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= 043543
         (381 letters)

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

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



>pdb|4GX5|A Chain A, Gsuk Channel
 pdb|4GX5|B Chain B, Gsuk Channel
 pdb|4GX5|C Chain C, Gsuk Channel
 pdb|4GX5|D Chain D, Gsuk Channel
          Length = 565

 Score = 28.9 bits (63), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 3/42 (7%)

Query: 246 KETLATKEELKAFANHASQTAALDYLISVESD---VFIPSHS 284
           +ET+ T++ L   A   SQ AAL+YLI    +   +FI  H 
Sbjct: 316 RETVLTEQSLLVLAGTKSQLAALEYLIGEAPEDELIFIIGHG 357


>pdb|4GX0|A Chain A, Crystal Structure Of The Gsuk L97d Mutant
 pdb|4GX0|B Chain B, Crystal Structure Of The Gsuk L97d Mutant
 pdb|4GX0|C Chain C, Crystal Structure Of The Gsuk L97d Mutant
 pdb|4GX0|D Chain D, Crystal Structure Of The Gsuk L97d Mutant
 pdb|4GX1|A Chain A, Crystal Structure Of The Gsuk Bound To Adp
 pdb|4GX1|B Chain B, Crystal Structure Of The Gsuk Bound To Adp
 pdb|4GX1|C Chain C, Crystal Structure Of The Gsuk Bound To Adp
 pdb|4GX1|D Chain D, Crystal Structure Of The Gsuk Bound To Adp
 pdb|4GX2|A Chain A, Gsuk Channel Bound To Nad
 pdb|4GX2|B Chain B, Gsuk Channel Bound To Nad
 pdb|4GX2|C Chain C, Gsuk Channel Bound To Nad
 pdb|4GX2|D Chain D, Gsuk Channel Bound To Nad
          Length = 565

 Score = 28.9 bits (63), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 3/42 (7%)

Query: 246 KETLATKEELKAFANHASQTAALDYLISVESD---VFIPSHS 284
           +ET+ T++ L   A   SQ AAL+YLI    +   +FI  H 
Sbjct: 316 RETVLTEQSLLVLAGTKSQLAALEYLIGEAPEDELIFIIGHG 357


>pdb|4GVL|A Chain A, Crystal Structure Of The Gsuk Rck Domain
 pdb|4GVL|B Chain B, Crystal Structure Of The Gsuk Rck Domain
 pdb|4GVL|C Chain C, Crystal Structure Of The Gsuk Rck Domain
 pdb|4GVL|D Chain D, Crystal Structure Of The Gsuk Rck Domain
          Length = 462

 Score = 28.5 bits (62), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 3/42 (7%)

Query: 246 KETLATKEELKAFANHASQTAALDYLISVESD---VFIPSHS 284
           +ET+ T++ L   A   SQ AAL+YLI    +   +FI  H 
Sbjct: 213 RETVLTEQSLLVLAGTKSQLAALEYLIGEAPEDELIFIIGHG 254


  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
   0.319    0.134    0.398 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,070,666
Number of Sequences: 62578
Number of extensions: 363544
Number of successful extensions: 737
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 737
Number of HSP's gapped (non-prelim): 3
length of query: 381
length of database: 14,973,337
effective HSP length: 101
effective length of query: 280
effective length of database: 8,652,959
effective search space: 2422828520
effective search space used: 2422828520
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)