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= 038194
         (349 letters)

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

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



>pdb|1GCC|A Chain A, Solution Nmr Structure Of The Complex Of Gcc-Box Binding
           Domain Of Aterf1 And Gcc-Box Dna, Minimized Average
           Structure
          Length = 63

 Score = 55.8 bits (133), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 28/57 (49%), Positives = 31/57 (54%), Gaps = 1/57 (1%)

Query: 65  YRGVRQRSWGKWVAEIREPRKR-TRKWLGTFXXXXXXXXXXXXXXIILYGSRAQLNL 120
           YRGVRQR WGK+ AEIR+P K   R WLGTF                + GSRA LN 
Sbjct: 3   YRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNF 59


>pdb|2GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr,
           Minimized Mean Structure
 pdb|3GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr, 46
           Structures
          Length = 70

 Score = 55.8 bits (133), Expect = 3e-08,   Method: Composition-based stats.
 Identities = 28/57 (49%), Positives = 31/57 (54%), Gaps = 1/57 (1%)

Query: 65  YRGVRQRSWGKWVAEIREPRKR-TRKWLGTFXXXXXXXXXXXXXXIILYGSRAQLNL 120
           YRGVRQR WGK+ AEIR+P K   R WLGTF                + GSRA LN 
Sbjct: 6   YRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNF 62


>pdb|2CW2|A Chain A, Crystal Structure Of Superoxide Dismutase From P. Marinus
 pdb|2CW2|B Chain B, Crystal Structure Of Superoxide Dismutase From P. Marinus
          Length = 226

 Score = 31.6 bits (70), Expect = 0.66,   Method: Compositional matrix adjust.
 Identities = 28/92 (30%), Positives = 42/92 (45%), Gaps = 13/92 (14%)

Query: 197 SVSSALLCPNIVQVQNQRDMMMQQQCEIQNYHH--HHLQIQQVPDGLNSVSCINDTLAAA 254
           SV+    CP +  V+N  +  M    E   YHH  HH   Q   D LNS++  N T+A+ 
Sbjct: 28  SVTGPFQCPPLPYVKNALEPHMS--AETLTYHHDKHH---QTYVDTLNSIAAENSTIASK 82

Query: 255 T----STSSHGNPNHQ--QQYEQNCLYHDINP 280
           T      +  G P +Q  Q Y     ++++ P
Sbjct: 83  TLEQIIKTETGKPFNQAAQVYNHTFFFNNLAP 114


  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
   0.319    0.135    0.435 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,862,845
Number of Sequences: 62578
Number of extensions: 254750
Number of successful extensions: 3341
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 3336
Number of HSP's gapped (non-prelim): 7
length of query: 349
length of database: 14,973,337
effective HSP length: 100
effective length of query: 249
effective length of database: 8,715,537
effective search space: 2170168713
effective search space used: 2170168713
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)