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= psy12797
(66 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 = 48.1 bits (113), Expect = 1e-06, Method: Composition-based stats.
Identities = 24/56 (42%), Positives = 36/56 (64%), Gaps = 3/56 (5%)
Query: 12 EEEFKRQIYVLRKVSTHKIPKPGQ--RFYICSLSNRIVVYKGQFTADQLWKYFTDL 65
+E+F+ +Y++R+ K K Q FYICSLS R ++YKG F A+QL ++ DL
Sbjct: 141 DEQFELDLYIIRR-RIEKAVKGEQINDFYICSLSARSIIYKGMFLAEQLTTFYPDL 195
>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 = 48.1 bits (113), Expect = 1e-06, Method: Composition-based stats.
Identities = 24/56 (42%), Positives = 36/56 (64%), Gaps = 3/56 (5%)
Query: 12 EEEFKRQIYVLRKVSTHKIPKPGQ--RFYICSLSNRIVVYKGQFTADQLWKYFTDL 65
+E+F+ +Y++R+ K K Q FYICSLS R ++YKG F A+QL ++ DL
Sbjct: 141 DEQFELDLYIIRR-RIEKAVKGEQINDFYICSLSARSIIYKGMFLAEQLTTFYPDL 195
>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 = 40.4 bits (93), Expect = 3e-04, Method: Composition-based stats.
Identities = 18/53 (33%), Positives = 31/53 (58%), Gaps = 3/53 (5%)
Query: 13 EEFKRQIYVLRKVSTHKIPKPGQRFYICSLSNRIVVYKGQFTADQLWKYFTDL 65
+E R++Y+ R + K+ + FY+CS S R +VYKG + L +++ DL
Sbjct: 142 DELDRRLYIARSIIGKKL---AEDFYVCSFSCRTIVYKGMVRSIILGEFYLDL 191
>pdb|2UXW|A Chain A, Crystal Structure Of Human Very Long Chain Acyl-coa
Dehydrogenase (acadvl)
Length = 607
Score = 28.5 bits (62), Expect = 1.1, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 20/32 (62%)
Query: 35 QRFYICSLSNRIVVYKGQFTADQLWKYFTDLN 66
+ Y S+S + ++KGQ T DQ++ Y + LN
Sbjct: 16 ENLYFQSMSFAVGMFKGQLTTDQVFPYPSVLN 47
>pdb|3O0P|A Chain A, Pilus-Related Sortase C Of Group B Streptococcus
Length = 216
Score = 25.8 bits (55), Expect = 5.6, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 14 EFKRQIYVLRKVSTHKIPKPGQRFYICSLSNRIVVYKG 51
E+ R + V K+ +PK GQ+ I + S++ V+ KG
Sbjct: 59 EYARMLEVSEKIGIISVPKIGQKLPIFAGSSQEVLSKG 96
>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 = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 3/66 (4%)
Query: 3 QVFLTGKQDEEEFKRQIYVLRKVSTHKIPKPGQRFYICSLSNRIVVYKGQFTADQLWK-- 60
V L+ +E+F +Y++ KV + +Y C + VVY+ +F +L K
Sbjct: 124 NVILSRTLKKEDFDEDVYIINKVEDLIVLLGKLNYYKCFILGGSVVYQ-EFLEKKLIKKI 182
Query: 61 YFTDLN 66
YFT +N
Sbjct: 183 YFTRIN 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 = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 3/66 (4%)
Query: 3 QVFLTGKQDEEEFKRQIYVLRKVSTHKIPKPGQRFYICSLSNRIVVYKGQFTADQLWK-- 60
V L+ +E+F +Y++ KV + +Y C + VVY+ +F +L K
Sbjct: 124 NVILSRTLKKEDFDEDVYIINKVEDLIVLLGKLNYYKCFIIGGSVVYQ-EFLEKKLIKKI 182
Query: 61 YFTDLN 66
YFT +N
Sbjct: 183 YFTRIN 188
>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 = 25.4 bits (54), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 3/66 (4%)
Query: 3 QVFLTGKQDEEEFKRQIYVLRKVSTHKIPKPGQRFYICSLSNRIVVYKGQFTADQLWK-- 60
V L+ +E+F +Y++ KV + +Y C + VVY+ +F +L K
Sbjct: 124 NVILSRTLKKEDFDEDVYIINKVEDLIVLLGKLNYYKCFIIGGSVVYQ-EFLEKKLIKKI 182
Query: 61 YFTDLN 66
YFT +N
Sbjct: 183 YFTRIN 188
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 0.140 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,933,330
Number of Sequences: 62578
Number of extensions: 57491
Number of successful extensions: 208
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 203
Number of HSP's gapped (non-prelim): 11
length of query: 66
length of database: 14,973,337
effective HSP length: 37
effective length of query: 29
effective length of database: 12,657,951
effective search space: 367080579
effective search space used: 367080579
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)