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= 005618
         (688 letters)

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

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



>pdb|1WID|A Chain A, Solution Structure Of The B3 Dna-Binding Domain Of Rav1
          Length = 130

 Score = 52.4 bits (124), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 31/100 (31%), Positives = 49/100 (49%), Gaps = 2/100 (2%)

Query: 109 FCKTLTASDTSTHGGFSVLRRHADECLPPLDMSRQPPTQELAAKDLHGNEWRFRHIFRGQ 168
           F K +T SD        + + HA++  P    +       L  +D++G  WRFR+ +   
Sbjct: 14  FEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNS 73

Query: 169 PRRHLLQSGWSVFVSSKRLVAGDAFIFLR--GENGELRVG 206
            + ++L  GWS FV  K L AGD   F R  G++ +L +G
Sbjct: 74  SQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIG 113


>pdb|1R26|A Chain A, Crystal Structure Of Thioredoxin From Trypanosoma Brucei
          Brucei
          Length = 125

 Score = 31.2 bits (69), Expect = 2.0,   Method: Composition-based stats.
 Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 4/61 (6%)

Query: 1  MALYTELWHACAGPLVTVPREGERVYY-FPQGHIEQVEASTNQVADQQMPVYDLPSKILC 59
          +A +T +W    GP  T+ R  E++ Y FP     +V+A  N     +  V  LP+ I+ 
Sbjct: 41 VAWFTAVW---CGPCKTIERPMEKIAYEFPTVKFAKVDADNNSEIVSKCRVLQLPTFIIA 97

Query: 60 R 60
          R
Sbjct: 98 R 98


  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
   0.316    0.132    0.403 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,975,525
Number of Sequences: 62578
Number of extensions: 866552
Number of successful extensions: 1474
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1473
Number of HSP's gapped (non-prelim): 3
length of query: 688
length of database: 14,973,337
effective HSP length: 105
effective length of query: 583
effective length of database: 8,402,647
effective search space: 4898743201
effective search space used: 4898743201
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)