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= 037259
         (107 letters)

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

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



>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 = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 25/48 (52%), Positives = 32/48 (66%), Gaps = 1/48 (2%)

Query: 2  GKWASEIVDP-KKGVRVCLGTFDIVEEVARSYAEAAKRNRYNMAKLDF 48
          GK+A+EI DP K G RV LGTF+  E+ A +Y  AA R R + A L+F
Sbjct: 15 GKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNF 62


>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 = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 25/48 (52%), Positives = 32/48 (66%), Gaps = 1/48 (2%)

Query: 2  GKWASEIVDP-KKGVRVCLGTFDIVEEVARSYAEAAKRNRYNMAKLDF 48
          GK+A+EI DP K G RV LGTF+  E+ A +Y  AA R R + A L+F
Sbjct: 12 GKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNF 59


>pdb|1VLC|A Chain A, Crystal Structure Of 3-isopropylmalate Dehydrogenase
           (tm0556) From Thermotoga Maritima At 1.90 A Resolution
          Length = 366

 Score = 25.8 bits (55), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 14/44 (31%), Positives = 23/44 (52%)

Query: 9   VDPKKGVRVCLGTFDIVEEVARSYAEAAKRNRYNMAKLDFADLL 52
           +D +KG    +     VE +AR+  E AK  R  +  +D A++L
Sbjct: 160 LDEEKGFDTMIYDRKTVERIARTAFEIAKNRRKKVTSVDKANVL 203


  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
   0.323    0.139    0.448 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,390,781
Number of Sequences: 62578
Number of extensions: 118818
Number of successful extensions: 199
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 196
Number of HSP's gapped (non-prelim): 3
length of query: 107
length of database: 14,973,337
effective HSP length: 72
effective length of query: 35
effective length of database: 10,467,721
effective search space: 366370235
effective search space used: 366370235
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)