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Autoassign
MARS
UNIO Match
PINE
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UNIO ATNOS-Candid
UNIO Candid
ASDP
Structure from NMR restraints:
Ab initio:
GeNMR
Cyana
XPLOR-NIH
ASDP
UNIO ATNOS-Candid
UNIO Candid
Fragment-based
:
BMRB CS-Rosetta
Rosetta-NMR (Robetta)
Template-based
:
GeNMR
I-TASSER
Refinement
:
Amber
Structure from chemical shifts:
Fragment-based
:
WeNMR CS-Rosetta
BMRB CS-Rosetta
Homology-based
:
CS23D
Simshift
Torsion angles from chemical shifts:
Preditor
TALOS
Promega
- Proline
Secondary structure from chemical shifts:
CSI
(via RCI server)
TALOS
MICS
caps, β-turns
d2D
PECAN
Flexibility from chemical shifts:
RCI
Interactions from chemical shifts:
HADDOCK
Chemical shifts re-referencing:
Shiftcor
UNIO Shiftinspector
LACS
CheckShift
RefDB
NMR model quality:
NOEs, other restraints:
PROSESS
PSVS
RPF scores
iCing
Chemical shifts:
PROSESS
CheShift2
Vasco
iCing
RDCs:
DC
Anisofit
Pseudocontact shifts:
Anisofit
Protein geomtery:
Resolution-by-Proxy
PROSESS
What-If
iCing
PSVS
MolProbity
SAVES2
or
SAVES4
Vadar
Prosa
ProQ
MetaMQAPII
PSQS
Eval123D
STAN
Ramachandran Plot
Rampage
ERRAT
Verify_3D
Harmony
Quality Control Check
NMR spectrum prediction:
FANDAS
MestReS
V-NMR
Flexibility from structure:
Backbone S2
Methyl S2
B-factor
Molecular dynamics:
Gromacs
Amber
Antechamber
Chemical shifts prediction:
From structure:
Shiftx2
Sparta+
Camshift
CH3shift
- Methyl
ArShift
- Aromatic
ShiftS
Proshift
PPM
CheShift-2
- Cα
From sequence:
Shifty
Camcoil
Poulsen_rc_CS
Disordered proteins:
MAXOCC
Format conversion & validation:
CCPN
From NMR-STAR 3.1
Validate NMR-STAR 3.1
NMR sample preparation:
Protein disorder:
DisMeta
Protein solubility:
camLILA
ccSOL
Camfold
camGroEL
Zyggregator
Isotope labeling:
UPLABEL
Solid-state NMR:
sedNMR
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Deuterium spin relaxation of fractionally deuterated ribonuclease H using paired 475 and 950Â*MHz NMR spectrometers
Deuterium spin relaxation of fractionally deuterated ribonuclease H using paired 475 and 950Â*MHz NMR spectrometers Abstract Deuterium (2H) spin relaxation of 13CH2D methyl groups has been widely applied to investigate picosecond-to-nanosecond conformational dynamics in proteins by solution-state NMR spectroscopy. The B0 dependence of the 2H spin relaxation rates is represented by a linear relationship between the spectral density function at three discrete frequencies J(0), J(Ï?D) and J(2Ï?D). In this study, the linear relation between 2H relaxation...
nmrlearner
Today
01:00 PM
by
nmrlearner
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25
Journal club
[NMR paper]
Detecting Bound Ions in Ion Channels by Solid-State NMR Experiments on (15)N-Labelled Ammonium Ions
Detecting Bound Ions in Ion Channels by Solid-State NMR Experiments on (15)N-Labelled Ammonium Ions Solid-state NMR allows for the study of membrane proteins under physiological conditions. Here we describe a method for detection of bound ions in the selectivity filter of ion channels using solid-state NMR. This method employs standard ¹H-detected solid-state NMR setup and experiment types, which is enabled by using ^(15)N-labelled ammonium ions to mimic potassium ions. More...
nmrlearner
Yesterday
11:03 PM
by
nmrlearner
0
13
Journal club
[NMR paper]
Deuterium spin relaxation of fractionally deuterated ribonuclease H using paired 475 and 950 MHz NMR spectrometers
Deuterium spin relaxation of fractionally deuterated ribonuclease H using paired 475 and 950 MHz NMR spectrometers Deuterium (²H) spin relaxation of ^(13)CH(2)D methyl groups has been widely applied to investigate picosecond-to-nanosecond conformational dynamics in proteins by solution-state NMR spectroscopy. The B(0) dependence of the ²H spin relaxation rates is represented by a linear relationship between the spectral density function at three discrete frequencies J(0), J(?(D)) and J(2?(D)). In this study, the linear relation between ²H relaxation rates at B(0) fields separated by a...
nmrlearner
Yesterday
11:03 PM
by
nmrlearner
0
11
Journal club
[NMR paper]
Effects of Macromolecular Cosolutes on the Kinetics of Huntingtin Aggregation Monitored by NMR Spectroscopy
Effects of Macromolecular Cosolutes on the Kinetics of Huntingtin Aggregation Monitored by NMR Spectroscopy The effects of two macromolecular cosolutes, specifically the polysaccharide dextran-20 and the protein lysozyme, on the aggregation kinetics of a pathogenic huntingtin exon-1 protein (hht^(ex1)) with a 35 polyglutamine repeat, htt^(ex1)Q(35), are described. A unified kinetic model that establishes a direct connection between reversible tetramerization occurring on the microsecond time scale and irreversible fibril formation on a time scale of hours/days forms the basis for...
nmrlearner
Yesterday
11:03 PM
by
nmrlearner
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