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= 004837
         (728 letters)

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

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



>pdb|2OAU|A Chain A, Mechanosensitive Channel Of Small Conductance (Mscs)
 pdb|2OAU|B Chain B, Mechanosensitive Channel Of Small Conductance (Mscs)
 pdb|2OAU|C Chain C, Mechanosensitive Channel Of Small Conductance (Mscs)
 pdb|2OAU|D Chain D, Mechanosensitive Channel Of Small Conductance (Mscs)
 pdb|2OAU|E Chain E, Mechanosensitive Channel Of Small Conductance (Mscs)
 pdb|2OAU|F Chain F, Mechanosensitive Channel Of Small Conductance (Mscs)
 pdb|2OAU|G Chain G, Mechanosensitive Channel Of Small Conductance (Mscs)
 pdb|4HWA|A Chain A, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
           State)
 pdb|4HWA|B Chain B, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
           State)
 pdb|4HWA|C Chain C, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
           State)
 pdb|4HWA|D Chain D, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
           State)
 pdb|4HWA|E Chain E, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
           State)
 pdb|4HWA|F Chain F, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
           State)
 pdb|4HWA|G Chain G, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
           State)
          Length = 306

 Score = 33.9 bits (76), Expect = 0.37,   Method: Compositional matrix adjust.
 Identities = 18/61 (29%), Positives = 27/61 (44%)

Query: 551 VFIFVMHPFDIGDRCVIDGVQMVVEEMNILTTVFLRYDMEKIYYPNAVLLTKPISNFYRS 610
           V + +  PF  G+   + GV   V  + I +T     D + I  PN  ++   I NF R 
Sbjct: 142 VLLVMFRPFRAGEYVDLGGVAGTVLSVQIFSTTMRTADGKIIVIPNGKIIAGNIINFSRE 201

Query: 611 P 611
           P
Sbjct: 202 P 202


>pdb|4AGE|A Chain A, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
 pdb|4AGE|B Chain B, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
 pdb|4AGE|C Chain C, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
 pdb|4AGE|D Chain D, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
 pdb|4AGE|E Chain E, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
 pdb|4AGE|F Chain F, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
 pdb|4AGE|G Chain G, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
          Length = 286

 Score = 33.5 bits (75), Expect = 0.40,   Method: Compositional matrix adjust.
 Identities = 18/61 (29%), Positives = 27/61 (44%)

Query: 551 VFIFVMHPFDIGDRCVIDGVQMVVEEMNILTTVFLRYDMEKIYYPNAVLLTKPISNFYRS 610
           V + +  PF  G+   + GV   V  + I +T     D + I  PN  ++   I NF R 
Sbjct: 122 VLLVMFRPFRAGEYVDLGGVAGTVLSVQIFSTTMRTADGKIIVIPNGKIIAGNIINFSRE 181

Query: 611 P 611
           P
Sbjct: 182 P 182


>pdb|2VV5|A Chain A, The Open Structure Of Mscs
 pdb|2VV5|B Chain B, The Open Structure Of Mscs
 pdb|2VV5|C Chain C, The Open Structure Of Mscs
 pdb|2VV5|D Chain D, The Open Structure Of Mscs
 pdb|2VV5|E Chain E, The Open Structure Of Mscs
 pdb|2VV5|F Chain F, The Open Structure Of Mscs
 pdb|2VV5|G Chain G, The Open Structure Of Mscs
          Length = 286

 Score = 33.5 bits (75), Expect = 0.42,   Method: Compositional matrix adjust.
 Identities = 18/61 (29%), Positives = 27/61 (44%)

Query: 551 VFIFVMHPFDIGDRCVIDGVQMVVEEMNILTTVFLRYDMEKIYYPNAVLLTKPISNFYRS 610
           V + +  PF  G+   + GV   V  + I +T     D + I  PN  ++   I NF R 
Sbjct: 122 VLLVMFRPFRAGEYVDLGGVAGTVLSVQIFSTTMRTADGKIIVIPNGKIIAGNIINFSRE 181

Query: 611 P 611
           P
Sbjct: 182 P 182


>pdb|4AGF|A Chain A, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
 pdb|4AGF|B Chain B, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
 pdb|4AGF|C Chain C, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
 pdb|4AGF|D Chain D, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
 pdb|4AGF|E Chain E, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
 pdb|4AGF|F Chain F, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
 pdb|4AGF|G Chain G, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
          Length = 286

 Score = 32.3 bits (72), Expect = 0.88,   Method: Compositional matrix adjust.
 Identities = 18/61 (29%), Positives = 26/61 (42%)

Query: 551 VFIFVMHPFDIGDRCVIDGVQMVVEEMNILTTVFLRYDMEKIYYPNAVLLTKPISNFYRS 610
           V   +  PF  G+   + GV   V  + I +T     D + I  PN  ++   I NF R 
Sbjct: 122 VLCVMFRPFRAGEYVDLGGVAGTVLSVQIFSTTMRTADGKIIVIPNGKIIAGNIINFSRE 181

Query: 611 P 611
           P
Sbjct: 182 P 182


>pdb|2CSX|A Chain A, Crystal Structure Of Aquifex Aeolicus Methionyl-Trna
           Synthetase Complexed With Trna(Met)
 pdb|2CSX|B Chain B, Crystal Structure Of Aquifex Aeolicus Methionyl-Trna
           Synthetase Complexed With Trna(Met)
 pdb|2CT8|A Chain A, Crystal Structure Of Aquifex Aeolicus Methionyl-Trna
           Synthetase Complexed With Trna(Met) And
           Methionyl-Adenylate Anologue
 pdb|2CT8|B Chain B, Crystal Structure Of Aquifex Aeolicus Methionyl-Trna
           Synthetase Complexed With Trna(Met) And
           Methionyl-Adenylate Anologue
          Length = 497

 Score = 30.0 bits (66), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 18/55 (32%), Positives = 31/55 (56%), Gaps = 2/55 (3%)

Query: 21  PSMQTELNKEPNNILPLEKKSLSFSAPDLQ--QIPDTRKNALRRLSFSKPKSRLQ 73
           PS    L+K  + +L L +K+  F  PD +  +I    K  L+ LS ++P+SR++
Sbjct: 160 PSYFFRLSKYQDKLLELYEKNPEFIQPDYRRNEIISFVKQGLKDLSVTRPRSRVK 214


  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
   0.322    0.135    0.402 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,342,145
Number of Sequences: 62578
Number of extensions: 664467
Number of successful extensions: 1526
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1519
Number of HSP's gapped (non-prelim): 18
length of query: 728
length of database: 14,973,337
effective HSP length: 106
effective length of query: 622
effective length of database: 8,340,069
effective search space: 5187522918
effective search space used: 5187522918
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: 55 (25.8 bits)