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= 024174
         (271 letters)

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

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



>pdb|1RLD|A Chain A, Solid-State Phase Transition In The Crystal Structure Of
           Ribulose 1,5- Biphosphate Carboxylase(Slash)oxygenase
 pdb|1RLD|B Chain B, Solid-State Phase Transition In The Crystal Structure Of
           Ribulose 1,5- Biphosphate Carboxylase(Slash)oxygenase
          Length = 446

 Score = 30.8 bits (68), Expect = 0.81,   Method: Compositional matrix adjust.
 Identities = 22/101 (21%), Positives = 42/101 (41%), Gaps = 9/101 (8%)

Query: 95  AIAAGPMEMYQKAPRMSVLPHPIGGRYALNSFLDVSVRLASSKAEPFYWPRYTVPPGPSA 154
           A  A P++++++    ++    +G  +   +    ++RL   +  P Y   +  PP    
Sbjct: 78  AYVAYPLDLFEEGSVTNMFTSIVGNVFGFKALR--ALRLEDLRIPPAYVKTFQGPP---- 131

Query: 155 EDVNAIKAEAVKQMKYGKPEFAVTLLKKVYEDCKNEPEPAY 195
              + I+ E  K  KYG+P    T+  K+    KN     Y
Sbjct: 132 ---HGIQVERDKLNKYGRPLLGCTIKPKLGLSAKNYGRAVY 169


>pdb|1EJ7|L Chain L, Crystal Structure Of Unactivated Tobacco Rubisco With
           Bound Phosphate Ions
          Length = 475

 Score = 30.8 bits (68), Expect = 0.88,   Method: Compositional matrix adjust.
 Identities = 22/101 (21%), Positives = 42/101 (41%), Gaps = 9/101 (8%)

Query: 95  AIAAGPMEMYQKAPRMSVLPHPIGGRYALNSFLDVSVRLASSKAEPFYWPRYTVPPGPSA 154
           A  A P++++++    ++    +G  +   +    ++RL   +  P Y   +  PP    
Sbjct: 97  AYVAYPLDLFEEGSVTNMFTSIVGNVFGFKALR--ALRLEDLRIPPAYVKTFQGPP---- 150

Query: 155 EDVNAIKAEAVKQMKYGKPEFAVTLLKKVYEDCKNEPEPAY 195
              + I+ E  K  KYG+P    T+  K+    KN     Y
Sbjct: 151 ---HGIQVERDKLNKYGRPLLGCTIKPKLGLSAKNYGRAVY 188


>pdb|4RUB|A Chain A, A Crystal Form Of Ribulose-1,5-Bisphosphate
           Carboxylase(Slash) Oxygenase From Nicotiana Tabacum In
           The Activated State
 pdb|4RUB|B Chain B, A Crystal Form Of Ribulose-1,5-Bisphosphate
           Carboxylase(Slash) Oxygenase From Nicotiana Tabacum In
           The Activated State
 pdb|4RUB|C Chain C, A Crystal Form Of Ribulose-1,5-Bisphosphate
           Carboxylase(Slash) Oxygenase From Nicotiana Tabacum In
           The Activated State
 pdb|1RLC|L Chain L, Crystal Structure Of The Unactivated Ribulose 1,
           5-Bisphosphate Carboxylase(Slash)oxygenase Complexed
           With A Transition State Analog, 2-Carboxy-D-Arabinitol
           1,5-Bisphosphate
 pdb|4RUB|D Chain D, A Crystal Form Of Ribulose-1,5-Bisphosphate
           Carboxylase(Slash) Oxygenase From Nicotiana Tabacum In
           The Activated State
          Length = 477

 Score = 30.8 bits (68), Expect = 0.89,   Method: Compositional matrix adjust.
 Identities = 22/101 (21%), Positives = 42/101 (41%), Gaps = 9/101 (8%)

Query: 95  AIAAGPMEMYQKAPRMSVLPHPIGGRYALNSFLDVSVRLASSKAEPFYWPRYTVPPGPSA 154
           A  A P++++++    ++    +G  +   +    ++RL   +  P Y   +  PP    
Sbjct: 99  AYVAYPLDLFEEGSVTNMFTSIVGNVFGFKALR--ALRLEDLRIPPAYVKTFQGPP---- 152

Query: 155 EDVNAIKAEAVKQMKYGKPEFAVTLLKKVYEDCKNEPEPAY 195
              + I+ E  K  KYG+P    T+  K+    KN     Y
Sbjct: 153 ---HGIQVERDKLNKYGRPLLGCTIKPKLGLSAKNYGRAVY 190


>pdb|3RUB|L Chain L, Crystal Structure Of The Unactivated Form Of
           Ribulose-1,5-Bisphosphate Carboxylase(Slash)oxygenase
           From Tobacco Refined At 2.0-Angstroms Resolution
          Length = 477

 Score = 30.8 bits (68), Expect = 0.90,   Method: Compositional matrix adjust.
 Identities = 22/101 (21%), Positives = 42/101 (41%), Gaps = 9/101 (8%)

Query: 95  AIAAGPMEMYQKAPRMSVLPHPIGGRYALNSFLDVSVRLASSKAEPFYWPRYTVPPGPSA 154
           A  A P++++++    ++    +G  +   +    ++RL   +  P Y   +  PP    
Sbjct: 99  AYVAYPLDLFEEGSVTNMFTSIVGNVFGFKALR--ALRLEDLRIPPAYVKTFQGPP---- 152

Query: 155 EDVNAIKAEAVKQMKYGKPEFAVTLLKKVYEDCKNEPEPAY 195
              + I+ E  K  KYG+P    T+  K+    KN     Y
Sbjct: 153 ---HGIQVERDKLNKYGRPLLGCTIKPKLGLSAKNYGRAVY 190


>pdb|1WDD|A Chain A, Crystal Structure Of Activated Rice Rubisco Complexed With
           2- Carboxyarabinitol-1,5-Bisphosphate
 pdb|1WDD|E Chain E, Crystal Structure Of Activated Rice Rubisco Complexed With
           2- Carboxyarabinitol-1,5-Bisphosphate
 pdb|3AXK|A Chain A, Structure Of Rice Rubisco In Complex With Nadp(H)
 pdb|3AXK|B Chain B, Structure Of Rice Rubisco In Complex With Nadp(H)
 pdb|3AXM|A Chain A, Structure Of Rice Rubisco In Complex With 6pg
 pdb|3AXM|B Chain B, Structure Of Rice Rubisco In Complex With 6pg
 pdb|3AXM|C Chain C, Structure Of Rice Rubisco In Complex With 6pg
 pdb|3AXM|D Chain D, Structure Of Rice Rubisco In Complex With 6pg
 pdb|3AXM|E Chain E, Structure Of Rice Rubisco In Complex With 6pg
 pdb|3AXM|F Chain F, Structure Of Rice Rubisco In Complex With 6pg
 pdb|3AXM|G Chain G, Structure Of Rice Rubisco In Complex With 6pg
 pdb|3AXM|H Chain H, Structure Of Rice Rubisco In Complex With 6pg
          Length = 477

 Score = 30.4 bits (67), Expect = 0.97,   Method: Compositional matrix adjust.
 Identities = 22/101 (21%), Positives = 42/101 (41%), Gaps = 9/101 (8%)

Query: 95  AIAAGPMEMYQKAPRMSVLPHPIGGRYALNSFLDVSVRLASSKAEPFYWPRYTVPPGPSA 154
           A  A P++++++    ++    +G  +   +    ++RL   +  P Y   +  PP    
Sbjct: 99  AYVAYPLDLFEEGSVTNMFTSIVGNVFGFKALR--ALRLEDLRIPPTYSKTFQGPP---- 152

Query: 155 EDVNAIKAEAVKQMKYGKPEFAVTLLKKVYEDCKNEPEPAY 195
              + I+ E  K  KYG+P    T+  K+    KN     Y
Sbjct: 153 ---HGIQVERDKLNKYGRPLLGCTIKPKLGLSAKNYGRACY 190


>pdb|3ZXW|A Chain A, Structure Of Activated Rubisco From Thermosynechococcus
           Elongatus Complexed With
           2-Carboxyarabinitol-1,5-Diphosphate
 pdb|3ZXW|C Chain C, Structure Of Activated Rubisco From Thermosynechococcus
           Elongatus Complexed With
           2-Carboxyarabinitol-1,5-Diphosphate
 pdb|3ZXW|E Chain E, Structure Of Activated Rubisco From Thermosynechococcus
           Elongatus Complexed With
           2-Carboxyarabinitol-1,5-Diphosphate
 pdb|3ZXW|G Chain G, Structure Of Activated Rubisco From Thermosynechococcus
           Elongatus Complexed With
           2-Carboxyarabinitol-1,5-Diphosphate
          Length = 475

 Score = 28.9 bits (63), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 22/101 (21%), Positives = 42/101 (41%), Gaps = 9/101 (8%)

Query: 95  AIAAGPMEMYQKAPRMSVLPHPIGGRYALNSFLDVSVRLASSKAEPFYWPRYTVPPGPSA 154
           A  A P++++++    ++L   +G  +   +    ++RL   +    Y   +  PP    
Sbjct: 99  AYIAYPLDLFEEGSVTNMLTSIVGNVFGFKAL--KALRLEDLRIPVAYLKTFQGPP---- 152

Query: 155 EDVNAIKAEAVKQMKYGKPEFAVTLLKKVYEDCKNEPEPAY 195
              + I+ E  K  KYG+P    T+  K+    KN     Y
Sbjct: 153 ---HGIQVERDKLNKYGRPLLGCTIKPKLGLSAKNYGRAVY 190


>pdb|2YBV|A Chain A, Structure Of Rubisco From Thermosynechococcus Elongatus
 pdb|2YBV|C Chain C, Structure Of Rubisco From Thermosynechococcus Elongatus
 pdb|2YBV|E Chain E, Structure Of Rubisco From Thermosynechococcus Elongatus
 pdb|2YBV|G Chain G, Structure Of Rubisco From Thermosynechococcus Elongatus
 pdb|2YBV|I Chain I, Structure Of Rubisco From Thermosynechococcus Elongatus
 pdb|2YBV|K Chain K, Structure Of Rubisco From Thermosynechococcus Elongatus
 pdb|2YBV|M Chain M, Structure Of Rubisco From Thermosynechococcus Elongatus
 pdb|2YBV|O Chain O, Structure Of Rubisco From Thermosynechococcus Elongatus
          Length = 475

 Score = 28.9 bits (63), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 22/101 (21%), Positives = 42/101 (41%), Gaps = 9/101 (8%)

Query: 95  AIAAGPMEMYQKAPRMSVLPHPIGGRYALNSFLDVSVRLASSKAEPFYWPRYTVPPGPSA 154
           A  A P++++++    ++L   +G  +   +    ++RL   +    Y   +  PP    
Sbjct: 99  AYIAYPLDLFEEGSVTNMLTSIVGNVFGFKAL--KALRLEDLRIPVAYLKTFQGPP---- 152

Query: 155 EDVNAIKAEAVKQMKYGKPEFAVTLLKKVYEDCKNEPEPAY 195
              + I+ E  K  KYG+P    T+  K+    KN     Y
Sbjct: 153 ---HGIQVERDKLNKYGRPLLGCTIKPKLGLSAKNYGRAVY 190


>pdb|2LP4|A Chain A, Solution Structure Of P1-CheyP2 COMPLEX IN BACTERIAL
           CHEMOTAXIS
          Length = 225

 Score = 28.5 bits (62), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 19/54 (35%), Positives = 26/54 (48%), Gaps = 1/54 (1%)

Query: 148 VPPGPSAEDVNAIKAEAVKQMKYGKPEFAVTLLKKVYEDCKNEPEPAYNVEMAL 201
           VP  P AE +NAI   A   +K G   F  T+L++     +N  + A   EM L
Sbjct: 31  VPESPDAEQLNAI-FRAAHSIKGGAGTFGFTILQETTHLMENLLDEARRGEMQL 83


  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
   0.319    0.134    0.406 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,858,183
Number of Sequences: 62578
Number of extensions: 306392
Number of successful extensions: 489
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 487
Number of HSP's gapped (non-prelim): 10
length of query: 271
length of database: 14,973,337
effective HSP length: 97
effective length of query: 174
effective length of database: 8,903,271
effective search space: 1549169154
effective search space used: 1549169154
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)