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= 005930
         (669 letters)

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

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



>pdb|3HME|A Chain A, Crystal Structure Of Human Bromodomain Containing 9
           Isoform 1 (Brd9)
 pdb|3HME|B Chain B, Crystal Structure Of Human Bromodomain Containing 9
           Isoform 1 (Brd9)
          Length = 123

 Score = 37.7 bits (86), Expect = 0.020,   Method: Composition-based stats.
 Identities = 18/39 (46%), Positives = 23/39 (58%)

Query: 11  SDVFLICTNAMQYNAPDTVYHKQARAIQELAKKKFHRLR 49
           +D  L+C NAM YN PDTVY+K A+ I     K   + R
Sbjct: 76  ADFKLMCDNAMTYNRPDTVYYKLAKKILHAGFKMMSKER 114


>pdb|2I7K|A Chain A, Solution Structure Of The Bromodomain Of Human Brd7
          Protein
          Length = 117

 Score = 35.0 bits (79), Expect = 0.12,   Method: Composition-based stats.
 Identities = 16/29 (55%), Positives = 22/29 (75%), Gaps = 1/29 (3%)

Query: 10 LSDVF-LICTNAMQYNAPDTVYHKQARAI 37
          L D F L+CTNAM YN P+T+Y+K A+ +
Sbjct: 69 LKDNFKLMCTNAMIYNKPETIYYKAAKKL 97


>pdb|2HWJ|A Chain A, Crystal Structure Of Protein Atu1540 From Agrobacterium
           Tumefaciens
 pdb|2HWJ|B Chain B, Crystal Structure Of Protein Atu1540 From Agrobacterium
           Tumefaciens
 pdb|2HWJ|C Chain C, Crystal Structure Of Protein Atu1540 From Agrobacterium
           Tumefaciens
 pdb|2HWJ|D Chain D, Crystal Structure Of Protein Atu1540 From Agrobacterium
           Tumefaciens
 pdb|2HWJ|E Chain E, Crystal Structure Of Protein Atu1540 From Agrobacterium
           Tumefaciens
 pdb|2HWJ|F Chain F, Crystal Structure Of Protein Atu1540 From Agrobacterium
           Tumefaciens
          Length = 205

 Score = 30.8 bits (68), Expect = 2.4,   Method: Composition-based stats.
 Identities = 14/42 (33%), Positives = 23/42 (54%)

Query: 400 GVSRSTEMVPRNMHLLQSSPSKQQNGNVTSNSGNARVISPSS 441
           G+ R +  +P+N+H L+  P +   G +    G A+VI P S
Sbjct: 116 GLRRQSGDIPKNIHDLEDDPFRSLAGALRXAGGYAKVIIPFS 157


  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
   0.312    0.127    0.367 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,459,057
Number of Sequences: 62578
Number of extensions: 665511
Number of successful extensions: 1071
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1064
Number of HSP's gapped (non-prelim): 11
length of query: 669
length of database: 14,973,337
effective HSP length: 105
effective length of query: 564
effective length of database: 8,402,647
effective search space: 4739092908
effective search space used: 4739092908
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.8 bits)