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= 015539
         (405 letters)

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

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



>pdb|2FMM|E Chain E, Crystal Structure Of Emsy-Hp1 Complex
          Length = 133

 Score = 39.3 bits (90), Expect = 0.004,   Method: Compositional matrix adjust.
 Identities = 20/46 (43%), Positives = 30/46 (65%), Gaps = 1/46 (2%)

Query: 54 IHSVEQDAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHR 99
          +  +E +AY+ V+ A +AQ D +T EK+ L+ EL K L +S E HR
Sbjct: 14 LRKLELEAYAGVISALRAQGD-LTKEKKDLLGELSKVLSISTERHR 58


>pdb|1UTU|A Chain A, Crystal Structure Of Novel Protein Emsy Truncate
 pdb|1UTU|B Chain B, Crystal Structure Of Novel Protein Emsy Truncate
          Length = 108

 Score = 38.5 bits (88), Expect = 0.007,   Method: Compositional matrix adjust.
 Identities = 20/46 (43%), Positives = 30/46 (65%), Gaps = 1/46 (2%)

Query: 54 IHSVEQDAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHR 99
          +  +E +AY+ V+ A +AQ D +T EK+ L+ EL K L +S E HR
Sbjct: 20 LRKLELEAYAGVISALRAQGD-LTKEKKDLLGELSKVLSISTERHR 64


>pdb|1UZ3|A Chain A, Crystal Structure Of Novel Protein Emsy
 pdb|1UZ3|B Chain B, Crystal Structure Of Novel Protein Emsy
          Length = 102

 Score = 38.5 bits (88), Expect = 0.007,   Method: Compositional matrix adjust.
 Identities = 20/46 (43%), Positives = 30/46 (65%), Gaps = 1/46 (2%)

Query: 54 IHSVEQDAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHR 99
          +  +E +AY+ V+ A +AQ D +T EK+ L+ EL K L +S E HR
Sbjct: 22 LRKLELEAYAGVISALRAQGD-LTKEKKDLLGELSKVLSISTERHR 66


>pdb|3GN5|B Chain B, Structure Of The E. Coli Protein Mqsa (YgitB3021)
          Length = 133

 Score = 29.3 bits (64), Expect = 4.3,   Method: Composition-based stats.
 Identities = 18/51 (35%), Positives = 31/51 (60%), Gaps = 2/51 (3%)

Query: 58  EQDAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHRELL-SKVNA 107
           E DA+ + ++AF+A  +A T   E  I ++RK+L ++ +E  E+    VNA
Sbjct: 51  ESDAFMAQVKAFRASVNAETVAPE-FIVKVRKKLSLTQKEASEIFGGGVNA 100


>pdb|3GN5|A Chain A, Structure Of The E. Coli Protein Mqsa (YgitB3021)
 pdb|3O9X|A Chain A, Structure Of The E. Coli Antitoxin Mqsa (YgitB3021) IN
           COMPLEX WITH Its Gene Promoter
 pdb|3O9X|B Chain B, Structure Of The E. Coli Antitoxin Mqsa (YgitB3021) IN
           COMPLEX WITH Its Gene Promoter
          Length = 133

 Score = 29.3 bits (64), Expect = 4.6,   Method: Composition-based stats.
 Identities = 18/51 (35%), Positives = 31/51 (60%), Gaps = 2/51 (3%)

Query: 58  EQDAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHRELL-SKVNA 107
           E DA+ + ++AF+A  +A T   E  I ++RK+L ++ +E  E+    VNA
Sbjct: 51  ESDAFMAQVKAFRASVNAETVAPE-FIVKVRKKLSLTQKEASEIFGGGVNA 100


>pdb|2KZ8|A Chain A, Solution Nmr Structure Of Mqsa, A Protein From E. Coli,
           Containing A Zinc Finger, N-Terminal And A Helix
           Turn-Helix C-Terminal Domain
          Length = 131

 Score = 29.3 bits (64), Expect = 4.6,   Method: Composition-based stats.
 Identities = 18/51 (35%), Positives = 31/51 (60%), Gaps = 2/51 (3%)

Query: 58  EQDAYSSVLRAFKAQSDAITWEKESLITELRKELRVSDEEHRELL-SKVNA 107
           E DA+ + ++AF+A  +A T   E  I ++RK+L ++ +E  E+    VNA
Sbjct: 49  ESDAFMAQVKAFRASVNAETVAPE-FIVKVRKKLSLTQKEASEIFGGGVNA 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
   0.310    0.128    0.375 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,863,821
Number of Sequences: 62578
Number of extensions: 464591
Number of successful extensions: 1000
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 992
Number of HSP's gapped (non-prelim): 13
length of query: 405
length of database: 14,973,337
effective HSP length: 101
effective length of query: 304
effective length of database: 8,652,959
effective search space: 2630499536
effective search space used: 2630499536
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (25.0 bits)