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= psy12804
         (182 letters)

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

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



>pdb|2VDC|A Chain A, The 9.5 A Resolution Structure Of Glutamate Synthase From
           Cryo-Electron Microscopy And Its Oligomerization
           Behavior In Solution: Functional Implications.
 pdb|2VDC|B Chain B, The 9.5 A Resolution Structure Of Glutamate Synthase From
           Cryo-Electron Microscopy And Its Oligomerization
           Behavior In Solution: Functional Implications.
 pdb|2VDC|C Chain C, The 9.5 A Resolution Structure Of Glutamate Synthase From
           Cryo-Electron Microscopy And Its Oligomerization
           Behavior In Solution: Functional Implications.
 pdb|2VDC|D Chain D, The 9.5 A Resolution Structure Of Glutamate Synthase From
           Cryo-Electron Microscopy And Its Oligomerization
           Behavior In Solution: Functional Implications.
 pdb|2VDC|E Chain E, The 9.5 A Resolution Structure Of Glutamate Synthase From
           Cryo-Electron Microscopy And Its Oligomerization
           Behavior In Solution: Functional Implications.
 pdb|2VDC|F Chain F, The 9.5 A Resolution Structure Of Glutamate Synthase From
           Cryo-Electron Microscopy And Its Oligomerization
           Behavior In Solution: Functional Implications
          Length = 1472

 Score = 53.5 bits (127), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 30/80 (37%), Positives = 47/80 (58%), Gaps = 5/80 (6%)

Query: 62  IGEVARNSEPFMRQVFLTGKQ--DEEEFKRQIYVLRKVSTHKIPKPGQ--RFYICSLSNR 117
           IGE A  + P + Q+ +   +   +E+F+  +Y++R+    K  K  Q   FYICSLS R
Sbjct: 117 IGEKANATRPEIEQIIVGNNKGVSDEQFELDLYIIRR-RIEKAVKGEQINDFYICSLSAR 175

Query: 118 IVVYKGQFTADQLWKYFTDL 137
            ++YKG F A+QL  ++ DL
Sbjct: 176 SIIYKGMFLAEQLTTFYPDL 195



 Score = 37.4 bits (85), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 14/26 (53%), Positives = 18/26 (69%)

Query: 152 HRGACACDNDSGDGAGVLVAIPHAFY 177
           HRGA   D  +GDGAG+ VA+P  F+
Sbjct: 30  HRGAVDADGKTGDGAGIHVAVPQKFF 55


>pdb|1EA0|A Chain A, Alpha Subunit Of A. Brasilense Glutamate Synthase
 pdb|1EA0|B Chain B, Alpha Subunit Of A. Brasilense Glutamate Synthase
          Length = 1479

 Score = 53.5 bits (127), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 30/80 (37%), Positives = 47/80 (58%), Gaps = 5/80 (6%)

Query: 62  IGEVARNSEPFMRQVFLTGKQ--DEEEFKRQIYVLRKVSTHKIPKPGQ--RFYICSLSNR 117
           IGE A  + P + Q+ +   +   +E+F+  +Y++R+    K  K  Q   FYICSLS R
Sbjct: 117 IGEKANATRPEIEQIIVGNNKGVSDEQFELDLYIIRR-RIEKAVKGEQINDFYICSLSAR 175

Query: 118 IVVYKGQFTADQLWKYFTDL 137
            ++YKG F A+QL  ++ DL
Sbjct: 176 SIIYKGMFLAEQLTTFYPDL 195



 Score = 37.4 bits (85), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 14/26 (53%), Positives = 18/26 (69%)

Query: 152 HRGACACDNDSGDGAGVLVAIPHAFY 177
           HRGA   D  +GDGAG+ VA+P  F+
Sbjct: 30  HRGAVDADGKTGDGAGIHVAVPQKFF 55


>pdb|1LLW|A Chain A, Structural Studies On The Synchronization Of Catalytic
           Centers In Glutamate Synthase: Complex With
           2-Oxoglutarate
 pdb|1LLZ|A Chain A, Structural Studies On The Synchronization Of Catalytic
           Centers In Glutamate Synthase: Reduced Enzyme
 pdb|1LM1|A Chain A, Structural Studies On The Synchronization Of Catalytic
           Centers In Glutamate Synthase: Native Enzyme
 pdb|1OFD|A Chain A, Glutamate Synthase From Synechocystis Sp In Complex With
           2-Oxoglutarate At 2.0 Angstrom Resolution
 pdb|1OFD|B Chain B, Glutamate Synthase From Synechocystis Sp In Complex With
           2-Oxoglutarate At 2.0 Angstrom Resolution
 pdb|1OFE|A Chain A, Glutamate Synthase From Synechocystis Sp In Complex With
           2-Oxoglutarate And L-Don At 2.45 Angstrom Resolution
 pdb|1OFE|B Chain B, Glutamate Synthase From Synechocystis Sp In Complex With
           2-Oxoglutarate And L-Don At 2.45 Angstrom Resolution
          Length = 1520

 Score = 50.4 bits (119), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 23/44 (52%), Positives = 27/44 (61%)

Query: 136 DLNIIEDAEKLSMRMNHRGACACDNDSGDGAGVLVAIPHAFYIQ 179
           D  ++E A K    M HRG C+ DNDSGDGAGV+ AIP     Q
Sbjct: 14  DHTLVEQALKALGCMEHRGGCSADNDSGDGAGVMTAIPRELLAQ 57



 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/78 (30%), Positives = 45/78 (57%), Gaps = 5/78 (6%)

Query: 62  IGEVARNSEPFMRQVFLTGKQD--EEEFKRQIYVLRKVSTHKIPKPGQRFYICSLSNRIV 119
           +G  A+N++P + Q+ +T  +    +E  R++Y+ R +   K+    + FY+CS S R +
Sbjct: 117 LGIQAKNNQPHIEQILVTCPEGCAGDELDRRLYIARSIIGKKL---AEDFYVCSFSCRTI 173

Query: 120 VYKGQFTADQLWKYFTDL 137
           VYKG   +  L +++ DL
Sbjct: 174 VYKGMVRSIILGEFYLDL 191


>pdb|4HBD|A Chain A, Crystal Structure Of Kank2 Ankyrin Repeats
          Length = 276

 Score = 31.2 bits (69), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 27/105 (25%), Positives = 50/105 (47%), Gaps = 15/105 (14%)

Query: 71  PFMRQVFLTGK-QDEEEFKRQIYVLRKVSTHKIPKPGQRFYICSLSN-RIVVYKGQFTAD 128
           P M     T K QD+ E   Q++ L  ++  K  + GQ   + ++S+ R+ V K     +
Sbjct: 148 PIMLTALATLKTQDDIETVLQLFRLGNINA-KASQAGQTALMLAVSHGRVDVVKALLACE 206

Query: 129 QLWKYFTDLNIIEDAEKLSMRMNHRGACACDNDSGDGAGVLVAIP 173
                  D+N+ +D    ++       CAC++   + AG+L+A+P
Sbjct: 207 ------ADVNVQDDDGSTALM------CACEHGHKEIAGLLLAVP 239


>pdb|2UXW|A Chain A, Crystal Structure Of Human Very Long Chain Acyl-coa
           Dehydrogenase (acadvl)
          Length = 607

 Score = 29.6 bits (65), Expect = 0.99,   Method: Compositional matrix adjust.
 Identities = 12/32 (37%), Positives = 20/32 (62%)

Query: 107 QRFYICSLSNRIVVYKGQFTADQLWKYFTDLN 138
           +  Y  S+S  + ++KGQ T DQ++ Y + LN
Sbjct: 16  ENLYFQSMSFAVGMFKGQLTTDQVFPYPSVLN 47


>pdb|3KIP|A Chain A, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|B Chain B, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|C Chain C, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|D Chain D, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|E Chain E, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|F Chain F, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|G Chain G, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|H Chain H, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|I Chain I, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|J Chain J, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|K Chain K, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|L Chain L, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|M Chain M, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|N Chain N, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|O Chain O, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|P Chain P, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|Q Chain Q, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|R Chain R, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|S Chain S, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|T Chain T, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|U Chain U, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|V Chain V, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|W Chain W, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
 pdb|3KIP|X Chain X, Crystal Structure Of Type-Ii 3-Dehydroquinase From C.
           Albicans
          Length = 167

 Score = 29.3 bits (64), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 2/65 (3%)

Query: 33  LYDPANEREACGVGFIVAIDRKRSHKSAGIGEVARNSE-PFMRQVFLTGKQDEEEFKRQI 91
           + D  +E +  GVGF+V      +H S GI +    +  PF+ +V +T     E F+ Q 
Sbjct: 72  IIDRIHEAKRQGVGFVVINAGAYTHTSVGIRDALLGTAIPFI-EVHITNVHQREPFRHQS 130

Query: 92  YVLRK 96
           Y+  K
Sbjct: 131 YLSDK 135


>pdb|4FXG|C Chain C, Complement C4 In Complex With Masp-2
 pdb|4FXG|F Chain F, Complement C4 In Complex With Masp-2
 pdb|4FXK|C Chain C, Human Complement C4
          Length = 291

 Score = 29.3 bits (64), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 35/74 (47%), Gaps = 4/74 (5%)

Query: 18  VEEVRDEYLGPAASGLYDPANEREACGVGFIVAIDRKRSHKSAGIGEVARNSE---PFMR 74
           V+EV    + PA++ LYD  N    C V F  A  + R   +    EV + +E   P  R
Sbjct: 88  VQEVPVGLVQPASATLYDYYNPERRCSV-FYGAPSKSRLLATLCSAEVCQCAEGKCPRQR 146

Query: 75  QVFLTGKQDEEEFK 88
           +    G QDE+ ++
Sbjct: 147 RALERGLQDEDGYR 160


>pdb|3VPX|A Chain A, Crystal Structure Of Leucine Dehydrogenase From A
           Psychrophilic Bacterium Sporosarcina Psychrophila.
 pdb|3VPX|B Chain B, Crystal Structure Of Leucine Dehydrogenase From A
           Psychrophilic Bacterium Sporosarcina Psychrophila
          Length = 364

 Score = 28.9 bits (63), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 1/45 (2%)

Query: 129 QLWKYFTDLNIIEDAEKLSMRMNHRGACACDNDSGDGAGVLVAIP 173
           ++W Y ++   IEDA +L+  M ++ A A  N  G G  V++  P
Sbjct: 44  RMWTYASEEEAIEDALRLARGMTYKNAAAGLN-LGGGKTVIIGNP 87


>pdb|1LEH|A Chain A, Leucine Dehydrogenase From Bacillus Sphaericus
 pdb|1LEH|B Chain B, Leucine Dehydrogenase From Bacillus Sphaericus
          Length = 364

 Score = 28.9 bits (63), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 1/47 (2%)

Query: 129 QLWKYFTDLNIIEDAEKLSMRMNHRGACACDNDSGDGAGVLVAIPHA 175
           ++W Y  +   IEDA +L+  M ++ A A  N  G G  V++  P A
Sbjct: 44  RMWTYNAEEEAIEDALRLARGMTYKNAAAGLN-LGGGKTVIIGDPFA 89


>pdb|3UM5|A Chain A, Double Mutant (A16v+s108t) Plasmodium Falciparum
           Dihydrofolate Reductase-Thymidylate Synthase
           (Pfdhfr-Ts-T994) COMPLEXED WITH Pyrimethamine, Nadph,
           And Dump
 pdb|3UM5|B Chain B, Double Mutant (A16v+s108t) Plasmodium Falciparum
           Dihydrofolate Reductase-Thymidylate Synthase
           (Pfdhfr-Ts-T994) COMPLEXED WITH Pyrimethamine, Nadph,
           And Dump
 pdb|3UM6|A Chain A, Double Mutant (A16v+s108t) Plasmodium Falciparum Dhfr-Ts
           (T994) Complexed With Cycloguanil, Nadph And Dump
 pdb|3UM6|B Chain B, Double Mutant (A16v+s108t) Plasmodium Falciparum Dhfr-Ts
           (T994) Complexed With Cycloguanil, Nadph And Dump
          Length = 608

 Score = 27.7 bits (60), Expect = 3.6,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 3/65 (4%)

Query: 76  VFLTGKQDEEEFKRQIYVLRKVSTHKIPKPGQRFYICSLSNRIVVYKGQFTADQLWK--Y 133
           V L+    +E+F   +Y++ KV    +      +Y C +    VVY+ +F   +L K  Y
Sbjct: 125 VILSRTLKKEDFDEDVYIINKVEDLIVLLGKLNYYKCFIIGGSVVYQ-EFLEKKLIKKIY 183

Query: 134 FTDLN 138
           FT +N
Sbjct: 184 FTRIN 188


>pdb|3QGT|A Chain A, Crystal Structure Of Wild-Type Pfdhfr-Ts Complexed With
           Nadph, Dump And Pyrimethamine
 pdb|3QGT|B Chain B, Crystal Structure Of Wild-Type Pfdhfr-Ts Complexed With
           Nadph, Dump And Pyrimethamine
 pdb|3UM8|A Chain A, Wild-Type Plasmodium Falciparum Dhfr-Ts Complexed With
           Cycloguanil And Nadph
 pdb|3UM8|B Chain B, Wild-Type Plasmodium Falciparum Dhfr-Ts Complexed With
           Cycloguanil And Nadph
 pdb|4DPD|A Chain A, Wild Type Plasmodium Falciparum Dihydrofolate
           Reductase-Thymidylate Synthase (Pfdhfr-Ts), Dhf Complex,
           Nadp+, Dump
 pdb|4DPD|B Chain B, Wild Type Plasmodium Falciparum Dihydrofolate
           Reductase-Thymidylate Synthase (Pfdhfr-Ts), Dhf Complex,
           Nadp+, Dump
          Length = 608

 Score = 27.7 bits (60), Expect = 3.6,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 3/65 (4%)

Query: 76  VFLTGKQDEEEFKRQIYVLRKVSTHKIPKPGQRFYICSLSNRIVVYKGQFTADQLWK--Y 133
           V L+    +E+F   +Y++ KV    +      +Y C +    VVY+ +F   +L K  Y
Sbjct: 125 VILSRTLKKEDFDEDVYIINKVEDLIVLLGKLNYYKCFIIGGSVVYQ-EFLEKKLIKKIY 183

Query: 134 FTDLN 138
           FT +N
Sbjct: 184 FTRIN 188


>pdb|3JSU|A Chain A, Quadruple Mutant(N51i+c59r+s108n+i164l) Plasmodium
           Falciparum Dihydrofolate Reductase-Thymidylate
           Synthase(Pfdhfr-Ts) Complexed With Qn254, Nadph, And
           Dump
 pdb|3JSU|B Chain B, Quadruple Mutant(N51i+c59r+s108n+i164l) Plasmodium
           Falciparum Dihydrofolate Reductase-Thymidylate
           Synthase(Pfdhfr-Ts) Complexed With Qn254, Nadph, And
           Dump
 pdb|3QG2|A Chain A, Plasmodium Falciparum Dhfr-Ts Qradruple Mutant
           (N51i+c59r+s108n+i164l, V1S) PYRIMETHAMINE COMPLEX
 pdb|3QG2|B Chain B, Plasmodium Falciparum Dhfr-Ts Qradruple Mutant
           (N51i+c59r+s108n+i164l, V1S) PYRIMETHAMINE COMPLEX
 pdb|4DP3|A Chain A, Quadruple Mutant (N51i+c59r+s108n+i164l) Plasmodium
           Falciparum Dihydrofolate Reductase-Thymidylate Synthase
           (Pfdhfr-Ts) Complexed With P218 And Nadph
 pdb|4DP3|B Chain B, Quadruple Mutant (N51i+c59r+s108n+i164l) Plasmodium
           Falciparum Dihydrofolate Reductase-Thymidylate Synthase
           (Pfdhfr-Ts) Complexed With P218 And Nadph
 pdb|4DPH|A Chain A, Quadruple Mutant (N51i+c59r+s108n+i164l) Plasmodium
           Falciparum Dihydrofolate Reductase-Thymidylate Synthase
           (Pfdhfr-Ts) Complexed With P65 And Nadph
 pdb|4DPH|B Chain B, Quadruple Mutant (N51i+c59r+s108n+i164l) Plasmodium
           Falciparum Dihydrofolate Reductase-Thymidylate Synthase
           (Pfdhfr-Ts) Complexed With P65 And Nadph
          Length = 608

 Score = 27.7 bits (60), Expect = 3.7,   Method: Composition-based stats.
 Identities = 19/65 (29%), Positives = 32/65 (49%), Gaps = 3/65 (4%)

Query: 76  VFLTGKQDEEEFKRQIYVLRKVSTHKIPKPGQRFYICSLSNRIVVYKGQFTADQLWK--Y 133
           V L+    +E+F   +Y++ KV    +      +Y C +    VVY+ +F   +L K  Y
Sbjct: 125 VILSRTLKKEDFDEDVYIINKVEDLIVLLGKLNYYKCFILGGSVVYQ-EFLEKKLIKKIY 183

Query: 134 FTDLN 138
           FT +N
Sbjct: 184 FTRIN 188


>pdb|2XSZ|A Chain A, The Dodecameric Human Ruvbl1:ruvbl2 Complex With
          Truncated Domains Ii
 pdb|2XSZ|B Chain B, The Dodecameric Human Ruvbl1:ruvbl2 Complex With
          Truncated Domains Ii
 pdb|2XSZ|C Chain C, The Dodecameric Human Ruvbl1:ruvbl2 Complex With
          Truncated Domains Ii
          Length = 367

 Score = 27.7 bits (60), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 16/33 (48%), Positives = 19/33 (57%), Gaps = 4/33 (12%)

Query: 29 AASGLYDPANEREACGVGFIVAIDRKRSHKSAG 61
          AASGL    N REACG    V ++  +S K AG
Sbjct: 49 AASGLVGQENAREACG----VIVELIKSKKXAG 77


>pdb|2C9O|A Chain A, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
 pdb|2C9O|B Chain B, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
 pdb|2C9O|C Chain C, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
          Length = 456

 Score = 27.7 bits (60), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 16/33 (48%), Positives = 19/33 (57%), Gaps = 4/33 (12%)

Query: 29 AASGLYDPANEREACGVGFIVAIDRKRSHKSAG 61
          AASGL    N REACG    V ++  +S K AG
Sbjct: 35 AASGLVGQENAREACG----VIVELIKSKKMAG 63


  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    0.135    0.393 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,173,106
Number of Sequences: 62578
Number of extensions: 193553
Number of successful extensions: 422
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 410
Number of HSP's gapped (non-prelim): 26
length of query: 182
length of database: 14,973,337
effective HSP length: 93
effective length of query: 89
effective length of database: 9,153,583
effective search space: 814668887
effective search space used: 814668887
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)