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= psy17048
         (103 letters)

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

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



>pdb|1SG4|A Chain A, Crystal Structure Of Human Mitochondrial Delta3-delta2-
           Enoyl-coa Isomerase
 pdb|1SG4|B Chain B, Crystal Structure Of Human Mitochondrial Delta3-delta2-
           Enoyl-coa Isomerase
 pdb|1SG4|C Chain C, Crystal Structure Of Human Mitochondrial Delta3-delta2-
           Enoyl-coa Isomerase
          Length = 260

 Score = 26.6 bits (57), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 14/40 (35%), Positives = 19/40 (47%), Gaps = 7/40 (17%)

Query: 64  GCLYAFTCTFYITAYTKIWCEHHTTFLILLNDAYLSVLLP 103
           GCL A TC + I A    +C       I LN+  L ++ P
Sbjct: 112 GCLVALTCDYRILADNPRYC-------IGLNETQLGIIAP 144


>pdb|4AQ5|A Chain A, Gating Movement In Acetylcholine Receptor Analysed By
           Time- Resolved Electron Cryo-Microscopy (Closed Class)
 pdb|4AQ5|D Chain D, Gating Movement In Acetylcholine Receptor Analysed By
           Time- Resolved Electron Cryo-Microscopy (Closed Class)
 pdb|4AQ9|A Chain A, Gating Movement In Acetylcholine Receptor Analysed By
           Time-Resolved Electron Cryo-Microscopy (Open Class)
 pdb|4AQ9|D Chain D, Gating Movement In Acetylcholine Receptor Analysed By
           Time-Resolved Electron Cryo-Microscopy (Open Class)
          Length = 461

 Score = 25.8 bits (55), Expect = 6.1,   Method: Composition-based stats.
 Identities = 19/44 (43%), Positives = 24/44 (54%), Gaps = 8/44 (18%)

Query: 25  WVFATPFIEPDTAILDIRYYF----PPIQYA--LIIPCALISGL 62
           WV+ T    PDT  LDI Y+F     P+ +   +IIPC L S L
Sbjct: 211 WVYYT--CCPDTPYLDITYHFIMQRIPLYFVVNVIIPCLLFSFL 252


  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
   0.335    0.149    0.509 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,167,082
Number of Sequences: 62578
Number of extensions: 108636
Number of successful extensions: 351
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 351
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 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 45 (21.9 bits)