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= 008622
         (559 letters)

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

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



>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 = 32.0 bits (71), Expect = 0.98,   Method: Compositional matrix adjust.
 Identities = 21/91 (23%), Positives = 37/91 (40%), Gaps = 1/91 (1%)

Query: 357 TYKIIALVTSQLVLLAFMFGNTARTCFEAIIFVFVTHPFDVGDRCIIDGVQMVVDEMNIL 416
           T  +IA++ +  +++      +       ++ V    PF  G+   + GV   V  + I 
Sbjct: 93  TASVIAVLGAAGLVVGLALQGSLSNLAAGVLLVMF-RPFRAGEYVDLGGVAGTVLSVQIF 151

Query: 417 TTIFLRYDNERIYYPNSVLATKPIGNFFRSP 447
           +T     D + I  PN  +    I NF R P
Sbjct: 152 STTMRTADGKIIVIPNGKIIAGNIINFSREP 182


>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 = 31.2 bits (69), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 21/91 (23%), Positives = 36/91 (39%), Gaps = 1/91 (1%)

Query: 357 TYKIIALVTSQLVLLAFMFGNTARTCFEAIIFVFVTHPFDVGDRCIIDGVQMVVDEMNIL 416
           T  +IA++ +  + +      +       ++ V    PF  G+   + GV   V  + I 
Sbjct: 113 TASVIAVLGAAGLAVGLALQGSLSNLAAGVLLVMF-RPFRAGEYVDLGGVAGTVLSVQIF 171

Query: 417 TTIFLRYDNERIYYPNSVLATKPIGNFFRSP 447
           +T     D + I  PN  +    I NF R P
Sbjct: 172 STTMRTADGKIIVIPNGKIIAGNIINFSREP 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 = 31.2 bits (69), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 21/91 (23%), Positives = 36/91 (39%), Gaps = 1/91 (1%)

Query: 357 TYKIIALVTSQLVLLAFMFGNTARTCFEAIIFVFVTHPFDVGDRCIIDGVQMVVDEMNIL 416
           T  +IA++ +  + +      +       ++ V    PF  G+   + GV   V  + I 
Sbjct: 93  TASVIAVLGAAGLAVGLALQGSLSNLAAGVLLVMF-RPFRAGEYVDLGGVAGTVLSVQIF 151

Query: 417 TTIFLRYDNERIYYPNSVLATKPIGNFFRSP 447
           +T     D + I  PN  +    I NF R P
Sbjct: 152 STTMRTADGKIIVIPNGKIIAGNIINFSREP 182


>pdb|3N9I|A Chain A, Crystal Structure Of Tryptophanyl-Trna Synthetase From
           Yersinia Pestis Co92
 pdb|3N9I|B Chain B, Crystal Structure Of Tryptophanyl-Trna Synthetase From
           Yersinia Pestis Co92
          Length = 346

 Score = 30.0 bits (66), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 23/67 (34%), Positives = 32/67 (47%), Gaps = 5/67 (7%)

Query: 173 VQVLSTPKKKMDKKFRNINTAMQFIFTIRDV-KKVKRMTEEKISTCSLKALIRFISGSKL 231
           V  L  P KKM K   N N  ++ +   + V KK+KR     ++     ALIR+    K 
Sbjct: 198 VMSLQDPTKKMSKSDDNRNNVIELLEDPKSVVKKIKRA----MTDSDEPALIRYDVEKKA 253

Query: 232 SMSNELD 238
            +SN LD
Sbjct: 254 GVSNLLD 260


  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
   0.326    0.140    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,938,438
Number of Sequences: 62578
Number of extensions: 498381
Number of successful extensions: 1764
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1760
Number of HSP's gapped (non-prelim): 7
length of query: 559
length of database: 14,973,337
effective HSP length: 104
effective length of query: 455
effective length of database: 8,465,225
effective search space: 3851677375
effective search space used: 3851677375
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: 54 (25.4 bits)