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= 025906
         (246 letters)

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

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



>pdb|4HG6|A Chain A, Structure Of A Cellulose Synthase - Cellulose
           Translocation Intermediate
          Length = 802

 Score = 34.3 bits (77), Expect = 0.059,   Method: Compositional matrix adjust.
 Identities = 31/126 (24%), Positives = 51/126 (40%), Gaps = 20/126 (15%)

Query: 88  RPISRTVFPERLPEADQLPGIDVFICTADPTKEPTVEVMNTVLSAMALDYPPEKLHVYLS 147
           RP  R + PE      +LP +D+ + + +   EP   +  T+ +A  + YP     V L 
Sbjct: 128 RPFPRPLQPE------ELPTVDILVPSYN---EPADMLSVTLAAAKNMIYPARLRTVVLC 178

Query: 148 DDGGASITLLG-----MREAWKFARSWLPFCKRFGIKTICPEAYFSDPENGDGDSGNAEF 202
           DDGG     +       ++A +  R     C+  G+       Y +   N    +GN   
Sbjct: 179 DDGGTDQRCMSPDPELAQKAQERRRELQQLCRELGV------VYSTRERNEHAKAGNMSA 232

Query: 203 IVEREK 208
            +ER K
Sbjct: 233 ALERLK 238


  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
   0.321    0.137    0.418 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,487,270
Number of Sequences: 62578
Number of extensions: 306780
Number of successful extensions: 650
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 643
Number of HSP's gapped (non-prelim): 8
length of query: 246
length of database: 14,973,337
effective HSP length: 96
effective length of query: 150
effective length of database: 8,965,849
effective search space: 1344877350
effective search space used: 1344877350
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)