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= 034199
         (101 letters)

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

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



>pdb|3LQ2|A Chain A, E. Coli Pyruvate Dehydrogenase Complex E1 E235a Mutant
           With Low Tdp Concentration
 pdb|3LQ2|B Chain B, E. Coli Pyruvate Dehydrogenase Complex E1 E235a Mutant
           With Low Tdp Concentration
 pdb|3LQ4|A Chain A, E. Coli Pyruvate Dehydrogenase Complex E1 E235a Mutant
           With High Tdp Concentration
 pdb|3LQ4|B Chain B, E. Coli Pyruvate Dehydrogenase Complex E1 E235a Mutant
           With High Tdp Concentration
          Length = 886

 Score = 28.9 bits (63), Expect = 0.84,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 31/68 (45%), Gaps = 7/68 (10%)

Query: 34  KLEKFLRQQGLKGNSYRLLFGDLKENSIELKEAKARPLSLDDNIAIRVNPFLHKLVRILS 93
           K  K+L  +GLK  S + ++  L +  ++  E+K         I I     L  LV +++
Sbjct: 206 KFLKYLEHRGLKDTSKQTVYAFLGDGEMDAPESKGA-------ITIATREKLDNLVFVIN 258

Query: 94  CGLVRHQG 101
           C L R  G
Sbjct: 259 CNLQRLDG 266


>pdb|3LPL|A Chain A, E. Coli Pyruvate Dehydrogenase Complex E1 Component E571a
           Mutant
 pdb|3LPL|B Chain B, E. Coli Pyruvate Dehydrogenase Complex E1 Component E571a
           Mutant
          Length = 886

 Score = 28.1 bits (61), Expect = 1.3,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 31/68 (45%), Gaps = 7/68 (10%)

Query: 34  KLEKFLRQQGLKGNSYRLLFGDLKENSIELKEAKARPLSLDDNIAIRVNPFLHKLVRILS 93
           K  K+L  +GLK  S + ++  L +  ++  E+K         I I     L  LV +++
Sbjct: 206 KFLKYLEHRGLKDTSKQTVYAFLGDGEMDEPESKGA-------ITIATREKLDNLVFVIN 258

Query: 94  CGLVRHQG 101
           C L R  G
Sbjct: 259 CNLQRLDG 266


>pdb|2QTA|A Chain A, E. Coli Pyruvate Dehydrogenase E1 Component E401k Mutant
           With Thiamin Diphosphate
 pdb|2QTA|B Chain B, E. Coli Pyruvate Dehydrogenase E1 Component E401k Mutant
           With Thiamin Diphosphate
 pdb|2QTC|A Chain A, E. Coli Pyruvate Dehydrogenase E1 Component E401k Mutant
           With Phosphonolactylthiamin Diphosphate
 pdb|2QTC|B Chain B, E. Coli Pyruvate Dehydrogenase E1 Component E401k Mutant
           With Phosphonolactylthiamin Diphosphate
          Length = 886

 Score = 28.1 bits (61), Expect = 1.3,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 31/68 (45%), Gaps = 7/68 (10%)

Query: 34  KLEKFLRQQGLKGNSYRLLFGDLKENSIELKEAKARPLSLDDNIAIRVNPFLHKLVRILS 93
           K  K+L  +GLK  S + ++  L +  ++  E+K         I I     L  LV +++
Sbjct: 206 KFLKYLEHRGLKDTSKQTVYAFLGDGEMDEPESKGA-------ITIATREKLDNLVFVIN 258

Query: 94  CGLVRHQG 101
           C L R  G
Sbjct: 259 CNLQRLDG 266


>pdb|1L8A|A Chain A, E. Coli Pyruvate Dehydrogenase
 pdb|1L8A|B Chain B, E. Coli Pyruvate Dehydrogenase
 pdb|1RP7|A Chain A, E. Coli Pyruvate Dehydrogenase Inhibitor Complex
 pdb|1RP7|B Chain B, E. Coli Pyruvate Dehydrogenase Inhibitor Complex
 pdb|2G25|A Chain A, E. Coli Pyruvate Dehydrogenase Phosphonolactylthiamin
           Diphosphate Complex
 pdb|2G25|B Chain B, E. Coli Pyruvate Dehydrogenase Phosphonolactylthiamin
           Diphosphate Complex
 pdb|2G28|A Chain A, E. Coli Pyruvate Dehydrogenase H407a Variant
           Phosphonolactylthiamin Diphosphate Complex
 pdb|2G28|B Chain B, E. Coli Pyruvate Dehydrogenase H407a Variant
           Phosphonolactylthiamin Diphosphate Complex
 pdb|2G67|A Chain A, E. Coli Pyruvate Dehydrogenase E1 Component (Apoenzyme)
 pdb|2G67|B Chain B, E. Coli Pyruvate Dehydrogenase E1 Component (Apoenzyme)
 pdb|2IEA|A Chain A, E. Coli Pyruvate Dehydrogenase
 pdb|2IEA|B Chain B, E. Coli Pyruvate Dehydrogenase
          Length = 886

 Score = 28.1 bits (61), Expect = 1.3,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 31/68 (45%), Gaps = 7/68 (10%)

Query: 34  KLEKFLRQQGLKGNSYRLLFGDLKENSIELKEAKARPLSLDDNIAIRVNPFLHKLVRILS 93
           K  K+L  +GLK  S + ++  L +  ++  E+K         I I     L  LV +++
Sbjct: 206 KFLKYLEHRGLKDTSKQTVYAFLGDGEMDEPESKGA-------ITIATREKLDNLVFVIN 258

Query: 94  CGLVRHQG 101
           C L R  G
Sbjct: 259 CNLQRLDG 266


>pdb|3F96|A Chain A, Crystal Structure Of Human Plasma Platelet Activating
          Factor Acetylhydrolase Covalently Inhibited By Sarin
 pdb|3F96|B Chain B, Crystal Structure Of Human Plasma Platelet Activating
          Factor Acetylhydrolase Covalently Inhibited By Sarin
          Length = 383

 Score = 26.6 bits (57), Expect = 3.3,   Method: Composition-based stats.
 Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 4/36 (11%)

Query: 25 LNWVWLRPKK----LEKFLRQQGLKGNSYRLLFGDL 56
          L+ +W+  K+    L KFL    L GN  RLLFG +
Sbjct: 47 LDTLWIPNKEYFWGLSKFLGTHWLMGNILRLLFGSM 82


>pdb|3D59|A Chain A, Crystal Structure Of Human Plasma Platelet Activating
          Factor Acetylhydrolase
 pdb|3D59|B Chain B, Crystal Structure Of Human Plasma Platelet Activating
          Factor Acetylhydrolase
 pdb|3D5E|A Chain A, Crystal Structure Of Human Plasma Platelet Activating
          Factor Acetylhydrolase Covalently Inhibited By Paraoxon
 pdb|3D5E|B Chain B, Crystal Structure Of Human Plasma Platelet Activating
          Factor Acetylhydrolase Covalently Inhibited By Paraoxon
 pdb|3F97|A Chain A, Crystal Structure Of Human Plasma Platelet Activating
          Factor Acetylhydrolase Covalently Inhibited By Soman
 pdb|3F97|B Chain B, Crystal Structure Of Human Plasma Platelet Activating
          Factor Acetylhydrolase Covalently Inhibited By Soman
 pdb|3F98|A Chain A, Crystal Structure Of Human Plasma Platelet Activating
          Factor Acetylhydrolase Covalently Inhibited By Tabun
 pdb|3F98|B Chain B, Crystal Structure Of Human Plasma Platelet Activating
          Factor Acetylhydrolase Covalently Inhibited By Tabun
 pdb|3F98|C Chain C, Crystal Structure Of Human Plasma Platelet Activating
          Factor Acetylhydrolase Covalently Inhibited By Tabun
 pdb|3F9C|A Chain A, Crystal Structure Of Human Plasma Platelet Activating
          Factor Acetylhydrolase Covalently Inhibited By
          Diisopropylfluorophosphate
 pdb|3F9C|B Chain B, Crystal Structure Of Human Plasma Platelet Activating
          Factor Acetylhydrolase Covalently Inhibited By
          Diisopropylfluorophosphate
          Length = 383

 Score = 26.6 bits (57), Expect = 3.3,   Method: Composition-based stats.
 Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 4/36 (11%)

Query: 25 LNWVWLRPKK----LEKFLRQQGLKGNSYRLLFGDL 56
          L+ +W+  K+    L KFL    L GN  RLLFG +
Sbjct: 47 LDTLWIPNKEYFWGLSKFLGTHWLMGNILRLLFGSM 82


>pdb|2UYR|X Chain X, Crystal Structure Of Bacillus Cereus Sphingomyelinase
           Mutant :n57a
          Length = 306

 Score = 25.8 bits (55), Expect = 6.0,   Method: Composition-based stats.
 Identities = 9/29 (31%), Positives = 18/29 (62%)

Query: 33  KKLEKFLRQQGLKGNSYRLLFGDLKENSI 61
           K+++ F++ + +  N Y L+ GD+  N I
Sbjct: 173 KEIQDFIKNKNIPNNEYVLIGGDMNVNKI 201


>pdb|2DDR|A Chain A, Crystal Structure Of Sphingomyelinase From Bacillus Cereus
           With Calcium Ion
 pdb|2DDR|B Chain B, Crystal Structure Of Sphingomyelinase From Bacillus Cereus
           With Calcium Ion
 pdb|2DDR|C Chain C, Crystal Structure Of Sphingomyelinase From Bacillus Cereus
           With Calcium Ion
 pdb|2DDR|D Chain D, Crystal Structure Of Sphingomyelinase From Bacillus Cereus
           With Calcium Ion
 pdb|2DDS|A Chain A, Crystal Structure Of Sphingomyelinase From Bacillus Cereus
           With Cobalt Ion
 pdb|2DDS|B Chain B, Crystal Structure Of Sphingomyelinase From Bacillus Cereus
           With Cobalt Ion
 pdb|2DDS|C Chain C, Crystal Structure Of Sphingomyelinase From Bacillus Cereus
           With Cobalt Ion
 pdb|2DDS|D Chain D, Crystal Structure Of Sphingomyelinase From Bacillus Cereus
           With Cobalt Ion
 pdb|2DDT|A Chain A, Crystal Structure Of Sphingomyelinase From Bacillus Cereus
           With Magnesium Ion
 pdb|2DDT|B Chain B, Crystal Structure Of Sphingomyelinase From Bacillus Cereus
           With Magnesium Ion
          Length = 306

 Score = 25.8 bits (55), Expect = 6.0,   Method: Composition-based stats.
 Identities = 9/29 (31%), Positives = 18/29 (62%)

Query: 33  KKLEKFLRQQGLKGNSYRLLFGDLKENSI 61
           K+++ F++ + +  N Y L+ GD+  N I
Sbjct: 173 KEIQDFIKNKNIPNNEYVLIGGDMNVNKI 201


>pdb|3V97|A Chain A, Crystal Structure Of Bifunctional Methyltransferase Ycby
           (Rlmlk) From Escherichia Coli, Sah Binding
 pdb|3V97|B Chain B, Crystal Structure Of Bifunctional Methyltransferase Ycby
           (Rlmlk) From Escherichia Coli, Sah Binding
          Length = 703

 Score = 25.8 bits (55), Expect = 6.4,   Method: Composition-based stats.
 Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 2/29 (6%)

Query: 33  KKLEKFLRQQGLKGNSYRLLFGDLKENSI 61
           KK EK+ RQ+G++   YRL   DL E ++
Sbjct: 405 KKFEKWARQEGIE--CYRLYDADLPEYNV 431


>pdb|3V8V|A Chain A, Crystal Structure Of Bifunctional Methyltransferase Ycby
           (Rlmlk) From Escherichia Coli, Sam Binding
 pdb|3V8V|B Chain B, Crystal Structure Of Bifunctional Methyltransferase Ycby
           (Rlmlk) From Escherichia Coli, Sam Binding
          Length = 702

 Score = 25.8 bits (55), Expect = 6.4,   Method: Composition-based stats.
 Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 2/29 (6%)

Query: 33  KKLEKFLRQQGLKGNSYRLLFGDLKENSI 61
           KK EK+ RQ+G++   YRL   DL E ++
Sbjct: 404 KKFEKWARQEGIE--CYRLYDADLPEYNV 430


>pdb|3TTM|A Chain A, Crystal Structure Of Spud In Complex With Putrescine
 pdb|3TTM|B Chain B, Crystal Structure Of Spud In Complex With Putrescine
          Length = 346

 Score = 25.4 bits (54), Expect = 8.8,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 35/68 (51%), Gaps = 8/68 (11%)

Query: 24 VLNWV-WLRPKKLEKFLRQQGLKGNSYRLLFGDLKENSIELKEAKARPLSLDDNIAIRVN 82
          V NW  ++ P  LEKF ++ G+K      +  D+ +++ E+ EAK        ++ +  N
Sbjct: 12 VYNWSDYIAPDTLEKFTKETGIK------VVYDVYDSN-EVLEAKLLAGKSGYDVVVPSN 64

Query: 83 PFLHKLVR 90
           FL K ++
Sbjct: 65 SFLAKQIK 72


>pdb|3TTK|A Chain A, Crystal Structure Of Apo-Spud
 pdb|3TTK|B Chain B, Crystal Structure Of Apo-Spud
 pdb|3TTK|C Chain C, Crystal Structure Of Apo-Spud
          Length = 345

 Score = 25.4 bits (54), Expect = 8.8,   Method: Composition-based stats.
 Identities = 19/68 (27%), Positives = 35/68 (51%), Gaps = 8/68 (11%)

Query: 24 VLNWV-WLRPKKLEKFLRQQGLKGNSYRLLFGDLKENSIELKEAKARPLSLDDNIAIRVN 82
          V NW  ++ P  LEKF ++ G+K      +  D+ +++ E+ EAK        ++ +  N
Sbjct: 12 VYNWSDYIAPDTLEKFTKETGIK------VVYDVYDSN-EVLEAKLLAGKSGYDVVVPSN 64

Query: 83 PFLHKLVR 90
           FL K ++
Sbjct: 65 SFLAKQIK 72


  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
   0.325    0.141    0.437 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,929,625
Number of Sequences: 62578
Number of extensions: 102646
Number of successful extensions: 299
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 297
Number of HSP's gapped (non-prelim): 14
length of query: 101
length of database: 14,973,337
effective HSP length: 67
effective length of query: 34
effective length of database: 10,780,611
effective search space: 366540774
effective search space used: 366540774
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)