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= 042956
         (103 letters)

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

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



>pdb|2RKN|A Chain A, X-Ray Structure Of The Self-Defense And Signaling Protein
           Dir1 From Arabidopsis Taliana
          Length = 77

 Score = 42.7 bits (99), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 22/74 (29%), Positives = 31/74 (41%)

Query: 30  LCRMTKDGLTACQXXXXXXXXXXXXXXXXXXXXKADLQCFCVFKNSRVLSFYGIDFHQAM 89
           LC M++D L  C+                     AD  C C +KNS  L  +G+D   A 
Sbjct: 4   LCGMSQDELNECKPAVSKENPTSPSQPCCTALQHADFACLCGYKNSPWLGSFGVDPELAS 63

Query: 90  QLPAKCNLGDSFHC 103
            LP +C L ++  C
Sbjct: 64  ALPKQCGLANAPTC 77


>pdb|1GG3|A Chain A, Crystal Structure Of The Protein 4.1r Membrane Binding
           Domain
 pdb|1GG3|B Chain B, Crystal Structure Of The Protein 4.1r Membrane Binding
           Domain
 pdb|1GG3|C Chain C, Crystal Structure Of The Protein 4.1r Membrane Binding
           Domain
          Length = 279

 Score = 26.6 bits (57), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 12/29 (41%), Positives = 19/29 (65%), Gaps = 3/29 (10%)

Query: 63  KADLQCFCVFKNSRVLSFYGIDFHQAMQL 91
           +ADL+     +N++ LS YG+D H+A  L
Sbjct: 172 QADLE---FLENAKKLSMYGVDLHKAKDL 197


>pdb|3QIJ|A Chain A, Primitive-Monoclinic Crystal Structure Of The Ferm Domain
           Of Protein 4.1r
 pdb|3QIJ|B Chain B, Primitive-Monoclinic Crystal Structure Of The Ferm Domain
           Of Protein 4.1r
          Length = 296

 Score = 26.6 bits (57), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 12/29 (41%), Positives = 19/29 (65%), Gaps = 3/29 (10%)

Query: 63  KADLQCFCVFKNSRVLSFYGIDFHQAMQL 91
           +ADL+     +N++ LS YG+D H+A  L
Sbjct: 189 QADLE---FLENAKKLSMYGVDLHKAKDL 214


  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
   0.327    0.139    0.458 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,021,123
Number of Sequences: 62578
Number of extensions: 42876
Number of successful extensions: 60
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 57
Number of HSP's gapped (non-prelim): 3
length of query: 103
length of database: 14,973,337
effective HSP length: 68
effective length of query: 35
effective length of database: 10,718,033
effective search space: 375131155
effective search space used: 375131155
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 45 (21.9 bits)