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= 044828
         (617 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 = 37.0 bits (84), Expect = 0.032,   Method: Composition-based stats.
 Identities = 24/60 (40%), Positives = 31/60 (51%), Gaps = 2/60 (3%)

Query: 343 YRGVTRHHQHGRWQARIGRVAGN-KDLYLGTFSTQXXXXXXYDIAAIKFRGLNAVTNFDM 401
           YRGV R    G++ A I   A N   ++LGTF T       YD AA + RG  A+ NF +
Sbjct: 3   YRGV-RQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPL 61



 Score = 33.5 bits (75), Expect = 0.40,   Method: Composition-based stats.
 Identities = 21/67 (31%), Positives = 32/67 (47%), Gaps = 8/67 (11%)

Query: 241 YRGVTRHRWTGRYEAHLWDNSCRREGQSRKGRQGKYSGYDKEEKAARAYDLAALKYWGPT 300
           YRGV +  W G++ A + D        ++ G +     ++  E AA AYD AA +  G  
Sbjct: 3   YRGVRQRPW-GKFAAEIRD-------PAKNGARVWLGTFETAEDAALAYDRAAFRMRGSR 54

Query: 301 TTTNFPV 307
              NFP+
Sbjct: 55  ALLNFPL 61


>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 = 36.6 bits (83), Expect = 0.047,   Method: Composition-based stats.
 Identities = 24/60 (40%), Positives = 31/60 (51%), Gaps = 2/60 (3%)

Query: 343 YRGVTRHHQHGRWQARIGRVAGN-KDLYLGTFSTQXXXXXXYDIAAIKFRGLNAVTNFDM 401
           YRGV R    G++ A I   A N   ++LGTF T       YD AA + RG  A+ NF +
Sbjct: 6   YRGV-RQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPL 64



 Score = 32.7 bits (73), Expect = 0.61,   Method: Composition-based stats.
 Identities = 21/67 (31%), Positives = 32/67 (47%), Gaps = 8/67 (11%)

Query: 241 YRGVTRHRWTGRYEAHLWDNSCRREGQSRKGRQGKYSGYDKEEKAARAYDLAALKYWGPT 300
           YRGV +  W G++ A + D        ++ G +     ++  E AA AYD AA +  G  
Sbjct: 6   YRGVRQRPW-GKFAAEIRD-------PAKNGARVWLGTFETAEDAALAYDRAAFRMRGSR 57

Query: 301 TTTNFPV 307
              NFP+
Sbjct: 58  ALLNFPL 64


>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
           Single-Stranded Interacting Protein 1
          Length = 114

 Score = 33.5 bits (75), Expect = 0.37,   Method: Compositional matrix adjust.
 Identities = 22/62 (35%), Positives = 29/62 (46%), Gaps = 4/62 (6%)

Query: 303 TNFPVSNYEKELEDMKNMTRQEFVASLRRKSSGFSRGASIYRGVTRHHQHGRWQARIGRV 362
           +N P+S  E+ELE+M     Q     + R SSG SRG     G  R     + +A IG  
Sbjct: 31  SNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGV----GFARMESTEKCEAVIGHF 86

Query: 363 AG 364
            G
Sbjct: 87  NG 88


>pdb|2JF6|A Chain A, Structure Of Inactive Mutant Of Strictosidine Glucosidase
           In Complex With Strictosidine
 pdb|2JF6|B Chain B, Structure Of Inactive Mutant Of Strictosidine Glucosidase
           In Complex With Strictosidine
 pdb|2JF7|A Chain A, Structure Of Strictosidine Glucosidase
 pdb|2JF7|B Chain B, Structure Of Strictosidine Glucosidase
          Length = 532

 Score = 28.9 bits (63), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 18/43 (41%), Positives = 21/43 (48%), Gaps = 1/43 (2%)

Query: 270 KGRQGKYSGYDKEEKAARAYDLAALKYWGPTTTTNFPVSNYEK 312
           KGR  K+S  D  EK    YD   + Y+  T  TN   SN EK
Sbjct: 319 KGRLPKFSA-DDSEKLKGCYDFIGMNYYTATYVTNAVKSNSEK 360


  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
   0.314    0.129    0.385 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,156,109
Number of Sequences: 62578
Number of extensions: 480088
Number of successful extensions: 909
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 903
Number of HSP's gapped (non-prelim): 15
length of query: 617
length of database: 14,973,337
effective HSP length: 105
effective length of query: 512
effective length of database: 8,402,647
effective search space: 4302155264
effective search space used: 4302155264
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 54 (25.4 bits)