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= 007310
         (608 letters)

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

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



>pdb|3GON|A Chain A, Streptococcus Pneumoniae Phosphomevalonate Kinase In
           Complex With Phosphomevalonate And Amppnp
          Length = 335

 Score = 30.8 bits (68), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 19/68 (27%), Positives = 36/68 (52%), Gaps = 1/68 (1%)

Query: 272 ESFDQGKAENVDEEPATEAKQI-GTSQNLGTPVNGVEQHATEEMEQSASSRSKDGSSTVP 330
           E+ +QGK+E + E+    +K + G S ++ TP+    + A+++++  A S    G     
Sbjct: 241 EALEQGKSEKIIEQVEVASKLLEGLSTDIYTPLLRQLKEASQDLQAVAKSSGAGGGDCGI 300

Query: 331 ETSSDAES 338
             S DA+S
Sbjct: 301 ALSFDAQS 308


>pdb|1WE5|A Chain A, Crystal Structure Of Alpha-Xylosidase From Escherichia
           Coli
 pdb|1WE5|B Chain B, Crystal Structure Of Alpha-Xylosidase From Escherichia
           Coli
 pdb|1WE5|C Chain C, Crystal Structure Of Alpha-Xylosidase From Escherichia
           Coli
 pdb|1WE5|D Chain D, Crystal Structure Of Alpha-Xylosidase From Escherichia
           Coli
 pdb|1WE5|E Chain E, Crystal Structure Of Alpha-Xylosidase From Escherichia
           Coli
 pdb|1WE5|F Chain F, Crystal Structure Of Alpha-Xylosidase From Escherichia
           Coli
          Length = 772

 Score = 30.8 bits (68), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 4/49 (8%)

Query: 552 NKYVYKVCPYKKATQEEGHSTTR----LGSWDKFEDSYHIMLFSNGDKC 596
           N Y+ +  P  K  QE+G+   R    L  WDK++    I  F+N D C
Sbjct: 347 NPYIGQKSPVFKELQEKGYLLKRPDGSLWQWDKWQPGLAIYDFTNPDAC 395


>pdb|1K47|A Chain A, Crystal Structure Of The Streptococcus Pneumoniae
           Phosphomevalonate Kinase (Pmk)
 pdb|1K47|B Chain B, Crystal Structure Of The Streptococcus Pneumoniae
           Phosphomevalonate Kinase (Pmk)
 pdb|1K47|C Chain C, Crystal Structure Of The Streptococcus Pneumoniae
           Phosphomevalonate Kinase (Pmk)
 pdb|1K47|D Chain D, Crystal Structure Of The Streptococcus Pneumoniae
           Phosphomevalonate Kinase (Pmk)
 pdb|1K47|E Chain E, Crystal Structure Of The Streptococcus Pneumoniae
           Phosphomevalonate Kinase (Pmk)
 pdb|1K47|F Chain F, Crystal Structure Of The Streptococcus Pneumoniae
           Phosphomevalonate Kinase (Pmk)
          Length = 337

 Score = 30.4 bits (67), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 19/68 (27%), Positives = 36/68 (52%), Gaps = 1/68 (1%)

Query: 272 ESFDQGKAENVDEEPATEAKQI-GTSQNLGTPVNGVEQHATEEMEQSASSRSKDGSSTVP 330
           E+ +QGK+E + E+    +K + G S ++ TP+    + A+++++  A S    G     
Sbjct: 243 EALEQGKSEKIIEQVEVASKLLEGLSTDIYTPLLRQLKEASQDLQAVAKSSGAGGGDCGI 302

Query: 331 ETSSDAES 338
             S DA+S
Sbjct: 303 ALSFDAQS 310


>pdb|2F2H|A Chain A, Structure Of The Yici Thiosugar Michaelis Complex
 pdb|2F2H|B Chain B, Structure Of The Yici Thiosugar Michaelis Complex
 pdb|2F2H|C Chain C, Structure Of The Yici Thiosugar Michaelis Complex
 pdb|2F2H|D Chain D, Structure Of The Yici Thiosugar Michaelis Complex
 pdb|2F2H|E Chain E, Structure Of The Yici Thiosugar Michaelis Complex
 pdb|2F2H|F Chain F, Structure Of The Yici Thiosugar Michaelis Complex
          Length = 773

 Score = 30.4 bits (67), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 4/49 (8%)

Query: 552 NKYVYKVCPYKKATQEEGHSTTR----LGSWDKFEDSYHIMLFSNGDKC 596
           N Y+ +  P  K  QE+G+   R    L  WDK++    I  F+N D C
Sbjct: 347 NPYIGQKSPVFKELQEKGYLLKRPDGSLWQWDKWQPGLAIYDFTNPDAC 395


>pdb|1XSI|A Chain A, Structure Of A Family 31 Alpha Glycosidase
 pdb|1XSI|B Chain B, Structure Of A Family 31 Alpha Glycosidase
 pdb|1XSI|C Chain C, Structure Of A Family 31 Alpha Glycosidase
 pdb|1XSI|D Chain D, Structure Of A Family 31 Alpha Glycosidase
 pdb|1XSI|E Chain E, Structure Of A Family 31 Alpha Glycosidase
 pdb|1XSI|F Chain F, Structure Of A Family 31 Alpha Glycosidase
 pdb|1XSJ|A Chain A, Structure Of A Family 31 Alpha Glycosidase
 pdb|1XSJ|B Chain B, Structure Of A Family 31 Alpha Glycosidase
 pdb|1XSJ|C Chain C, Structure Of A Family 31 Alpha Glycosidase
 pdb|1XSJ|D Chain D, Structure Of A Family 31 Alpha Glycosidase
 pdb|1XSJ|E Chain E, Structure Of A Family 31 Alpha Glycosidase
 pdb|1XSJ|F Chain F, Structure Of A Family 31 Alpha Glycosidase
 pdb|1XSK|A Chain A, Structure Of A Family 31 Alpha Glycosidase Glycosyl-Enzyme
           Intermediate
 pdb|1XSK|B Chain B, Structure Of A Family 31 Alpha Glycosidase Glycosyl-Enzyme
           Intermediate
 pdb|1XSK|C Chain C, Structure Of A Family 31 Alpha Glycosidase Glycosyl-Enzyme
           Intermediate
 pdb|1XSK|D Chain D, Structure Of A Family 31 Alpha Glycosidase Glycosyl-Enzyme
           Intermediate
 pdb|1XSK|E Chain E, Structure Of A Family 31 Alpha Glycosidase Glycosyl-Enzyme
           Intermediate
 pdb|1XSK|F Chain F, Structure Of A Family 31 Alpha Glycosidase Glycosyl-Enzyme
           Intermediate
          Length = 778

 Score = 30.4 bits (67), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 4/49 (8%)

Query: 552 NKYVYKVCPYKKATQEEGHSTTR----LGSWDKFEDSYHIMLFSNGDKC 596
           N Y+ +  P  K  QE+G+   R    L  WDK++    I  F+N D C
Sbjct: 347 NPYIGQKSPVFKELQEKGYLLKRPDGSLWQWDKWQPGLAIYDFTNPDAC 395


>pdb|1ZIN|A Chain A, Adenylate Kinase With Bound Ap5a
 pdb|1ZIO|A Chain A, Phosphotransferase
 pdb|1ZIP|A Chain A, Bacillus Stearothermophilus Adenylate Kinase
          Length = 217

 Score = 29.3 bits (64), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 11/30 (36%), Positives = 16/30 (53%)

Query: 94  GKFYCQNAGHSPLMIFSSKVNDGICDCCDG 123
           G+  C+N G +  +IF      G+CD C G
Sbjct: 126 GRRICRNCGATYHLIFHPPAKPGVCDKCGG 155


>pdb|4DDQ|A Chain A, Structural Plasticity Of The Bacillus Subtilis Gyra
           Homodimer
 pdb|4DDQ|B Chain B, Structural Plasticity Of The Bacillus Subtilis Gyra
           Homodimer
 pdb|4DDQ|C Chain C, Structural Plasticity Of The Bacillus Subtilis Gyra
           Homodimer
 pdb|4DDQ|D Chain D, Structural Plasticity Of The Bacillus Subtilis Gyra
           Homodimer
 pdb|4DDQ|E Chain E, Structural Plasticity Of The Bacillus Subtilis Gyra
           Homodimer
 pdb|4DDQ|F Chain F, Structural Plasticity Of The Bacillus Subtilis Gyra
           Homodimer
          Length = 502

 Score = 29.3 bits (64), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 19/44 (43%), Positives = 31/44 (70%), Gaps = 1/44 (2%)

Query: 161 LRKKEIEQAKQNLVKDEAELSN-LKNEEKILKGLVQQLKERKEQ 203
           L +++IE+  Q+LVK  AEL + L NE K+L+ + ++L E KE+
Sbjct: 435 LEREKIEEEYQSLVKLIAELKDILANEYKVLEIIREELTEIKER 478


>pdb|4DCI|A Chain A, Crystal Structure Of Unknown Funciton Protein From
           Synechococcus Sp. Wh 8102
 pdb|4DCI|B Chain B, Crystal Structure Of Unknown Funciton Protein From
           Synechococcus Sp. Wh 8102
 pdb|4DCI|C Chain C, Crystal Structure Of Unknown Funciton Protein From
           Synechococcus Sp. Wh 8102
 pdb|4DCI|D Chain D, Crystal Structure Of Unknown Funciton Protein From
           Synechococcus Sp. Wh 8102
 pdb|4DCI|E Chain E, Crystal Structure Of Unknown Funciton Protein From
           Synechococcus Sp. Wh 8102
 pdb|4DCI|F Chain F, Crystal Structure Of Unknown Funciton Protein From
           Synechococcus Sp. Wh 8102
 pdb|4DCI|G Chain G, Crystal Structure Of Unknown Funciton Protein From
           Synechococcus Sp. Wh 8102
 pdb|4DCI|H Chain H, Crystal Structure Of Unknown Funciton Protein From
           Synechococcus Sp. Wh 8102
          Length = 150

 Score = 29.3 bits (64), Expect = 7.3,   Method: Composition-based stats.
 Identities = 13/55 (23%), Positives = 37/55 (67%)

Query: 147 KLKKKIATYQEGVLLRKKEIEQAKQNLVKDEAELSNLKNEEKILKGLVQQLKERK 201
           ++++++A  Q+ V  ++ E+E+ K+NL++ +A++  L+ ++ + +G ++   E K
Sbjct: 70  RVQEQVANIQQQVAGKRSELEEQKRNLLQQQAQVRELEXDQIVEQGQLESSCEIK 124


  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
   0.308    0.127    0.363 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,472,038
Number of Sequences: 62578
Number of extensions: 668566
Number of successful extensions: 1237
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 1225
Number of HSP's gapped (non-prelim): 35
length of query: 608
length of database: 14,973,337
effective HSP length: 104
effective length of query: 504
effective length of database: 8,465,225
effective search space: 4266473400
effective search space used: 4266473400
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 54 (25.4 bits)