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= 035877
         (162 letters)

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

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



>pdb|2WYM|A Chain A, Structure Of A Metallo-B-Lactamase
 pdb|2WYM|B Chain B, Structure Of A Metallo-B-Lactamase
 pdb|2WYM|D Chain D, Structure Of A Metallo-B-Lactamase
 pdb|2WYM|E Chain E, Structure Of A Metallo-B-Lactamase
          Length = 360

 Score = 29.3 bits (64), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 11/17 (64%), Positives = 13/17 (76%)

Query: 60  FGHNIWAGFFADSQEIR 76
           F H+IW+ F AD QEIR
Sbjct: 280 FHHDIWSNFQADPQEIR 296


>pdb|2WYM|C Chain C, Structure Of A Metallo-B-Lactamase
 pdb|2WYM|F Chain F, Structure Of A Metallo-B-Lactamase
          Length = 360

 Score = 29.3 bits (64), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 11/17 (64%), Positives = 13/17 (76%)

Query: 60  FGHNIWAGFFADSQEIR 76
           F H+IW+ F AD QEIR
Sbjct: 280 FHHDIWSNFQADPQEIR 296


>pdb|2WYL|A Chain A, Apo Structure Of A Metallo-B-Lactamase
 pdb|2WYL|B Chain B, Apo Structure Of A Metallo-B-Lactamase
 pdb|2WYL|C Chain C, Apo Structure Of A Metallo-B-Lactamase
 pdb|2WYL|D Chain D, Apo Structure Of A Metallo-B-Lactamase
 pdb|2WYL|E Chain E, Apo Structure Of A Metallo-B-Lactamase
 pdb|2WYL|F Chain F, Apo Structure Of A Metallo-B-Lactamase
          Length = 360

 Score = 28.9 bits (63), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 11/17 (64%), Positives = 13/17 (76%)

Query: 60  FGHNIWAGFFADSQEIR 76
           F H+IW+ F AD QEIR
Sbjct: 280 FHHDIWSNFQADPQEIR 296


>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 = 27.7 bits (60), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 5/41 (12%)

Query: 98  TFYFIGMPLALLFGF-----KLNLHAKGLWIGLICGLAAQA 133
           +++ +G+P   + G      +  L AKG W+G I GL+A A
Sbjct: 396 SYWVLGLPTGYILGMTNWLTEQPLGAKGFWLGFIIGLSAAA 436


  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
   0.329    0.140    0.445 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,984,855
Number of Sequences: 62578
Number of extensions: 123128
Number of successful extensions: 165
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 161
Number of HSP's gapped (non-prelim): 4
length of query: 162
length of database: 14,973,337
effective HSP length: 91
effective length of query: 71
effective length of database: 9,278,739
effective search space: 658790469
effective search space used: 658790469
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 47 (22.7 bits)