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= 041989
         (129 letters)

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

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



>pdb|3S6K|A Chain A, Crystal Structure Of Xcnags
          Length = 467

 Score = 30.0 bits (66), Expect = 0.33,   Method: Composition-based stats.
 Identities = 20/55 (36%), Positives = 32/55 (58%), Gaps = 3/55 (5%)

Query: 38  PQKFASVHKVFGASNVNKMLQELQEH-QRSEAVSSMVYEANARFHDPVRGCVGAI 91
           P   A V KVF ASN+ K+++ LQ++  R+ +++  V+EA     D   G VG +
Sbjct: 126 PHALAIVRKVFQASNL-KLVEALQQNGARATSITGGVFEAEYLNRD-TYGLVGEV 178


>pdb|3QUW|A Chain A, Crystal Structure Of Yeast Mmf1
          Length = 153

 Score = 28.1 bits (61), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 26/102 (25%), Positives = 39/102 (38%), Gaps = 26/102 (25%)

Query: 10  LSPCAACKLIRRRCAQDCVFA----PYFPADEP----------QKFASVHKVFGASN--- 52
           L+P AA    +   A + V+     PY P ++P          Q F +V  +   SN   
Sbjct: 36  LAPPAAASYSQAMKANNFVYVSGQIPYTPDNKPVQGSISEKAEQVFQNVKNILAESNSSL 95

Query: 53  -----VNKMLQELQEHQRSEAVSSMVYEANARFHDPVRGCVG 89
                VN  L +++      +V    Y  +   H P R CVG
Sbjct: 96  DNIVKVNVFLADMKNFAEFNSV----YAKHFHTHKPARSCVG 133


  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
   0.325    0.133    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,451,982
Number of Sequences: 62578
Number of extensions: 70854
Number of successful extensions: 163
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: 162
Number of HSP's gapped (non-prelim): 2
length of query: 129
length of database: 14,973,337
effective HSP length: 88
effective length of query: 41
effective length of database: 9,466,473
effective search space: 388125393
effective search space used: 388125393
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 45 (21.9 bits)