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= 005426
         (697 letters)

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

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



>pdb|3RVY|A Chain A, Crystal Structure Of The Navab Voltage-Gated Sodium
           Channel (Ile217cys, 2.7 A)
 pdb|3RVY|B Chain B, Crystal Structure Of The Navab Voltage-Gated Sodium
           Channel (Ile217cys, 2.7 A)
 pdb|3RVZ|A Chain A, Crystal Structure Of The Navab Voltage-Gated Sodium
           Channel (Ile217cys, 2.8 A)
 pdb|3RVZ|B Chain B, Crystal Structure Of The Navab Voltage-Gated Sodium
           Channel (Ile217cys, 2.8 A)
          Length = 285

 Score = 29.6 bits (65), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 38/200 (19%), Positives = 81/200 (40%), Gaps = 16/200 (8%)

Query: 133 DFLVYGLYLSPIAFNFLPLRIAPYIRVVFFILNIRQLRDTLFVLAGMLGTYLNVXXXXXX 192
           DF V  + L P +  F  LR+   +R+   +  + Q+R  +  L  ++   L+V      
Sbjct: 98  DFFVVAISLVPTSSGFEILRVLRVLRLFRLVTAVPQMRKIVSALISVIPGMLSVIALMTL 157

Query: 193 XXXXXXXXXYVIFEDTVQGNMVFTSFGTTLYQMFVLFTTSN-NPDVWIPAYKASRWYCLF 251
                      +F +       F + G + Y +F + T  + +  +  P  +   +  +F
Sbjct: 158 FFYIFAIMATQLFGERFPEW--FGTLGESFYTLFQVMTLESWSMGIVRPLMEVYPYAWVF 215

Query: 252 FVLYVLIGVYFVTNLILAVVYDSFKSQLAKQVSEMDRMRRRTLGKAFNLIDNYNVGFLNK 311
           F+ ++ +  + + NL++A+  D+      K+        +  + +  +  DN N      
Sbjct: 216 FIPFIFVVTFVMINLVVAICVDAMAILNQKE-------EQHIIDEVQSHEDNIN------ 262

Query: 312 EQCIKLFEELNKYRTLPNIS 331
            + IKL EE+ + + L   S
Sbjct: 263 NEIIKLREEIVELKELIKTS 282


  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
   0.327    0.142    0.444 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,119,574
Number of Sequences: 62578
Number of extensions: 642381
Number of successful extensions: 1570
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1564
Number of HSP's gapped (non-prelim): 7
length of query: 697
length of database: 14,973,337
effective HSP length: 106
effective length of query: 591
effective length of database: 8,340,069
effective search space: 4928980779
effective search space used: 4928980779
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: 55 (25.8 bits)