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= 019623
         (338 letters)

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

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



>pdb|2NWV|A Chain A, Crystal Structure Of Xisi Protein-Like (Yp_323822.1) From
           Anabaena Variabilis Atcc 29413 At 1.85 A Resolution
          Length = 114

 Score = 33.1 bits (74), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 3/34 (8%)

Query: 103 DALSRCSPSCNF---LVFGLTHETLLWKSLNFQG 133
           D LSR SP  N+   LVF   H+  LW ++++QG
Sbjct: 20  DNLSRQSPETNYETCLVFDENHDNYLWLAVDWQG 53


>pdb|4EUW|A Chain A, Crystal Structure Of A Hmg Domain Of Transcription Factor
           Sox-9 Bound To Dna (Sox-9DNA) FROM HOMO SAPIENS AT 2.77
           A RESOLUTION
          Length = 106

 Score = 30.0 bits (66), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 13/32 (40%), Positives = 20/32 (62%)

Query: 125 LWKSLNFQGHTIFVDESEFLVQSFEKNHPDFE 156
           LW+ LN      FV+E+E L    +K+HPD++
Sbjct: 67  LWRLLNESEKRPFVEEAERLRVQHKKDHPDYK 98


  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
   0.321    0.135    0.412 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,075,481
Number of Sequences: 62578
Number of extensions: 285918
Number of successful extensions: 817
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 816
Number of HSP's gapped (non-prelim): 2
length of query: 338
length of database: 14,973,337
effective HSP length: 99
effective length of query: 239
effective length of database: 8,778,115
effective search space: 2097969485
effective search space used: 2097969485
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)