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= 018774
         (350 letters)

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

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



>pdb|3MKT|A Chain A, Structure Of A Cation-Bound Multidrug And Toxin Compound
           Extrusion (Mate) Transporter
 pdb|3MKT|B Chain B, Structure Of A Cation-Bound Multidrug And Toxin Compound
           Extrusion (Mate) Transporter
 pdb|3MKU|A Chain A, Structure Of A Cation-Bound Multidrug And Toxin Compound
           Extrusion (Mate) Transporter
 pdb|3MKU|B Chain B, Structure Of A Cation-Bound Multidrug And Toxin Compound
           Extrusion (Mate) Transporter
          Length = 460

 Score = 32.3 bits (72), Expect = 0.44,   Method: Compositional matrix adjust.
 Identities = 19/76 (25%), Positives = 37/76 (48%), Gaps = 3/76 (3%)

Query: 45  RRFWIESKKLWHIVGPTIFSRMASYSMFVITQAFAGHLGDLELAAISIANTV---VVAFN 101
            R+  E+  L  +  P + + +A   M  +    AG +  +++AA+SIA ++    + F 
Sbjct: 5   HRYKKEASNLIKLATPVLIASVAQTGMGFVDTIMAGGVSAIDMAAVSIAASIWLPSILFG 64

Query: 102 FGLLLGMASALETLCG 117
            GLL+ +   +  L G
Sbjct: 65  VGLLMALVPVVAQLNG 80


>pdb|2LPN|A Chain A, Solution Structure Of N-terminal Domain Of Human Conserved
           Dopamine Neurotrophic Factor (cdnf)
          Length = 105

 Score = 29.6 bits (65), Expect = 2.8,   Method: Composition-based stats.
 Identities = 13/40 (32%), Positives = 21/40 (52%)

Query: 289 NWYYRVLILMTGNLQNAKIAVDALSICMSINGWESQICYY 328
           N +Y+ LI    N     I  + +S C+   G E+++CYY
Sbjct: 19  NRFYKSLIDRGVNFSLDTIEKELISFCLDTKGKENRLCYY 58


>pdb|2W50|A Chain A, N-Terminal Domain Of Human Conserved Dopamine Neurotrophic
           Factor (Cdnf)
 pdb|2W50|B Chain B, N-Terminal Domain Of Human Conserved Dopamine Neurotrophic
           Factor (Cdnf)
          Length = 102

 Score = 29.6 bits (65), Expect = 2.8,   Method: Composition-based stats.
 Identities = 13/40 (32%), Positives = 21/40 (52%)

Query: 289 NWYYRVLILMTGNLQNAKIAVDALSICMSINGWESQICYY 328
           N +Y+ LI    N     I  + +S C+   G E+++CYY
Sbjct: 14  NRFYKSLIDRGVNFSLDTIEKELISFCLDTKGKENRLCYY 53


  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    0.141    0.457 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,146,162
Number of Sequences: 62578
Number of extensions: 316895
Number of successful extensions: 658
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 651
Number of HSP's gapped (non-prelim): 12
length of query: 350
length of database: 14,973,337
effective HSP length: 100
effective length of query: 250
effective length of database: 8,715,537
effective search space: 2178884250
effective search space used: 2178884250
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: 52 (24.6 bits)