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= 013568
         (440 letters)

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

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



>pdb|1PV6|A Chain A, Crystal Structure Of Lactose Permease
 pdb|1PV6|B Chain B, Crystal Structure Of Lactose Permease
 pdb|1PV7|A Chain A, Crystal Structure Of Lactose Permease With Tdg
 pdb|1PV7|B Chain B, Crystal Structure Of Lactose Permease With Tdg
 pdb|2CFP|A Chain A, Sugar Free Lactose Permease At Acidic Ph
 pdb|2CFQ|A Chain A, Sugar Free Lactose Permease At Neutral Ph
          Length = 417

 Score = 28.9 bits (63), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 1/40 (2%)

Query: 158 YLKDDLHLDPAETAVI-SGFSSLPWLIKPLYGFISDSLPL 196
           +L D  H+  ++T +I +  S    L +PL+G +SD L L
Sbjct: 33  WLHDINHISKSDTGIIFAAISLFSLLFQPLFGLLSDKLGL 72


>pdb|2V8N|A Chain A, Wild-Type Structure Of Lactose Permease
 pdb|2V8N|B Chain B, Wild-Type Structure Of Lactose Permease
          Length = 417

 Score = 28.5 bits (62), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 1/40 (2%)

Query: 158 YLKDDLHLDPAETAVI-SGFSSLPWLIKPLYGFISDSLPL 196
           +L D  H+  ++T +I +  S    L +PL+G +SD L L
Sbjct: 33  WLHDINHISKSDTGIIFAAISLFSLLFQPLFGLLSDKLGL 72


>pdb|2Y5Y|A Chain A, Crystal Structure Of Lacy In Complex With An Affinity
           Inactivator
 pdb|2Y5Y|B Chain B, Crystal Structure Of Lacy In Complex With An Affinity
           Inactivator
          Length = 423

 Score = 28.5 bits (62), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 1/40 (2%)

Query: 158 YLKDDLHLDPAETAVI-SGFSSLPWLIKPLYGFISDSLPL 196
           +L D  H+  ++T +I +  S    L +PL+G +SD L L
Sbjct: 33  WLHDINHISKSDTGIIFAAISLFSLLFQPLFGLLSDKLGL 72


  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
   0.321    0.136    0.398 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,258,830
Number of Sequences: 62578
Number of extensions: 444400
Number of successful extensions: 857
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: 857
Number of HSP's gapped (non-prelim): 4
length of query: 440
length of database: 14,973,337
effective HSP length: 102
effective length of query: 338
effective length of database: 8,590,381
effective search space: 2903548778
effective search space used: 2903548778
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: 53 (25.0 bits)