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= 046682
         (236 letters)

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

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



>pdb|2YYS|A Chain A, Crystal Structure Of The Proline Iminopeptidase-Related
           Protein Ttha1809 From Thermus Thermophilus Hb8
 pdb|2YYS|B Chain B, Crystal Structure Of The Proline Iminopeptidase-Related
           Protein Ttha1809 From Thermus Thermophilus Hb8
          Length = 286

 Score = 30.0 bits (66), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 26/110 (23%), Positives = 48/110 (43%), Gaps = 12/110 (10%)

Query: 1   MKELLGLKHLNVLSWSFGSSLAVQKFLKYPKLVSITQFVLVYHCKSAPFNLLHLAYMENL 60
           + E LG++   +L+  FG+ +A++   ++P+       +L+    + P+    LA    L
Sbjct: 88  LAEALGVERFGLLAHGFGAVVALEVLRRFPQAEGA---ILLAPWVNFPWLAARLAEAAGL 144

Query: 61  QELDLEDINLEEMKIDSTEEVKKLFQSGFRSLDRVVISSCKKMKDLTWLV 110
             L   + NL+E      EE K LF       DR++  + +      WL 
Sbjct: 145 APLPDPEENLKEAL--KREEPKALF-------DRLMFPTPRGRMAYEWLA 185


>pdb|3FFZ|A Chain A, Domain Organization In Clostridium Butulinum Neurotoxin
           Type E Is Unique: Its Implication In Faster
           Translocation
 pdb|3FFZ|B Chain B, Domain Organization In Clostridium Butulinum Neurotoxin
           Type E Is Unique: Its Implication In Faster
           Translocation
          Length = 1252

 Score = 27.3 bits (59), Expect = 7.9,   Method: Composition-based stats.
 Identities = 12/33 (36%), Positives = 22/33 (66%)

Query: 110 VFVQILKQLRIVFCTEMEEIISVDKLRDISEII 142
           +FV  ++Q+ + F TE  +  +VDK+ DIS ++
Sbjct: 571 LFVSWIQQVLVDFTTEANQKSTVDKIADISIVV 603


  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
   0.320    0.135    0.400 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,477,888
Number of Sequences: 62578
Number of extensions: 231739
Number of successful extensions: 632
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: 631
Number of HSP's gapped (non-prelim): 3
length of query: 236
length of database: 14,973,337
effective HSP length: 96
effective length of query: 140
effective length of database: 8,965,849
effective search space: 1255218860
effective search space used: 1255218860
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: 50 (23.9 bits)