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= psy11816
         (209 letters)

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

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



>pdb|3CJH|B Chain B, Tim8-Tim13 Complex
 pdb|3CJH|D Chain D, Tim8-Tim13 Complex
 pdb|3CJH|F Chain F, Tim8-Tim13 Complex
 pdb|3CJH|H Chain H, Tim8-Tim13 Complex
 pdb|3CJH|J Chain J, Tim8-Tim13 Complex
 pdb|3CJH|L Chain L, Tim8-Tim13 Complex
          Length = 64

 Score = 45.4 bits (106), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 18/49 (36%), Positives = 30/49 (61%), Gaps = 4/49 (8%)

Query: 83  IETHMFEFNDICWDKC----QSDKVDSKTETCLTNCVNRFIDVSLFITN 127
           ++  + +F +IC+ KC        + S+ E CL+NCVNRF+D ++ I N
Sbjct: 10  VQMSIHQFTNICFKKCVESVNDSNLSSQEEQCLSNCVNRFLDTNIRIVN 58


>pdb|2DAW|A Chain A, Solution Structure Of The Rwd Domain Of Human Rwd Omain
           Containing Protein 2
          Length = 154

 Score = 30.4 bits (67), Expect = 0.66,   Method: Compositional matrix adjust.
 Identities = 11/32 (34%), Positives = 17/32 (53%)

Query: 25  DLAIMFPHSRPESTFWIFGKPTYIDTHADLAI 56
           DL +  PHS P     +FG+ + +D H  L +
Sbjct: 78  DLQVTMPHSYPYLALQLFGRSSELDRHQQLLL 109


>pdb|1MVY|A Chain A, Amylosucrase Mutant E328q Co-Crystallized With
           Maltoheptaose.
 pdb|1MW0|A Chain A, Amylosucrase Mutant E328q Co-crystallized With
           Maltoheptaose Then Soaked With Maltoheptaose.
 pdb|1S46|A Chain A, Covalent Intermediate Of The E328q Amylosucrase Mutant
 pdb|1ZS2|A Chain A, Amylosucrase Mutant E328q In A Ternary Complex With
           Sucrose And Maltoheptaose
          Length = 628

 Score = 30.0 bits (66), Expect = 0.90,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 7/52 (13%)

Query: 12  LAIMVADLAIMSADL---AIMFPHSRPESTFWIFGKPTYIDTHADLAIMFAD 60
           +A++   LA    +L   A+ + H+ PE T W+     Y+ +H D+   FAD
Sbjct: 354 MALLWNTLATREVNLLHQALTYRHNLPEHTAWV----NYVRSHDDIGWTFAD 401


>pdb|4FLS|A Chain A, Crystal Structure Of Amylosucrase Inactive Double Mutant
           F290k-E328q From Neisseria Polysaccharea In Complex With
           Sucrose
          Length = 628

 Score = 30.0 bits (66), Expect = 0.90,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 7/52 (13%)

Query: 12  LAIMVADLAIMSADL---AIMFPHSRPESTFWIFGKPTYIDTHADLAIMFAD 60
           +A++   LA    +L   A+ + H+ PE T W+     Y+ +H D+   FAD
Sbjct: 354 MALLWNTLATREVNLLHQALTYRHNLPEHTAWV----NYVRSHDDIGWTFAD 401


>pdb|3UEQ|A Chain A, Crystal Structure Of Amylosucrase From Neisseria
           Polysaccharea In Complex With Turanose
          Length = 632

 Score = 30.0 bits (66), Expect = 0.90,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 7/52 (13%)

Query: 12  LAIMVADLAIMSADL---AIMFPHSRPESTFWIFGKPTYIDTHADLAIMFAD 60
           +A++   LA    +L   A+ + H+ PE T W+     Y+ +H D+   FAD
Sbjct: 358 MALLWNTLATREVNLLHQALTYRHNLPEHTAWV----NYVRSHDDIGWTFAD 405


>pdb|4FLQ|A Chain A, Crystal Structure Of Amylosucrase Double Mutant
           A289p-F290i From Neisseria Polysaccharea
          Length = 628

 Score = 30.0 bits (66), Expect = 0.91,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 7/52 (13%)

Query: 12  LAIMVADLAIMSADL---AIMFPHSRPESTFWIFGKPTYIDTHADLAIMFAD 60
           +A++   LA    +L   A+ + H+ PE T W+     Y+ +H D+   FAD
Sbjct: 354 MALLWNTLATREVNLLHQALTYRHNLPEHTAWV----NYVRSHDDIGWTFAD 401


>pdb|4FLO|A Chain A, Crystal Structure Of Amylosucrase Double Mutant
           A289p-F290c From Neisseria Polysaccharea
          Length = 628

 Score = 30.0 bits (66), Expect = 0.91,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 7/52 (13%)

Query: 12  LAIMVADLAIMSADL---AIMFPHSRPESTFWIFGKPTYIDTHADLAIMFAD 60
           +A++   LA    +L   A+ + H+ PE T W+     Y+ +H D+   FAD
Sbjct: 354 MALLWNTLATREVNLLHQALTYRHNLPEHTAWV----NYVRSHDDIGWTFAD 401


>pdb|1JGI|A Chain A, Crystal Structure Of The Active Site Mutant Glu328gln Of
           Amylosucrase From Neisseria Polysaccharea In Complex
           With The Natural Substrate Sucrose
          Length = 628

 Score = 30.0 bits (66), Expect = 0.91,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 7/52 (13%)

Query: 12  LAIMVADLAIMSADL---AIMFPHSRPESTFWIFGKPTYIDTHADLAIMFAD 60
           +A++   LA    +L   A+ + H+ PE T W+     Y+ +H D+   FAD
Sbjct: 354 MALLWNTLATREVNLLHQALTYRHNLPEHTAWV----NYVRSHDDIGWTFAD 401


>pdb|1G5A|A Chain A, Amylosucrase From Neisseria Polysaccharea
 pdb|1JG9|A Chain A, Crystal Structure Of Amylosucrase From Neisseria
           Polysaccharea In Complex With D-glucose
 pdb|1MW1|A Chain A, Amylosucrase Soaked With 14mm Sucrose.
 pdb|1MW2|A Chain A, Amylosucrase Soaked With 100mm Sucrose
 pdb|1MW3|A Chain A, Amylosucrase Soaked With 1m Sucrose
          Length = 628

 Score = 30.0 bits (66), Expect = 0.91,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 7/52 (13%)

Query: 12  LAIMVADLAIMSADL---AIMFPHSRPESTFWIFGKPTYIDTHADLAIMFAD 60
           +A++   LA    +L   A+ + H+ PE T W+     Y+ +H D+   FAD
Sbjct: 354 MALLWNTLATREVNLLHQALTYRHNLPEHTAWV----NYVRSHDDIGWTFAD 401


>pdb|4FLR|A Chain A, Crystal Structure Of Amylosucrase Double Mutant
           A289p-F290l From Neisseria Polysaccharea
          Length = 628

 Score = 30.0 bits (66), Expect = 0.91,   Method: Composition-based stats.
 Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 7/52 (13%)

Query: 12  LAIMVADLAIMSADL---AIMFPHSRPESTFWIFGKPTYIDTHADLAIMFAD 60
           +A++   LA    +L   A+ + H+ PE T W+     Y+ +H D+   FAD
Sbjct: 354 MALLWNTLATREVNLLHQALTYRHNLPEHTAWV----NYVRSHDDIGWTFAD 401


>pdb|3F5F|A Chain A, Crystal Structure Of Heparan Sulfate 2-O-Sulfotransferase
           From Gallus Gallus As A Maltose Binding Protein Fusion
          Length = 658

 Score = 28.9 bits (63), Expect = 2.1,   Method: Composition-based stats.
 Identities = 14/34 (41%), Positives = 16/34 (47%)

Query: 151 TTKNNPPPGLQSHVKSVRLTLRMTEYSPGIAFKH 184
           TTKNNP   LQ  V+ V+      E  PG    H
Sbjct: 411 TTKNNPVMSLQDQVRFVKNVTSWKEMKPGFYHGH 444


>pdb|3EBJ|A Chain A, Crystal Structure Of An Avian Influenza Virus Protein
 pdb|3EBJ|B Chain B, Crystal Structure Of An Avian Influenza Virus Protein
 pdb|3EBJ|C Chain C, Crystal Structure Of An Avian Influenza Virus Protein
 pdb|3EBJ|D Chain D, Crystal Structure Of An Avian Influenza Virus Protein
          Length = 259

 Score = 28.5 bits (62), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 2/40 (5%)

Query: 50 THADLAIMFADLAIMFADSRPESTFWIFGKPTYIETHMFE 89
          TH ++  M++D    F D R EST    G P  +  H FE
Sbjct: 43 THLEVCFMYSDF--HFIDERGESTIIESGDPNALLKHRFE 80


>pdb|3HW3|A Chain A, The Crystal Structure Of Avian Influenza Virus Pa_n In
          Complex With Ump
 pdb|3HW3|B Chain B, The Crystal Structure Of Avian Influenza Virus Pa_n In
          Complex With Ump
 pdb|3HW3|C Chain C, The Crystal Structure Of Avian Influenza Virus Pa_n In
          Complex With Ump
 pdb|3HW3|D Chain D, The Crystal Structure Of Avian Influenza Virus Pa_n In
          Complex With Ump
 pdb|3HW5|A Chain A, Crystal Structure Of Avian Influenza Virus Pa_n In
          Complex With Amp
 pdb|3HW5|B Chain B, Crystal Structure Of Avian Influenza Virus Pa_n In
          Complex With Amp
 pdb|3HW5|C Chain C, Crystal Structure Of Avian Influenza Virus Pa_n In
          Complex With Amp
 pdb|3HW5|D Chain D, Crystal Structure Of Avian Influenza Virus Pa_n In
          Complex With Amp
 pdb|3HW6|A Chain A, Crystal Structure Of Avian Influenza Virus Pa_n In
          Complex With Mn
 pdb|3HW6|B Chain B, Crystal Structure Of Avian Influenza Virus Pa_n In
          Complex With Mn
 pdb|3HW6|C Chain C, Crystal Structure Of Avian Influenza Virus Pa_n In
          Complex With Mn
 pdb|3HW6|D Chain D, Crystal Structure Of Avian Influenza Virus Pa_n In
          Complex With Mn
 pdb|3HW4|A Chain A, Crystal Structure Of Avian Influenza A Virus In Complex
          With Tmp
 pdb|3HW4|B Chain B, Crystal Structure Of Avian Influenza A Virus In Complex
          With Tmp
 pdb|3HW4|C Chain C, Crystal Structure Of Avian Influenza A Virus In Complex
          With Tmp
 pdb|3HW4|D Chain D, Crystal Structure Of Avian Influenza A Virus In Complex
          With Tmp
          Length = 261

 Score = 28.5 bits (62), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 2/40 (5%)

Query: 50 THADLAIMFADLAIMFADSRPESTFWIFGKPTYIETHMFE 89
          TH ++  M++D    F D R EST    G P  +  H FE
Sbjct: 45 THLEVCFMYSDF--HFIDERGESTIIESGDPNALLKHRFE 82


  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    0.136    0.424 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,816,655
Number of Sequences: 62578
Number of extensions: 217752
Number of successful extensions: 512
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 508
Number of HSP's gapped (non-prelim): 13
length of query: 209
length of database: 14,973,337
effective HSP length: 94
effective length of query: 115
effective length of database: 9,091,005
effective search space: 1045465575
effective search space used: 1045465575
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 49 (23.5 bits)