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= 016319
         (391 letters)

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

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



>pdb|2JMW|A Chain A, Structure Of Dna-Binding Domain Of Arabidopsis Gt-1
          Length = 86

 Score = 51.6 bits (122), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 25/84 (29%), Positives = 46/84 (54%), Gaps = 3/84 (3%)

Query: 295 RRNKWRPEEVKKLIKMRGELHSKFQVVKGRMALWKEISTHLANEGFNRTPSQCKSRWSSL 354
           R   W  +E + LI  R  +   F   K    LW++IS+ +  +GF+R+P+ C  +W +L
Sbjct: 3   RAETWVQDETRSLIMFRRGMDGLFNTSKSNKHLWEQISSKMREKGFDRSPTMCTDKWRNL 62

Query: 355 LQKYEESKS---GNSQKSWPYFEE 375
           L++++++K    GN      Y++E
Sbjct: 63  LKEFKKAKHHDRGNGSAKMSYYKE 86


>pdb|2EBI|A Chain A, Arabidopsis Gt-1 Dna-Binding Domain With T133d
           Phosphomimetic Mutation
          Length = 86

 Score = 51.2 bits (121), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 25/84 (29%), Positives = 45/84 (53%), Gaps = 3/84 (3%)

Query: 295 RRNKWRPEEVKKLIKMRGELHSKFQVVKGRMALWKEISTHLANEGFNRTPSQCKSRWSSL 354
           R   W  +E + LI  R  +   F   K    LW++IS+ +  +GF+R+P  C  +W +L
Sbjct: 3   RAETWVQDETRSLIMFRRGMDGLFNTSKSNKHLWEQISSKMREKGFDRSPDMCTDKWRNL 62

Query: 355 LQKYEESKS---GNSQKSWPYFEE 375
           L++++++K    GN      Y++E
Sbjct: 63  LKEFKKAKHHDRGNGSAKMSYYKE 86


>pdb|2VDU|B Chain B, Structure Of Trm8-Trm82, The Yeast Trna M7g Methylation
           Complex
 pdb|2VDU|D Chain D, Structure Of Trm8-Trm82, The Yeast Trna M7g Methylation
           Complex
          Length = 450

 Score = 28.5 bits (62), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 13/39 (33%), Positives = 23/39 (58%)

Query: 118 VEKTVSEVLRKVVRKYSSKRPEVIAVAMENPAAVLSDEL 156
           V+KT   VL+   R   SKRP  I++A ++   +++D+ 
Sbjct: 132 VDKTSKNVLKLRKRFCFSKRPNAISIAEDDTTVIIADKF 170


  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
   0.313    0.129    0.369 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,593,173
Number of Sequences: 62578
Number of extensions: 397377
Number of successful extensions: 733
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: 730
Number of HSP's gapped (non-prelim): 7
length of query: 391
length of database: 14,973,337
effective HSP length: 101
effective length of query: 290
effective length of database: 8,652,959
effective search space: 2509358110
effective search space used: 2509358110
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)