2M0C

Solution NMR Structure of Homeobox Domain of Human ALX4, Northeast Structural Genomics Consortium (NESG) Target HR4490C


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
12D 1H-15N HSQC0.871 mM [U-100% 13C; U-100% 15N] HR4490C, 100 mM sodium chloride, 5 mM DTT, 0.02 % sodium azide, 10 mM Tris-HCl, 50 uM DSS90% H2O/10% D2O7.5ambient298
22D 1H-13C HSQC ali0.871 mM [U-100% 13C; U-100% 15N] HR4490C, 100 mM sodium chloride, 5 mM DTT, 0.02 % sodium azide, 10 mM Tris-HCl, 50 uM DSS90% H2O/10% D2O7.5ambient298
33D HNCO0.871 mM [U-100% 13C; U-100% 15N] HR4490C, 100 mM sodium chloride, 5 mM DTT, 0.02 % sodium azide, 10 mM Tris-HCl, 50 uM DSS90% H2O/10% D2O7.5ambient298
4(4,3)D GFT CABCA(CO)NH0.871 mM [U-100% 13C; U-100% 15N] HR4490C, 100 mM sodium chloride, 5 mM DTT, 0.02 % sodium azide, 10 mM Tris-HCl, 50 uM DSS90% H2O/10% D2O7.5ambient298
52D 1H-13C HSQC aro0.871 mM [U-100% 13C; U-100% 15N] HR4490C, 100 mM sodium chloride, 5 mM DTT, 0.02 % sodium azide, 10 mM Tris-HCl, 50 uM DSS90% H2O/10% D2O7.5ambient298
6(4,3)D GFT HNCABCA0.871 mM [U-100% 13C; U-100% 15N] HR4490C, 100 mM sodium chloride, 5 mM DTT, 0.02 % sodium azide, 10 mM Tris-HCl, 50 uM DSS90% H2O/10% D2O7.5ambient298
73D simultaneous 13C-aromatic,13C-aliphatic,15N edited 1H-1H NOESY0.871 mM [U-100% 13C; U-100% 15N] HR4490C, 100 mM sodium chloride, 5 mM DTT, 0.02 % sodium azide, 10 mM Tris-HCl, 50 uM DSS90% H2O/10% D2O7.5ambient298
83D HN(CA)CO0.871 mM [U-100% 13C; U-100% 15N] HR4490C, 100 mM sodium chloride, 5 mM DTT, 0.02 % sodium azide, 10 mM Tris-HCl, 50 uM DSS90% H2O/10% D2O7.5ambient298
93D HBHA(CO)NH0.871 mM [U-100% 13C; U-100% 15N] HR4490C, 100 mM sodium chloride, 5 mM DTT, 0.02 % sodium azide, 10 mM Tris-HCl, 50 uM DSS90% H2O/10% D2O7.5ambient298
103D (H)CCH-TOCSY ali0.871 mM [U-100% 13C; U-100% 15N] HR4490C, 100 mM sodium chloride, 5 mM DTT, 0.02 % sodium azide, 10 mM Tris-HCl, 50 uM DSS90% H2O/10% D2O7.5ambient298
11(4,3)D GFT HCCH-COSY ali0.871 mM [U-100% 13C; U-100% 15N] HR4490C, 100 mM sodium chloride, 5 mM DTT, 0.02 % sodium azide, 10 mM Tris-HCl, 50 uM DSS90% H2O/10% D2O7.5ambient298
12(4,3)D GFT HCCH-COSY aro0.871 mM [U-100% 13C; U-100% 15N] HR4490C, 100 mM sodium chloride, 5 mM DTT, 0.02 % sodium azide, 10 mM Tris-HCl, 50 uM DSS90% H2O/10% D2O7.5ambient298
132D 15N HSQC His0.871 mM [U-100% 13C; U-100% 15N] HR4490C, 100 mM sodium chloride, 5 mM DTT, 0.02 % sodium azide, 10 mM Tris-HCl, 50 uM DSS90% H2O/10% D2O7.5ambient298
142D 13C CT-HSQC0.6 mM [5% 13C; U-100% 15N] HR4490C, 100 mM sodium chloride, 5 mM DTT, 0.02 % sodium azide, 10 mM Tris-HCl, 50 uM DSS90% H2O/10% D2O7.5ambient298
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1VarianINOVA600
2VarianINOVA750
NMR Refinement
MethodDetailsSoftware
simulated annealingSTRUCTURE DETERMINATION WAS PERFORMED BY RUNNING CYANA AND ASDP IN PARALLEL USING NOE-BASED CONSTRAINTS AND PHI AND PSI DIHEDRAL ANGLE CONSTRAINTS FROM TALOS+. CONSENSUS PEAK ASSIGNMENTS WERE SELECTED AND USED IN ITERATIVE REFINEMENT WITH CYANA. THE 20 CONFORMERS OUT OF 100 WITH THE LOWEST TARGET FUNCTION WERE FURTHER REFINED BY SIMULATED ANNEALING IN EXPLICIT WATER BATH USING THE PROGRAM CNS WITH PARAM19 FORCE FIELDCNS
NMR Ensemble Information
Conformer Selection Criteriatarget function
Conformers Calculated Total Number100
Conformers Submitted Total Number20
Representative Model1 (lowest energy)
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1refinementCNS1.2Brunger, Adams, Clore, Gros, Nilges and Read
2structure solutionCNS1.2Brunger, Adams, Clore, Gros, Nilges and Read
3geometry optimizationCNS1.2Brunger, Adams, Clore, Gros, Nilges and Read
4refinementCYANA3.0Guntert, Mumenthaler and Wuthrich
5geometry optimizationCYANA3.0Guntert, Mumenthaler and Wuthrich
6structure solutionCYANA3.0Guntert, Mumenthaler and Wuthrich
7data analysisAS-DP1.0Huang, Tejero, Powers and Montelione
8refinementAS-DP1.0Huang, Tejero, Powers and Montelione
9data analysisAutoAssign2.3.1Zimmerman, Moseley, Kulikowski and Montelione
10chemical shift assignmentAutoAssign2.3.1Zimmerman, Moseley, Kulikowski and Montelione
11data analysisCARA1.8.4Keller and Wuthrich
12peak pickingCARA1.8.4Keller and Wuthrich
13chemical shift assignmentCARA1.8.4Keller and Wuthrich
14collectionVnmrJ2.2DVarian
15geometry optimizationTALOS+Shen, Cornilescu, Delaglio and Bax
16structure validationPSVS1.4Bhattacharya, Montelione
17data analysisPROSAGuntert
18data analysisCSIWishart and Sykes