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= 044850
         (250 letters)

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

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



>pdb|2PQV|A Chain A, Crystal Structure Of MuttNUDIX FAMILY PROTEIN FROM
           STREPTOCOCCUS Pneumoniae
 pdb|2PQV|B Chain B, Crystal Structure Of MuttNUDIX FAMILY PROTEIN FROM
           STREPTOCOCCUS Pneumoniae
          Length = 154

 Score = 29.6 bits (65), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 15/40 (37%), Positives = 20/40 (50%)

Query: 196 RGPAPWIGLQAGAFLQTILLFIITNRTNWEKQARERILEE 235
           R P  WI L     +Q + +F+ T   +WE Q R   LEE
Sbjct: 115 RQPCEWIDLDKLQNIQLVPVFLKTALPDWEGQLRHIHLEE 154


>pdb|3P88|A Chain A, Fxr Bound To Isoquinolinecarboxylic Acid
          Length = 229

 Score = 27.7 bits (60), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 2/40 (5%)

Query: 211 QTILLFIIT--NRTNWEKQARERILEERFSPENRLPILTE 248
           QT+L FI+   N+    ++   +IL+E FS E    ILTE
Sbjct: 7   QTLLHFIMDSYNKQRMPQEITNKILKEEFSAEENFEILTE 46


>pdb|3L1B|A Chain A, Complex Structure Of Fxr Ligand-Binding Domain With A
           Tetrahydroazepinoindole Compound
          Length = 233

 Score = 26.9 bits (58), Expect = 9.7,   Method: Compositional matrix adjust.
 Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 2/40 (5%)

Query: 211 QTILLFIIT--NRTNWEKQARERILEERFSPENRLPILTE 248
           QT+L FI+   N+    ++   +IL+E FS E    ILTE
Sbjct: 11  QTLLHFIMDSYNKQRMPQEITNKILKEEFSAEENFLILTE 50


>pdb|1OSH|A Chain A, A Chemical, Genetic, And Structural Analysis Of The
           Nuclear Bile Acid Receptor Fxr
          Length = 232

 Score = 26.9 bits (58), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 2/40 (5%)

Query: 211 QTILLFIIT--NRTNWEKQARERILEERFSPENRLPILTE 248
           QT+L FI+   N+    ++   +IL+E FS E    ILTE
Sbjct: 10  QTLLHFIMDSYNKQRMPQEITNKILKEEFSAEENFLILTE 49


  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
   0.324    0.137    0.399 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,830,272
Number of Sequences: 62578
Number of extensions: 142597
Number of successful extensions: 405
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 404
Number of HSP's gapped (non-prelim): 13
length of query: 250
length of database: 14,973,337
effective HSP length: 96
effective length of query: 154
effective length of database: 8,965,849
effective search space: 1380740746
effective search space used: 1380740746
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 50 (23.9 bits)