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= 015891
         (398 letters)

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

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



>pdb|2UY1|B Chain B, Crystal Structure Of Cstf-77
          Length = 493

 Score = 30.4 bits (67), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 6/71 (8%)

Query: 209 CWLIYRDSVRDKDAQLKSQARKDLEEKLEKLQGQNEDAVN-FPSSKQLVEELGKLQGENT 267
            W++Y + VR       SQ +  L E  E   GQ E+  + +   K+ +EELGK++ E T
Sbjct: 49  LWMLYIEYVRKV-----SQKKFKLFEVYEFTLGQFENYWDSYGLFKEYIEELGKIEDEQT 103

Query: 268 KLMERKRSILR 278
           ++ + +   +R
Sbjct: 104 RIEKIRNGYMR 114


>pdb|3R9X|B Chain B, Crystal Structure Of Era In Complex With Mggdpnp,
           Nucleotides 1506- 1542 Of 16s Ribosomal Rna, And Ksga
          Length = 248

 Score = 28.1 bits (61), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 17/49 (34%), Positives = 27/49 (55%)

Query: 107 TAESIVKRILKRLGVDDGTTNSFEGQGLAFLDYVLQQQLIGKRYLIVLD 155
            +E ++K+I + L +++G T    G G   L  VL Q  + K Y+I LD
Sbjct: 14  VSEGVLKKIAEELNIEEGNTVVEVGGGTGNLTKVLLQHPLKKLYVIELD 62


>pdb|3FTC|A Chain A, Crystal Structure Of A. Aeolicus Ksga At 1.72-Angstrom
           Resolution
 pdb|3FTD|A Chain A, Crystal Structure Of A. Aeolicus Ksga At 1.44-Angstrom
           Resolution
 pdb|3FTE|A Chain A, Crystal Structure Of A. Aeolicus Ksga In Complex With Rna
 pdb|3FTF|A Chain A, Crystal Structure Of A. Aeolicus Ksga In Complex With Rna
           And Sah
          Length = 249

 Score = 28.1 bits (61), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 17/49 (34%), Positives = 27/49 (55%)

Query: 107 TAESIVKRILKRLGVDDGTTNSFEGQGLAFLDYVLQQQLIGKRYLIVLD 155
            +E ++K+I + L +++G T    G G   L  VL Q  + K Y+I LD
Sbjct: 15  VSEGVLKKIAEELNIEEGNTVVEVGGGTGNLTKVLLQHPLKKLYVIELD 63


  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
   0.312    0.130    0.357 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,833,028
Number of Sequences: 62578
Number of extensions: 432749
Number of successful extensions: 1216
Number of sequences better than 100.0: 82
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 72
Number of HSP's that attempted gapping in prelim test: 1182
Number of HSP's gapped (non-prelim): 101
length of query: 398
length of database: 14,973,337
effective HSP length: 101
effective length of query: 297
effective length of database: 8,652,959
effective search space: 2569928823
effective search space used: 2569928823
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 52 (24.6 bits)