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= 048323
         (99 letters)

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

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



>pdb|2YNM|D Chain D, Structure Of The Adpxalf3-stabilized Transition State Of
           The Nitrogenase-like Dark-operative Protochlorophyllide
           Oxidoreductase Complex From Prochlorococcus Marinus With
           Its Substrate Protochlorophyllide A
          Length = 530

 Score = 26.9 bits (58), Expect = 2.6,   Method: Composition-based stats.
 Identities = 28/97 (28%), Positives = 43/97 (44%), Gaps = 10/97 (10%)

Query: 1   MQGSWIVRQSDGSTPCLLGKAVDCNYIRGPKLMLACSST-------VANGVLGLVIGVIT 53
           M+ S  +  SD S      K+VD NY+ G ++ +    T       +AN  LG  +  I 
Sbjct: 268 MEVSNSISNSDQSKLPWYSKSVDSNYLTGKRVFIFGDGTHVLAAARIANEELGFEVVGIG 327

Query: 54  AVVVDMAFLVQANTTGELPERLIGAVRVSYIELKSAI 90
               +MA  V+A  T    E LI      Y+E++ +I
Sbjct: 328 TYSREMARKVRAAATELGLEALITN---DYLEVEESI 361


>pdb|3HTX|A Chain A, Crystal Structure Of Small Rna Methyltransferase Hen1
 pdb|3HTX|D Chain D, Crystal Structure Of Small Rna Methyltransferase Hen1
          Length = 950

 Score = 25.8 bits (55), Expect = 6.6,   Method: Composition-based stats.
 Identities = 11/42 (26%), Positives = 19/42 (45%)

Query: 36  CSSTVANGVLGLVIGVITAVVVDMAFLVQANTTGELPERLIG 77
           C     NG+  +    + A  +  AF  ++N  G LP  ++G
Sbjct: 360 CCGMSPNGIYKISRQAVIAAQLPFAFTTKSNWRGPLPREILG 401


  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    0.392 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,779,246
Number of Sequences: 62578
Number of extensions: 87916
Number of successful extensions: 121
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 120
Number of HSP's gapped (non-prelim): 3
length of query: 99
length of database: 14,973,337
effective HSP length: 65
effective length of query: 34
effective length of database: 10,905,767
effective search space: 370796078
effective search space used: 370796078
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: 45 (21.9 bits)