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= 005241
         (706 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 = 46.6 bits (109), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 38/144 (26%), Positives = 65/144 (45%), Gaps = 5/144 (3%)

Query: 496 MGLATTKVVFVVTSQLLLVGFMFQNTCKTTFESIIFVFVMHPFDVGDRCVIDGVQMIVEE 555
           +G+ T  V+ V+ +  L+VG   Q +       ++ V    PF  G+   + GV   V  
Sbjct: 89  VGVQTASVIAVLGAAGLVVGLALQGSLSNLAAGVLLVM-FRPFRAGEYVDLGGVAGTVLS 147

Query: 556 MNILTTIFLRYDMEKIYYPNSVLITKPISNFRRSPDMGDSVDFTIDVSTSVDAINALKKA 615
           + I +T     D + I  PN  +I   I NF R P   +  +F I V+   D I+ +K+ 
Sbjct: 148 VQIFSTTMRTADGKIIVIPNGKIIAGNIINFSREPVRRN--EFIIGVAYDSD-IDQVKQI 204

Query: 616 IQAYIESKPKYWNPKH-TVLFKEI 638
           +   I+S+ +    +  TV   E+
Sbjct: 205 LTNIIQSEDRILKDREMTVRLNEL 228


>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 = 46.2 bits (108), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 38/144 (26%), Positives = 64/144 (44%), Gaps = 5/144 (3%)

Query: 496 MGLATTKVVFVVTSQLLLVGFMFQNTCKTTFESIIFVFVMHPFDVGDRCVIDGVQMIVEE 555
           +G+ T  V+ V+ +  L VG   Q +       ++ V    PF  G+   + GV   V  
Sbjct: 109 VGVQTASVIAVLGAAGLAVGLALQGSLSNLAAGVLLVM-FRPFRAGEYVDLGGVAGTVLS 167

Query: 556 MNILTTIFLRYDMEKIYYPNSVLITKPISNFRRSPDMGDSVDFTIDVSTSVDAINALKKA 615
           + I +T     D + I  PN  +I   I NF R P   +  +F I V+   D I+ +K+ 
Sbjct: 168 VQIFSTTMRTADGKIIVIPNGKIIAGNIINFSREPVRRN--EFIIGVAYDSD-IDQVKQI 224

Query: 616 IQAYIESKPKYWNPKH-TVLFKEI 638
           +   I+S+ +    +  TV   E+
Sbjct: 225 LTNIIQSEDRILKDREMTVRLNEL 248


>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 = 45.8 bits (107), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 38/144 (26%), Positives = 64/144 (44%), Gaps = 5/144 (3%)

Query: 496 MGLATTKVVFVVTSQLLLVGFMFQNTCKTTFESIIFVFVMHPFDVGDRCVIDGVQMIVEE 555
           +G+ T  V+ V+ +  L VG   Q +       ++ V    PF  G+   + GV   V  
Sbjct: 89  VGVQTASVIAVLGAAGLAVGLALQGSLSNLAAGVLLVM-FRPFRAGEYVDLGGVAGTVLS 147

Query: 556 MNILTTIFLRYDMEKIYYPNSVLITKPISNFRRSPDMGDSVDFTIDVSTSVDAINALKKA 615
           + I +T     D + I  PN  +I   I NF R P   +  +F I V+   D I+ +K+ 
Sbjct: 148 VQIFSTTMRTADGKIIVIPNGKIIAGNIINFSREPVRRN--EFIIGVAYDSD-IDQVKQI 204

Query: 616 IQAYIESKPKYWNPKH-TVLFKEI 638
           +   I+S+ +    +  TV   E+
Sbjct: 205 LTNIIQSEDRILKDREMTVRLNEL 228


>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 = 44.7 bits (104), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 38/144 (26%), Positives = 64/144 (44%), Gaps = 5/144 (3%)

Query: 496 MGLATTKVVFVVTSQLLLVGFMFQNTCKTTFESIIFVFVMHPFDVGDRCVIDGVQMIVEE 555
           +G+ T  V+ V+ +  L VG   Q +       ++ V    PF  G+   + GV   V  
Sbjct: 89  VGVQTASVIAVLGAAGLAVGLALQGSLSNLAAGVLCVM-FRPFRAGEYVDLGGVAGTVLS 147

Query: 556 MNILTTIFLRYDMEKIYYPNSVLITKPISNFRRSPDMGDSVDFTIDVSTSVDAINALKKA 615
           + I +T     D + I  PN  +I   I NF R P   +  +F I V+   D I+ +K+ 
Sbjct: 148 VQIFSTTMRTADGKIIVIPNGKIIAGNIINFSREPVRRN--EFIIGVAYDSD-IDQVKQI 204

Query: 616 IQAYIESKPKYWNPKH-TVLFKEI 638
           +   I+S+ +    +  TV   E+
Sbjct: 205 LTNIIQSEDRILKDREMTVRLNEL 228


>pdb|3UDC|A Chain A, Crystal Structure Of A Membrane Protein
 pdb|3UDC|B Chain B, Crystal Structure Of A Membrane Protein
 pdb|3UDC|C Chain C, Crystal Structure Of A Membrane Protein
 pdb|3UDC|D Chain D, Crystal Structure Of A Membrane Protein
 pdb|3UDC|E Chain E, Crystal Structure Of A Membrane Protein
 pdb|3UDC|F Chain F, Crystal Structure Of A Membrane Protein
 pdb|3UDC|G Chain G, Crystal Structure Of A Membrane Protein
          Length = 285

 Score = 30.4 bits (67), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 1/50 (2%)

Query: 512 LLVGFMFQNTCKTTFESIIFVFVMHPFDVGDRCVIDGVQMIVEEMNILTT 561
           L +GF  QN  K        +F    F VGD   I+G+   VEE+ +  T
Sbjct: 104 LAIGFGAQNLVKDMISGFFIIF-EDQFSVGDYVTINGISGTVEEIGLRVT 152


>pdb|3T9N|A Chain A, Crystal Structure Of A Membrane Protein
 pdb|3T9N|B Chain B, Crystal Structure Of A Membrane Protein
 pdb|3T9N|C Chain C, Crystal Structure Of A Membrane Protein
 pdb|3T9N|D Chain D, Crystal Structure Of A Membrane Protein
 pdb|3T9N|E Chain E, Crystal Structure Of A Membrane Protein
 pdb|3T9N|F Chain F, Crystal Structure Of A Membrane Protein
 pdb|3T9N|G Chain G, Crystal Structure Of A Membrane Protein
          Length = 282

 Score = 30.4 bits (67), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 1/50 (2%)

Query: 512 LLVGFMFQNTCKTTFESIIFVFVMHPFDVGDRCVIDGVQMIVEEMNILTT 561
           L +GF  QN  K        +F    F VGD   I+G+   VEE+ +  T
Sbjct: 104 LAIGFGAQNLVKDMISGFFIIF-EDQFSVGDYVTINGISGTVEEIGLRVT 152


  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
   0.323    0.136    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,059,744
Number of Sequences: 62578
Number of extensions: 700886
Number of successful extensions: 1649
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1638
Number of HSP's gapped (non-prelim): 13
length of query: 706
length of database: 14,973,337
effective HSP length: 106
effective length of query: 600
effective length of database: 8,340,069
effective search space: 5004041400
effective search space used: 5004041400
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.8 bits)