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= 032894
         (131 letters)

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

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



>pdb|2DJ8|A Chain A, Solution Structure Of Zf-Mynd Domain Of Protein Cbfa2ti
           (Protein Mtg8)
          Length = 60

 Score = 30.8 bits (68), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 14/36 (38%), Positives = 18/36 (50%)

Query: 95  QFKAGDSCWLCGGKRDMLCGNCNGAGFVGGFMSTQD 130
           Q  + +SCW CG K    C  CN A + G F   +D
Sbjct: 11  QEDSSESCWNCGRKASETCSGCNTARYCGSFCQHKD 46


>pdb|2OD1|A Chain A, Solution Structure Of The Mynd Domain From Human Aml1-Eto
          Length = 60

 Score = 30.4 bits (67), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 13/33 (39%), Positives = 17/33 (51%)

Query: 98  AGDSCWLCGGKRDMLCGNCNGAGFVGGFMSTQD 130
           + +SCW CG K    C  CN A + G F   +D
Sbjct: 12  SSESCWNCGRKASETCSGCNTARYCGSFCQHKD 44


>pdb|2ODD|A Chain A, Solution Structure Of The Mynd Domain From Aml1-Eto
           Complexed With Smrt, A Corepressor
          Length = 64

 Score = 30.0 bits (66), Expect = 0.42,   Method: Compositional matrix adjust.
 Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 2/40 (5%)

Query: 91  FFGGQFKAGDSCWLCGGKRDMLCGNCNGAGFVGGFMSTQD 130
           +F G   + +SCW CG K    C  CN A + G F   +D
Sbjct: 11  YFQG--DSSESCWNCGRKASETCSGCNTARYCGSFCQHKD 48


>pdb|2CTT|A Chain A, Solution Structure Of Zinc Finger Domain From Human Dnaj
           Subfamily A Menber 3
          Length = 104

 Score = 26.2 bits (56), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 20/64 (31%), Positives = 28/64 (43%), Gaps = 11/64 (17%)

Query: 66  VCADCDGNG------AVLCSQCKGSGVNAVDFFGGQFKAGDSCWLCGGKRDML---CGNC 116
            C  C+G G         C  C GSG+  ++   G F    +C  CGG+  ++   C  C
Sbjct: 30  TCERCNGKGNEPGTKVQHCHYCGGSGMETINT--GPFVMRSTCRRCGGRGSIIISPCVVC 87

Query: 117 NGAG 120
            GAG
Sbjct: 88  RGAG 91


  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
   0.318    0.131    0.413 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,113,811
Number of Sequences: 62578
Number of extensions: 164335
Number of successful extensions: 299
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 294
Number of HSP's gapped (non-prelim): 9
length of query: 131
length of database: 14,973,337
effective HSP length: 88
effective length of query: 43
effective length of database: 9,466,473
effective search space: 407058339
effective search space used: 407058339
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 46 (22.3 bits)