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= 045063
         (175 letters)

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

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



>pdb|2YWJ|A Chain A, Crystal Structure Of Uncharacterized Conserved Protein
           From Methanocaldococcus Jannaschii
          Length = 186

 Score = 33.1 bits (74), Expect = 0.077,   Method: Compositional matrix adjust.
 Identities = 19/63 (30%), Positives = 33/63 (52%), Gaps = 13/63 (20%)

Query: 81  PVLGACSALPAPERGKQVHALMIKGGTDSEPVVKTALMDMYSKYGLLGESVEAF-KEIEF 139
           P+LG C+ +    +G  ++ ++++            LMD+  K    G  V++F KEIEF
Sbjct: 70  PILGTCAGMVLLSKGTGINQILLE------------LMDITVKRNAYGRQVDSFEKEIEF 117

Query: 140 KDV 142
           KD+
Sbjct: 118 KDL 120


>pdb|3MNO|A Chain A, Crystal Structure Of The Agonist Form Of Mouse
           Glucocorticoid Receptor Stabilized By (A611v, F608s)
           Mutations At 1.55a
          Length = 261

 Score = 28.1 bits (61), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 20/83 (24%), Positives = 32/83 (38%), Gaps = 9/83 (10%)

Query: 18  IADALPKRYVYTHQVFDEISHGDLSSLNSQLFSYTRSRNFPATWALFCY-------MHST 70
           +  ++PK  + + ++FDEI    +  L   +    R  N    W  F         MH  
Sbjct: 155 LLSSVPKEGLKSQELFDEIRMTYIKELGKAIVK--REGNSSQNWQRFYQLTKLLDSMHDV 212

Query: 71  CLNLTAYTFTPVLGACSALPAPE 93
             NL +Y F   L    ++  PE
Sbjct: 213 VENLLSYCFQTFLDKSMSIEFPE 235


>pdb|3MNE|A Chain A, Crystal Structure Of The Agonist Form Of Mouse
           Glucocorticoid Receptor Stabilized By F608s Mutation At
           1.96a
          Length = 261

 Score = 28.1 bits (61), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 20/83 (24%), Positives = 32/83 (38%), Gaps = 9/83 (10%)

Query: 18  IADALPKRYVYTHQVFDEISHGDLSSLNSQLFSYTRSRNFPATWALFCY-------MHST 70
           +  ++PK  + + ++FDEI    +  L   +    R  N    W  F         MH  
Sbjct: 155 LLSSVPKEGLKSQELFDEIRMTYIKELGKAIVK--REGNSSQNWQRFYQLTKLLDSMHDV 212

Query: 71  CLNLTAYTFTPVLGACSALPAPE 93
             NL +Y F   L    ++  PE
Sbjct: 213 VENLLSYCFQTFLDKSMSIEFPE 235


>pdb|3MNP|A Chain A, Crystal Structure Of The Agonist Form Of Mouse
           Glucocorticoid Receptor Stabilized By (A611v, V708a,
           E711g) Mutations At 1.50a
          Length = 261

 Score = 27.3 bits (59), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 20/83 (24%), Positives = 32/83 (38%), Gaps = 9/83 (10%)

Query: 18  IADALPKRYVYTHQVFDEISHGDLSSLNSQLFSYTRSRNFPATWALFCY-------MHST 70
           +  ++PK  + + ++FDEI    +  L   +    R  N    W  F         MH  
Sbjct: 155 LLSSVPKEGLKSQELFDEIRMTYIKELGKAIAK--RGGNSSQNWQRFYQLTKLLDSMHDV 212

Query: 71  CLNLTAYTFTPVLGACSALPAPE 93
             NL +Y F   L    ++  PE
Sbjct: 213 VENLLSYCFQTFLDKSMSIEFPE 235


  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    0.134    0.407 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,994,125
Number of Sequences: 62578
Number of extensions: 192220
Number of successful extensions: 640
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 640
Number of HSP's gapped (non-prelim): 8
length of query: 175
length of database: 14,973,337
effective HSP length: 92
effective length of query: 83
effective length of database: 9,216,161
effective search space: 764941363
effective search space used: 764941363
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 48 (23.1 bits)