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= 016703
         (384 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 = 0.003,   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 = 0.006,   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 = 0.006,   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 = 29.6 bits (65), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 25/97 (25%), Positives = 45/97 (46%), Gaps = 5/97 (5%)

Query: 15  LPPSHHNRFQRGVRP---TGNGRSAVIGSASLPRMQNDMATQIHSVEQDAYSSVLRAFKA 71
            P  H      G++    T  GR  V+         +   + ++  E DA+ + ++AF+A
Sbjct: 5   CPVCHQGEMVSGIKDIPYTFRGRKTVLKGIHGLYCVHCEESIMNKEESDAFMAQVKAFRA 64

Query: 72  QSDAITWEKESLITELRKELRVSDEEHRELL-SKVNA 107
             +A T   E  I ++RK+L ++ +E  E+    VNA
Sbjct: 65  SVNAETVAPE-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 = 29.6 bits (65), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 25/97 (25%), Positives = 45/97 (46%), Gaps = 5/97 (5%)

Query: 15  LPPSHHNRFQRGVRP---TGNGRSAVIGSASLPRMQNDMATQIHSVEQDAYSSVLRAFKA 71
            P  H      G++    T  GR  V+         +   + ++  E DA+ + ++AF+A
Sbjct: 3   CPVCHQGEMVSGIKDIPYTFRGRKTVLKGIHGLYCVHCEESIMNKEESDAFMAQVKAFRA 62

Query: 72  QSDAITWEKESLITELRKELRVSDEEHRELL-SKVNA 107
             +A T   E  I ++RK+L ++ +E  E+    VNA
Sbjct: 63  SVNAETVAPE-FIVKVRKKLSLTQKEASEIFGGGVNA 98


>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 = 29.6 bits (65), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 25/97 (25%), Positives = 45/97 (46%), Gaps = 5/97 (5%)

Query: 15  LPPSHHNRFQRGVRP---TGNGRSAVIGSASLPRMQNDMATQIHSVEQDAYSSVLRAFKA 71
            P  H      G++    T  GR  V+         +   + ++  E DA+ + ++AF+A
Sbjct: 5   CPVCHQGEMVSGIKDIPYTFRGRKTVLKGIHGLYCVHCEESIMNKEESDAFMAQVKAFRA 64

Query: 72  QSDAITWEKESLITELRKELRVSDEEHRELL-SKVNA 107
             +A T   E  I ++RK+L ++ +E  E+    VNA
Sbjct: 65  SVNAETVAPE-FIVKVRKKLSLTQKEASEIFGGGVNA 100


  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
   0.311    0.129    0.380 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,203,020
Number of Sequences: 62578
Number of extensions: 435595
Number of successful extensions: 940
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 932
Number of HSP's gapped (non-prelim): 12
length of query: 384
length of database: 14,973,337
effective HSP length: 101
effective length of query: 283
effective length of database: 8,652,959
effective search space: 2448787397
effective search space used: 2448787397
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: 52 (24.6 bits)