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NMR-based solution structure of the complex of Lactobacillus casei dihydrofolate reductase with trimethoprim and NADPH
Authors
Polshakov, V.I., Smirnov, E.G., Birdsall, B., Kelly, G., Feeney, J.
Assembly
ternary complex DHFR-trimethoprim-NADPH
Entity
1. Dihydrofolate reductase (polymer, Thiol state: not present), 162 monomers, 18307.38 Da Detail

TAFLWAQDRD GLIGKDGHLP WHLPDDLHYF RAQTVGKIMV VGRRTYESFP KRPLPERTNV VLTHQEDYQA QGAVVVHDVA AVFAYAKQHP DQELVIAGGA QIFTAFKDDV DTLLVTRLAG SFEGDTKMIP LNWDDFTKVS SRTVEDTNPA LTHTYEVWQK KA


2. NAP (non-polymer), 743.405 Da
3. TOP (non-polymer), 290.318 Da
Total weight
19341.104 Da
Max. entity weight
18307.38 Da
Source organism
Lacticaseibacillus casei
Exptl. method
NMR
Refine. method
simulated annealing
Data set
assigned_chemical_shifts
Chem. Shift Complete1
Sequence coverage: 100.0 %, Completeness: 92.4 %, Completeness (bb): 99.8 % Detail

Polymer type: polypeptide(L)

Total1H15N
All92.4 % (1054 of 1141)91.5 % (888 of 971)97.6 % (166 of 170)
Backbone99.8 % (479 of 480)99.7 % (325 of 326)100.0 % (154 of 154)
Sidechain87.0 % (575 of 661)87.3 % (563 of 645)75.0 % (12 of 16)
Aromatic69.6 % (71 of 102)72.4 % (71 of 98) 0.0 % (0 of 4)
Methyl100.0 % (97 of 97)100.0 % (97 of 97)

1. Dihydrofolate reductase

TAFLWAQDRD GLIGKDGHLP WHLPDDLHYF RAQTVGKIMV VGRRTYESFP KRPLPERTNV VLTHQEDYQA QGAVVVHDVA AVFAYAKQHP DQELVIAGGA QIFTAFKDDV DTLLVTRLAG SFEGDTKMIP LNWDDFTKVS SRTVEDTNPA LTHTYEVWQK KA

Sample #1

Temperature 308 (±1) K, pH 6.5 (±0.1)


#NameIsotope labelingTypeConcentration
1Dihydrofolate reductase[U-95% 15N]1.5 ~ 4.0 mM
2TRIMETHOPRIM[U-95% 15N]1.5 ~ 4.0 mM
3NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE[U-95% 15N]1.5 ~ 4.0 mM
4potassium phosphate25 mM
5KCl50 mM
Sample #2

Temperature 308 (±1) K, pH 6.5 (±0.1)


#NameIsotope labelingTypeConcentration
6Dihydrofolate reductase2.0 ~ 4.0 mM
7TRIMETHOPRIM2.0 ~ 4.0 mM
8NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE2.0 ~ 4.0 mM
9potassium phosphate25 mM
10KCl50 mM
Sample #3

Temperature 308 (±1) K, pH 6.5 (±0.1)


#NameIsotope labelingTypeConcentration
11Dihydrofolate reductase[U-95% 15N]0.5 mM
12TRIMETHOPRIM[U-95% 15N]0.5 mM
13NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE[U-95% 15N]0.5 mM
14DMPC/DHPC (3/1)5 %
15H2O/D2O (90/10)95 %

Chem. Shift Complete2
Sequence coverage: 24.1 %, Completeness: 54.5 %, Completeness (bb): 59.6 % Detail

Polymer type: polypeptide(L)

Total1H15N
All54.5 % (1243 of 2282)53.9 % (1047 of 1942)57.6 % (196 of 340)
Backbone59.6 % (572 of 960)59.8 % (390 of 652)59.1 % (182 of 308)
Sidechain50.4 % (666 of 1322)50.6 % (653 of 1290)40.6 % (13 of 32)
Aromatic35.8 % (73 of 204)37.2 % (73 of 196) 0.0 % (0 of 8)
Methyl58.8 % (114 of 194)58.8 % (114 of 194)

1. Dihydrofolate reductase

TAFLWAQDRD GLIGKDGHLP WHLPDDLHYF RAQTVGKIMV VGRRTYESFP KRPLPERTNV VLTHQEDYQA QGAVVVHDVA AVFAYAKQHP DQELVIAGGA QIFTAFKDDV DTLLVTRLAG SFEGDTKMIP LNWDDFTKVS SRTVEDTNPA LTHTYEVWQK KA

Sample

Temperature 308 (±1) K, pH 6.5 (±0.1)


#NameIsotope labelingTypeConcentration
1Dihydrofolate reductase[U-95% 15N]1.5 ~ 4.0 mM
2TRIMETHOPRIM[U-95% 15N]1.5 ~ 4.0 mM
3NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE[U-95% 15N]1.5 ~ 4.0 mM
4potassium phosphate25 mM
5KCl50 mM

Chem. Shift Complete3
Sequence coverage: 14.2 %, Completeness: 39.6 %, Completeness (bb): 43.3 % Detail

Polymer type: polypeptide(L)

Total1H15N
All39.6 % (1354 of 3423)39.1 % (1140 of 2913)42.0 % (214 of 510)
Backbone43.3 % (623 of 1440)43.4 % (424 of 978)43.1 % (199 of 462)
Sidechain36.7 % (728 of 1983)36.9 % (714 of 1935)29.2 % (14 of 48)
Aromatic28.4 % (87 of 306)29.6 % (87 of 294) 0.0 % (0 of 12)
Methyl42.6 % (124 of 291)42.6 % (124 of 291)

1. Dihydrofolate reductase

TAFLWAQDRD GLIGKDGHLP WHLPDDLHYF RAQTVGKIMV VGRRTYESFP KRPLPERTNV VLTHQEDYQA QGAVVVHDVA AVFAYAKQHP DQELVIAGGA QIFTAFKDDV DTLLVTRLAG SFEGDTKMIP LNWDDFTKVS SRTVEDTNPA LTHTYEVWQK KA

Sample

Temperature 308 (±1) K, pH 6.5 (±0.1)


#NameIsotope labelingTypeConcentration
1Dihydrofolate reductase[U-95% 15N]1.5 ~ 4.0 mM
2TRIMETHOPRIM[U-95% 15N]1.5 ~ 4.0 mM
3NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE[U-95% 15N]1.5 ~ 4.0 mM
4potassium phosphate25 mM
5KCl50 mM

Protein Blocks Logo
Calculated from 24 models in PDB: 1LUD, Strand ID: A Detail


Release date
2002-11-03
Citation
NMR-based solution structure of the complex of Lactobacillus casei dihydrofolate reductase with trimethoprim and NADPH
Polshakov, V.I., Smirnov, E.G., Birdsall, B., Kelly, G., Feeney, J.
J. Biomol. NMR (2002), 24, 67-70, PubMed 12449420 ,
Related entities 1. Dihydrofolate reductase, : 1 : 9 : 137 entities Detail
Experiments performed 10 experiments Detail
nullKeywords DHFR, dihydrofolate reductase, trimethoprim, protein-ligand interactions, cooperative binding