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= 033418
         (119 letters)

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

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



>pdb|2J6A|A Chain A, Crystal Structure Of S. Cerevisiae Ynr046w, A Zinc Finger
           Protein From The Erf1 Methyltransferase Complex
          Length = 141

 Score = 46.2 bits (108), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 33/127 (25%), Positives = 54/127 (42%), Gaps = 16/127 (12%)

Query: 1   MRLLTHNMLSSNIKGVA---NGFPLLIEVEK---VIEKQVDFNPDFLKNIFPKIEWQALV 54
           M+ LT N L  ++K      + FPL  +  K   V ++ ++FNP+FL NI  +++W A++
Sbjct: 1   MKFLTTNFLKCSVKACDTSNDNFPLQYDGSKCQLVQDESIEFNPEFLLNIVDRVDWPAVL 60

Query: 55  QASRSMGYXX------XXXXXXXXXXXXXXXFLMKFHHLHLE----EGALVCPETGRKFP 104
             +  +G                         L   H L L+    EG + C   G  + 
Sbjct: 61  TVAAELGNNALPPTKPSFPSSIQELTDDDMAILNDLHTLLLQTSIAEGEMKCRNCGHIYY 120

Query: 105 VNKGIPN 111
           +  GIPN
Sbjct: 121 IKNGIPN 127


>pdb|4IFQ|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae Nup192,
           Residues 2 To 960 [scnup192(2-960)]
          Length = 970

 Score = 25.4 bits (54), Expect = 8.2,   Method: Composition-based stats.
 Identities = 12/43 (27%), Positives = 24/43 (55%)

Query: 7   NMLSSNIKGVANGFPLLIEVEKVIEKQVDFNPDFLKNIFPKIE 49
           + LS  ++G  N   LL    K+I K +D+   +++ +FP ++
Sbjct: 851 DQLSIELEGGKNQAELLQLAVKIINKVLDYQETYVEELFPIVK 893


  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
   0.323    0.140    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,233,254
Number of Sequences: 62578
Number of extensions: 89921
Number of successful extensions: 234
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 231
Number of HSP's gapped (non-prelim): 7
length of query: 119
length of database: 14,973,337
effective HSP length: 81
effective length of query: 38
effective length of database: 9,904,519
effective search space: 376371722
effective search space used: 376371722
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)