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= 003863
         (790 letters)

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

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



>pdb|2VF7|A Chain A, Crystal Structure Of Uvra2 From Deinococcus Radiodurans
 pdb|2VF7|B Chain B, Crystal Structure Of Uvra2 From Deinococcus Radiodurans
 pdb|2VF7|C Chain C, Crystal Structure Of Uvra2 From Deinococcus Radiodurans
 pdb|2VF8|A Chain A, Crystal Structure Of Uvra2 From Deinococcus Radiodurans
 pdb|2VF8|B Chain B, Crystal Structure Of Uvra2 From Deinococcus Radiodurans
          Length = 842

 Score = 35.0 bits (79), Expect = 0.17,   Method: Compositional matrix adjust.
 Identities = 35/141 (24%), Positives = 56/141 (39%), Gaps = 45/141 (31%)

Query: 599 QNIEDVVAFVKWLDDELGFLVDERAVLKHFDWPEKKADTLREAAFGYRDLKKLESEVS-- 656
           +NI DV+A    +D+   F  DE A+ +  D       TLRE   GY  L +  +E+S  
Sbjct: 684 KNIADVLALT--VDEAHDFFADESAIFRALD-------TLREVGLGYLRLGQPATELSGG 734

Query: 657 --------------------YYKDDPRV---PCDLALKKMVSLSEKMERTVYALLRTRET 693
                               Y  D+P     P D+         E+++R +  L+    T
Sbjct: 735 EAQRIKLATELRRSGRGGTVYVLDEPTTGLHPADV---------ERLQRQLVKLVDAGNT 785

Query: 694 LMRNCREFQIPTA--WMLDDG 712
           ++    + Q+  A  W+LD G
Sbjct: 786 VIAVEHKMQVVAASDWVLDIG 806


>pdb|2NXG|A Chain A, Structural And Mechanistic Changes Along An Engineered
           Path From Metallo To Non-Metallo Kdo8p Synthase.
 pdb|2NXG|B Chain B, Structural And Mechanistic Changes Along An Engineered
           Path From Metallo To Non-Metallo Kdo8p Synthase.
 pdb|2NXH|A Chain A, Structural And Mechanistic Changes Along An Engineered
           Path From Metallo To Non-Metallo Kdo8p Synthase.
 pdb|2NXH|B Chain B, Structural And Mechanistic Changes Along An Engineered
           Path From Metallo To Non-Metallo Kdo8p Synthase.
 pdb|2NXH|C Chain C, Structural And Mechanistic Changes Along An Engineered
           Path From Metallo To Non-Metallo Kdo8p Synthase.
 pdb|2NXH|D Chain D, Structural And Mechanistic Changes Along An Engineered
           Path From Metallo To Non-Metallo Kdo8p Synthase.
 pdb|2NXH|E Chain E, Structural And Mechanistic Changes Along An Engineered
           Path From Metallo To Non-Metallo Kdo8p Synthase.
 pdb|2NXH|F Chain F, Structural And Mechanistic Changes Along An Engineered
           Path From Metallo To Non-Metallo Kdo8p Synthase.
 pdb|2NXH|G Chain G, Structural And Mechanistic Changes Along An Engineered
           Path From Metallo To Non-Metallo Kdo8p Synthase.
 pdb|2NXH|H Chain H, Structural And Mechanistic Changes Along An Engineered
           Path From Metallo To Non-Metallo Kdo8p Synthase.
 pdb|2NXH|I Chain I, Structural And Mechanistic Changes Along An Engineered
           Path From Metallo To Non-Metallo Kdo8p Synthase.
 pdb|2NXH|J Chain J, Structural And Mechanistic Changes Along An Engineered
           Path From Metallo To Non-Metallo Kdo8p Synthase.
 pdb|2NXH|K Chain K, Structural And Mechanistic Changes Along An Engineered
           Path From Metallo To Non-Metallo Kdo8p Synthase.
 pdb|2NXH|L Chain L, Structural And Mechanistic Changes Along An Engineered
           Path From Metallo To Non-Metallo Kdo8p Synthase
          Length = 263

 Score = 29.6 bits (65), Expect = 7.6,   Method: Composition-based stats.
 Identities = 18/68 (26%), Positives = 35/68 (51%), Gaps = 3/68 (4%)

Query: 169 IENDEIVRRVGMLEDEKTSLSEQLAALSVILERKNDNKNAINMGSSSSQNLEMEVVELRR 228
           IE++E++ +VG   +E   LSE+   +  + +   D  N  ++ S     LE  V  LR+
Sbjct: 12  IESEELLLKVG---EEIKRLSEKFKEVEFVFKSSFDKANRSSIHSFRGHGLEYGVKALRK 68

Query: 229 LNKELQME 236
           + +E  ++
Sbjct: 69  VKEEFGLK 76


  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
   0.313    0.127    0.352 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,338,508
Number of Sequences: 62578
Number of extensions: 699518
Number of successful extensions: 1365
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 1356
Number of HSP's gapped (non-prelim): 22
length of query: 790
length of database: 14,973,337
effective HSP length: 107
effective length of query: 683
effective length of database: 8,277,491
effective search space: 5653526353
effective search space used: 5653526353
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.8 bits)