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= psy16786
         (211 letters)

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

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



>pdb|4IOY|X Chain X, Structure Of The Spt16 Middle Domain Reveals Functional
           Features Of The Histone Chaperone Fact
          Length = 285

 Score = 83.2 bits (204), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 40/83 (48%), Positives = 59/83 (71%), Gaps = 2/83 (2%)

Query: 130 KLKDLYMRPNIVMKRMTGSLEAHVNGFRYTS-VRGD-KVDILYNNIKHAFFQPCDGELVI 187
           +L  +++RPN   KR+  ++  H NG R+ S +R D ++DIL++NIK+  FQ C GEL++
Sbjct: 13  RLDQIFVRPNPDTKRVPSTVFIHENGIRFQSPLRTDSRIDILFSNIKNLIFQSCKGELIV 72

Query: 188 LLHFHLKNAIMFGKKKHVDVQFY 210
           ++H HLKN I+ GKKK  DVQFY
Sbjct: 73  VIHIHLKNPILMGKKKIQDVQFY 95


>pdb|3ULQ|A Chain A, Crystal Structure Of The Anti-Activator Rapf Complexed
           With The Response Regulator Coma Dna Binding Domain
          Length = 383

 Score = 30.4 bits (67), Expect = 0.72,   Method: Compositional matrix adjust.
 Identities = 15/38 (39%), Positives = 22/38 (57%)

Query: 120 LEESRSKGNPKLKDLYMRPNIVMKRMTGSLEAHVNGFR 157
           LE+ R +  P+L DL +  +    R+TG LE + N FR
Sbjct: 72  LEKMRIEEQPRLSDLLLEIDKKQARLTGLLEYYFNFFR 109


  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
   0.313    0.131    0.361 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,219,931
Number of Sequences: 62578
Number of extensions: 253844
Number of successful extensions: 612
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 584
Number of HSP's gapped (non-prelim): 37
length of query: 211
length of database: 14,973,337
effective HSP length: 95
effective length of query: 116
effective length of database: 9,028,427
effective search space: 1047297532
effective search space used: 1047297532
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: 49 (23.5 bits)