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= 025418
         (253 letters)

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

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



>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By
           Mda5
 pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition By
           Mda5
          Length = 699

 Score = 28.1 bits (61), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 3/34 (8%)

Query: 66  KRLGISPYASEEEIWGSRNFLLEQYTGHERSEES 99
           KRL  +P    E++   RN ++EQYT   R+EES
Sbjct: 370 KRLAENPEYENEKLTKLRNTIMEQYT---RTEES 400


>pdb|3G5T|A Chain A, Crystal Structure Of Trans-Aconitate 3-Methyltransferase
           From Yeast
          Length = 299

 Score = 27.7 bits (60), Expect = 6.1,   Method: Compositional matrix adjust.
 Identities = 12/52 (23%), Positives = 24/52 (46%)

Query: 22  GYENTRKTAFCPLSRSSKVARCAVDTPSGGNMPTFSRIKVWDPYKRLGISPY 73
            +E  +++A+  L +   +A      P   + P F  + +  PY + G+ PY
Sbjct: 127 DFEKFQRSAYANLRKDGTIAIWGYADPIFPDYPEFDDLXIEVPYGKQGLGPY 178


  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    0.137    0.426 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,662,828
Number of Sequences: 62578
Number of extensions: 253124
Number of successful extensions: 567
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 565
Number of HSP's gapped (non-prelim): 4
length of query: 253
length of database: 14,973,337
effective HSP length: 97
effective length of query: 156
effective length of database: 8,903,271
effective search space: 1388910276
effective search space used: 1388910276
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: 50 (23.9 bits)