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= 048334
         (181 letters)

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

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



>pdb|3RCE|A Chain A, Bacterial Oligosaccharyltransferase Pglb
          Length = 724

 Score = 27.3 bits (59), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 33/124 (26%), Positives = 52/124 (41%), Gaps = 24/124 (19%)

Query: 72  FGIQTLSVIIGKEKVFWLGVYMMLTA-------YGAAILVGASSSFLLSKLVTIISHSIL 124
           FG+ TL V   KEK+F+L + +M+ A       Y  A++V      LL  +       I 
Sbjct: 210 FGLYTL-VFHRKEKIFYLAIALMIIALSMLAWQYKLALIV------LLFAIFAFKEEKIN 262

Query: 125 AFILWR----RAQTVDLSNKAS----TLSFYMFIWKASDCYTTLNTSLFILCVEKVMKDS 176
            +++W         + LS         L FY+F  KASD     + +     V + + + 
Sbjct: 263 FYMIWALIFISISILHLSGGLDPVLYQLKFYVF--KASDVQNLKDAAFMYFNVNETIMEV 320

Query: 177 NTCD 180
           NT D
Sbjct: 321 NTID 324


  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
   0.328    0.139    0.429 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,462,426
Number of Sequences: 62578
Number of extensions: 151050
Number of successful extensions: 255
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 255
Number of HSP's gapped (non-prelim): 1
length of query: 181
length of database: 14,973,337
effective HSP length: 93
effective length of query: 88
effective length of database: 9,153,583
effective search space: 805515304
effective search space used: 805515304
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: 48 (23.1 bits)