6S3W | pdb_00006s3w

Solution NMR Structure of TolAIII Bound to a Peptide Derived from the N-terminus of TolB


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
13D HNCO0.6 mM [U-98% 13C; U-98% 15N] TolAIII, 3 mM TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Bruker AVANCE II 500
23D HNCA0.6 mM [U-98% 13C; U-98% 15N] TolAIII, 3 mM TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Bruker AVANCE II 500
33D CBCANH0.6 mM [U-98% 13C; U-98% 15N] TolAIII, 3 mM TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Bruker AVANCE II 500
43D CBCA(CO)NH0.6 mM [U-98% 13C; U-98% 15N] TolAIII, 3 mM TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Bruker AVANCE II 500
53D H(CCO)NH0.6 mM [U-98% 13C; U-98% 15N] TolAIII, 3 mM TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Bruker AVANCE II 500
63D C(CO)NH0.6 mM [U-98% 13C; U-98% 15N] TolAIII, 3 mM TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Bruker AVANCE II 500
73D HBHA(CO)NH0.6 mM [U-98% 13C; U-98% 15N] TolAIII, 3 mM TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Bruker AVANCE II 500
82D 1H-15N HSQC0.6 mM [U-98% 13C; U-98% 15N] TolAIII, 3 mM TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Bruker AVANCE II 500
93D 1H-15N NOESY0.6 mM [U-98% 15N] TolAIII, 3 mM TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Home-built Custom 750
103D 1H-15N TOCSY0.6 mM [U-98% 15N] TolAIII, 3 mM TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Home-built Custom 750
112D 1H-15N HSQC0.6 mM [U-98% 15N] TolAIII, 3 mM TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Home-built Custom 750
122D 1H-13C HSQC0.6 mM [U-98% 13C; U-98% 15N] TolAIII, 3 mM TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Bruker AVANCE II 500
133D 1H-13C NOESY aliphatic0.6 mM [U-98% 13C; U-98% 15N] TolAIII, 3 mM TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Home-built home-build 950
143D 1H-13C NOESY aliphatic0.6 mM [U-98% 13C; U-98% 15N] TolAIII, 3 mM TolBp, 20 mM sodium phosphate, 60 mM sodium chloride100% D2O140 mM7.01 atm293Home-built home-build 950
152D HNCO1.1 mM TolAIII, 0.2 mM [U-98% 13C; U-98% 15N] TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Bruker AVANCE II 500
162D HBHA(CO)NH1.1 mM TolAIII, 0.2 mM [U-98% 13C; U-98% 15N] TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Bruker AVANCE II 500
172D HNCA1.1 mM TolAIII, 0.2 mM [U-98% 13C; U-98% 15N] TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Bruker AVANCE II 500
182D CBCA(CO)NH1.1 mM TolAIII, 0.2 mM [U-98% 13C; U-98% 15N] TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Bruker AVANCE II 500
192D 1H-15N HSQC1.1 mM TolAIII, 0.2 mM [U-98% 13C; U-98% 15N] TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Bruker AVANCE II 500
202D 1H-13C HSQC1.1 mM TolAIII, 0.2 mM [U-98% 13C; U-98% 15N] TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Bruker AVANCE II 500
212D HN(CA)CO1.1 mM TolAIII, 0.2 mM [U-98% 13C; U-98% 15N] TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Bruker AVANCE II 500
222D 1H-13C NOESY aliphatic1.1 mM TolAIII, 0.2 mM [U-98% 13C; U-98% 15N] TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Bruker AVANCE II 500
232D 1H-15N NOESY1.1 mM TolAIII, 0.2 mM [U-98% 13C; U-98% 15N] TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Bruker AVANCE II 500
243D HCCH-TOCSY0.6 mM [U-98% 13C; U-98% 15N] TolAIII, 3 mM TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Home-built Custom 750
252D 1H-13C HSQC0.6 mM [U-98% 13C; U-98% 15N] TolAIII, 3 mM TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Home-built Custom 750
262D 1H-15N IPAP0.6 mM [U-98% 15N] TolAIII, 3 mM TolBp, 20 mM sodium phosphate, 60 mM sodium chloride95% H2O/5% D2O140 mM7.01 atm293Home-built Custom 750
272D 1H-15N IPAP0.6 mM [U-98% 15N] TolAIII, 3 mM TolBp, 20 mM sodium phosphate, 60 mM sodium chloride, 5 % C12E6/n-hexanol95% H2O/5% D2O140 mM7.01 atm293Home-built Custom 750
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1BrukerAVANCE II500
2Home-builtCustom750
3Home-builthome-build950
NMR Refinement
MethodDetailsSoftware
simulated annealing8 rounds of iterative structure calculation using ARIA protocolARIA
molecular dynamics20 lowest energy structures further refined using MD in water via ARIA protocolCNS
NMR Ensemble Information
Conformer Selection Criteriastructures with the lowest energy
Conformers Calculated Total Number600
Conformers Submitted Total Number20
Representative Model1 (lowest energy)
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1processingNMRPipeDelaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
2chemical shift assignmentCcpNmr AnalysisCCPN
3structure calculationARIA2.3Linge, O'Donoghue and Nilges
4structure calculationCNS1.2Brunger, Adams, Clore, Gros, Nilges and Read