2KD7 | pdb_00002kd7

Solution NMR structure of F5/8 type C-terminal domain of a putative chitobiase from Bacteroides thetaiotaomicron. Northeast Structural Genomics Consortium target BtR324B


SOLUTION NMR
NMR Experiment
ExperimentTypeSample ContentsSolventIonic StrengthpHPressureTemperature (K)Spectrometer
12D 1H-15N HSQC1.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
22D 1H-13C HSQC ali1.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
32D 1H-13C CT-HSQC ali1.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
42D 1H-13C CT-HSQC aro1.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
51D 1H-15N HSQC T11.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
61D 1H-15N HSQC T21.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
73D HNCO1.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
83D CBCA(CO)NH1.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
93D HNCACB1.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
103D HBHA(CO)NH1.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
113D HN(CA)CO1.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
123D (H)CCH-COSY ali1.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
133D (H)CCH-TOCSY ali1.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
143D (H)CCH-COSY aro1.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
153D (H)CCH-TOCSY aro1.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
162D 1H-15N LR-HSQC1.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
172D 1H-15N MEXICO1.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
183D 1H-15N/13Cali/13Caro NOESY1.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
193D 1H-13Cali NOESY1.1 mM [U-100% 13C; U-100% 15N] BtR324B-1, 20 mM ammonium acetate-2, 200 mM sodium chloride-3, 5 mM calcium chloride-4, 10 mM DTT-5, 0.02 mM sodium azide-695% H2O/5% D2O2154.5ambient298
202D 1H-13C CT-HSQC methyl LV1.1 mM [U-5% 13C; U-100% 15N] BtR324B-7, 20 mM ammonium acetate-8, 200 mM sodium chloride-9, 5 mM calcium chloride-10, 10 mM DTT-11, 0.02 mM sodium azide-1295% H2O/5% D2O2154.5ambient298
212D 1H-15N HSQC1.1 mM [U-5% 13C; U-100% 15N] BtR324B-7, 20 mM ammonium acetate-8, 200 mM sodium chloride-9, 5 mM calcium chloride-10, 10 mM DTT-11, 0.02 mM sodium azide-1295% H2O/5% D2O2154.5ambient298
222D 1H-13C TROSY1.1 mM [U-5% 13C; U-100% 15N] BtR324B-7, 20 mM ammonium acetate-8, 200 mM sodium chloride-9, 5 mM calcium chloride-10, 10 mM DTT-11, 0.02 mM sodium azide-1295% H2O/5% D2O2154.5ambient298
232D 1H-15N HSQC1.1 mM [U-5% 13C; U-100% 15N] BtR324B-13, 20 mM ammonium acetate-14, 200 mM sodium chloride-15, 5 mM calcium chloride-16, 10 mM DTT-17, 0.02 mM sodium azide-18, 7% polyacrylamide gel-1988% H2O/12% D2O2154.5ambient298
242D 1H-15N TROSY1.1 mM [U-5% 13C; U-100% 15N] BtR324B-13, 20 mM ammonium acetate-14, 200 mM sodium chloride-15, 5 mM calcium chloride-16, 10 mM DTT-17, 0.02 mM sodium azide-18, 7% polyacrylamide gel-1988% H2O/12% D2O2154.5ambient298
252D 1H-15N HSQC0.76 mM [U-5% 13C; U-100% 15N] BtR324B-20, 20 mM ammonium acetate-21, 200 mM sodium chloride-22, 5 mM calcium chloride-23, 10 mM DTT-24, 0.02 mM sodium azide-25, 4.2% polyethylene glycol-26, 1.5% hexanol-2788% H2O/12% D2O2154.5ambient298
262D 1H-15N TROSY0.76 mM [U-5% 13C; U-100% 15N] BtR324B-20, 20 mM ammonium acetate-21, 200 mM sodium chloride-22, 5 mM calcium chloride-23, 10 mM DTT-24, 0.02 mM sodium azide-25, 4.2% polyethylene glycol-26, 1.5% hexanol-2788% H2O/12% D2O2154.5ambient298
NMR Spectrometer Information
SpectrometerManufacturerModelField Strength
1BrukerAVANCE900
2VarianINOVA750
3VarianINOVA600
NMR Refinement
MethodDetailsSoftware
simulated annealingStructure determination was performed iteratively with CYANA v2.1 and CYANA v3.0 using NOE-based constraints, PHI and PSI dihedral angle constraints from TALOS, hydrogen bond constraints based on preliminary structures and MEXICO data, and RDCs from two alignment media. 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 field.VnmrJ
NMR Ensemble Information
Conformer Selection Criteriatarget function
Conformers Calculated Total Number100
Conformers Submitted Total Number20
Representative Model1 (lowest energy)
Computation: NMR Software
#ClassificationVersionSoftware NameAuthor
1collectionVnmrJ2.1BVarian
2collectionTopSpin2.1Bruker Biospin
3processingTopSpin2.1Bruker Biospin
4processingPROSA6.0.2Guntert
5data analysisCARA1.8.4.2Keller and Wuthrich
6chemical shift assignmentCARA1.8.4.2Keller and Wuthrich
7peak pickingCARA1.8.4.2Keller and Wuthrich
8chemical shift assignmentAutoAssign2.3.0Zimmerman, Moseley, Kulikowski and Montelione
9data analysisTALOS2007.068.09.07Cornilescu, Delaglio and Bax
10refinementCNS1.2.1Brunger, Adams, Clore, Gros, Nilges and Read
11structure solutionCYANA3.0Guntert, Mumenthaler and Wuthrich
12structure validationPSVS1.3Bhattacharya and Montelione