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= 045237
         (758 letters)

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

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



>pdb|4AQ5|E Chain E, Gating Movement In Acetylcholine Receptor Analysed By
           Time- Resolved Electron Cryo-Microscopy (Closed Class)
 pdb|4AQ9|E Chain E, Gating Movement In Acetylcholine Receptor Analysed By
           Time-Resolved Electron Cryo-Microscopy (Open Class)
          Length = 488

 Score = 30.4 bits (67), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 2/58 (3%)

Query: 159 KKILDDIIKSVMPASGLSEIIGKDYTLKKSILRDYLTNKKYMTVLDDIYHDMIWNDLR 216
           +K+L D  K + PA  L  +I  D TLK ++      N+K   +  +++ ++ WND R
Sbjct: 8   EKLLGDYDKRIKPAKTLDHVI--DVTLKLTLTNLISLNEKEEALTTNVWIEIQWNDYR 63


>pdb|2BG9|E Chain E, Refined Structure Of The Nicotinic Acetylcholine Receptor
           At 4a Resolution
          Length = 370

 Score = 30.4 bits (67), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 2/58 (3%)

Query: 159 KKILDDIIKSVMPASGLSEIIGKDYTLKKSILRDYLTNKKYMTVLDDIYHDMIWNDLR 216
           +K+L D  K + PA  L  +I  D TLK ++      N+K   +  +++ ++ WND R
Sbjct: 8   EKLLGDYDKRIKPAKTLDHVI--DVTLKLTLTNLISLNEKEEALTTNVWIEIQWNDYR 63


>pdb|2O3B|A Chain A, Crystal Structure Complex Of Nuclease A (Nuca) With
           Intra-Cellular Inhibitor Nuia
          Length = 241

 Score = 30.0 bits (66), Expect = 5.3,   Method: Composition-based stats.
 Identities = 20/51 (39%), Positives = 29/51 (56%), Gaps = 5/51 (9%)

Query: 340 NSEANAEEYLKELISRG---LIKVGKRSAGGK-IK-TCSVPSSVWARLVVL 385
           N+  N E+Y +EL+S+G    I  G   + GK +K   +VP S W  +VVL
Sbjct: 124 NTWGNLEDYCRELVSQGKELYIVAGPNGSLGKPLKGKVTVPKSTWKIVVVL 174


>pdb|1I7Z|B Chain B, Antibody Gnc92h2 Bound To Ligand
 pdb|1I7Z|D Chain D, Antibody Gnc92h2 Bound To Ligand
          Length = 220

 Score = 29.6 bits (65), Expect = 6.5,   Method: Composition-based stats.
 Identities = 15/56 (26%), Positives = 26/56 (46%)

Query: 249 IGSDSVLVGGPLFRIKYEGWQFFLLYCGCKSLESQMMEMENEPTALLFCSIFELPL 304
           +G  +   G P +   + G   F L     +   Q++ ++NE TA  FC  ++ PL
Sbjct: 48  MGWINTYTGEPTYADDFRGRFAFSLATSASTAYLQIINLKNEDTATYFCETYDSPL 103


>pdb|1ZM8|A Chain A, Apo Crystal Structure Of Nuclease A From Anabaena Sp
          Length = 259

 Score = 29.6 bits (65), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 5/52 (9%)

Query: 339 HNSEANAEEYLKELISRG---LIKVGKRSAGGKI--KTCSVPSSVWARLVVL 385
            N+  N E+Y +EL+S+G    I  G   + GK      +VP S W  +VVL
Sbjct: 141 RNTWGNLEDYCRELVSQGKELYIVAGPNGSLGKPLKGKVTVPKSTWKIVVVL 192


  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
   0.322    0.139    0.424 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,918,061
Number of Sequences: 62578
Number of extensions: 808206
Number of successful extensions: 1941
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1940
Number of HSP's gapped (non-prelim): 7
length of query: 758
length of database: 14,973,337
effective HSP length: 106
effective length of query: 652
effective length of database: 8,340,069
effective search space: 5437724988
effective search space used: 5437724988
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: 55 (25.8 bits)