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= 019939
         (333 letters)

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

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



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

 Score = 30.0 bits (66), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 13/38 (34%), Positives = 24/38 (63%), Gaps = 3/38 (7%)

Query: 15  RSLHHIG---DDQNPYEQAISIIGKTLSSFDEDNLIPC 49
           R+L++IG   + Q+ YE AI    + ++ F+E N++P 
Sbjct: 225 RTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPS 262


>pdb|3A3J|A Chain A, Crystal Structures Of Penicillin Binding Protein 5 From
           Haemophilus Influenzae
          Length = 344

 Score = 28.1 bits (61), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 21/84 (25%), Positives = 35/84 (41%), Gaps = 11/84 (13%)

Query: 149 VKASEYPLSIILVGVGDGPWDMMREFDDNIPARAFDNFQFVNFTEIMSKNVDR-SRKEAE 207
           V  ++    +I+V   D    +      N+P          NF E M+K V +   K   
Sbjct: 86  VSVADLNRGVIVVSGNDATVALAEHISGNVP----------NFVETMNKYVQQFGLKNTN 135

Query: 208 FALAALMEIPSQYKAALEFNILGA 231
           F     ++ P+QY +A +  I+GA
Sbjct: 136 FTTPHGLDDPNQYSSARDMAIIGA 159


>pdb|2PG3|A Chain A, Crystal Structure Of Hypothetical Protein (Yp_049261.1)
           From Erwinia Carotovora Subsp. Atroseptica Scri1043 At
           2.40 A Resolution
          Length = 232

 Score = 28.1 bits (61), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 16/57 (28%), Positives = 25/57 (43%)

Query: 201 RSRKEAEFALAALMEIPSQYKAALEFNILGAQRGKAVDRVSLPPPQYGAASQNTPKT 257
           R R E E A     ++ +     L+  +L      ++ R S+P P Y A +Q  P T
Sbjct: 39  RHRAEIEVAQELSQKLGAAAHKVLDVGLLNELATSSLTRDSIPVPDYDANAQGIPNT 95


  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
   0.320    0.137    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,138,728
Number of Sequences: 62578
Number of extensions: 342013
Number of successful extensions: 760
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 759
Number of HSP's gapped (non-prelim): 4
length of query: 333
length of database: 14,973,337
effective HSP length: 99
effective length of query: 234
effective length of database: 8,778,115
effective search space: 2054078910
effective search space used: 2054078910
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)