
effective length of database: 8,715,537
effective search space: 2318332842
effective search space used: 2318332842
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: 52 (24.6 bits)