structures with the lowest energy and restraint violation
Representative
Model #1
medoid
-
Components
#1: Protein
Double-strandedRNA-bindingproteinStaufenhomolog1
Mass: 8392.697 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: STAU1, STAU / Production host: Escherichia coli BL21(DE3) (bacteria) / References: UniProt: O95793
#2: RNA chain
hARF1SBSdsRNA
Mass: 10899.479 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Production host: Escherichia coli DH5[alpha] (bacteria)
-
Experimental details
-
Experiment
Experiment
Method: SOLUTION NMR
NMR experiment
Conditions-ID
Experiment-ID
Solution-ID
Sample state
Spectrometer-ID
Type
1
1
1
isotropic
1
2D 1H-15N HSQC
1
2
1
isotropic
2
2D 1H-15N HSQC
1
3
1
isotropic
3
2D 1H-15N HSQC
1
4
2
isotropic
1
2D 1H-13C HSQC aliphatic
1
5
2
isotropic
2
2D 1H-13C HSQC aliphatic
1
6
2
isotropic
1
3D HNCA
1
7
2
isotropic
1
3D HNCO
1
8
2
isotropic
1
3DCBCA(CO)NH
1
9
2
isotropic
1
3D HN(CA)CB
1
10
2
isotropic
1
3DHBHA(CO)NH
1
11
2
isotropic
1
3D (H)CC(CO)NH-TOCSY
1
12
2
isotropic
1
3D CC(CO)NH-TOCSY
1
13
2
isotropic
2
3D 1H-13C NOESY aliphatic
1
15
2
isotropic
1
3D 1H-13C NOESY aromatic
1
16
1
isotropic
3
3D 1H-15N NOESY
1
17
6
isotropic
2
2D 1H-1H, 13C 2F-filtered NOESY
1
18
6
isotropic
2
3D 13C 1F-filtered 2F-edited HSQC-NOESY
1
19
5
isotropic
2
3D 1H-13C NOESY ribose
1
20
3
isotropic
2
2D 1H-1H TOCSY
1
21
3
isotropic
2
2D 1H-1H NOESY
1
22
4
isotropic
2
2D 1H-13C HSQC
1
23
4
isotropic
2
3D (H)CCH-TOCSY
1
24
4
isotropic
2
3D 1H-13C NOESY
1
25
4
isotropic
2
2D 1H-13C HSQC aliphatic
1
26
6
isotropic
2
2D 1H-1H, 13C 1F-filtered 2F-filtered NOESY
1
27
5
isotropic
2
2D 1H-13C HSQC
1
28
7
isotropic
2
2D 1H-1H TOCSY
1
29
7
isotropic
2
2D 1H-1H NOESY
1
30
4
isotropic
2
3D (H)CCH-COSY aromatic
1
31
2
isotropic
1
2D 1H-13C HSQC aromatic
1
32
2
isotropic
2
2D 1H-13C HSQC aromatic
1
33
6
isotropic
2
2D 1H-13C HSQC aliphatic
1
34
4
isotropic
2
2D 1H-13C HSQC aromatic
1
35
5
isotropic
2
2D 1H-13C HSQC ribose
1
36
5
isotropic
2
2D 1H-13C HSQC aromatic
-
Sample preparation
Details
Type
Solution-ID
Contents
Details
Label
Solvent system
solution
1
310 uM [U-15N] Staufen1 dsRBD4, 310 uM Unlabelled hARF1, 90-95% H20/5-10% D20
In protein-dsRNA complex, protein was 15N_labelled and dsRNA was unlabelled.
15N_dsRBD4andunlabelleddsRNA
90-95% H20/5-10% D20
solution
2
405 uM [U-13C; U-15N] Staufen1 dsRBD4, 405 uM Unlabelled hARF1, 90-95% H20/5-10% D20
In protein-dsRNA complex, protein was 15N_13C_labelled and dsRNA was unlabelled.
15N_13C_dsRBD4andunlabelleddsRNA
90-95% H20/5-10% D20
solution
3
310 uM Unlabelled hARF1, 90-95% H20/5-10% D20
SampleusedtomeasurespectrumfordsRNAassignment.
UnlabelleddsRNA
90-95% H20/5-10% D20
solution
4
478 uM [U-13C] hARF1, 100% D2O
SampleusedtomeasurespectrumfordsRNAassignment.
13C_dsRNA
100% D2O
solution
5
354 uM [U-15N] Staufen1 dsRBD4, 354 uM [U-13C] hARF1, 100% D2O
SamplewereusedforintermolecularNOEsassignments
15N_dsRBD4and13C_dsRNA
100% D2O
solution
6
451 uM [U-13C; U-15N] Staufen1 dsRBD4, 451 uM Unlabelled hARF1, 100% D2O
In protein-dsRNA complex, protein was 15N_13C_labelled + dsRNA was unlabelled (sample were used for inter molecular NOEs assignments)
15N_13C_dsRBD4 + unlabelleddsRNA
100% D2O
solution
7
310uMUnlabelledhARF1, 100% D2O
SampleusedtomeasurespectrumfordsRNAassignment.
Unlabelled_dsRNA
100% D2O
Sample
Conc. (mg/ml)
Component
Isotopic labeling
Solution-ID
310uM
Staufen1dsRBD4
[U-15N]
1
310uM
hARF1
Unlabelled
1
405uM
Staufen1dsRBD4
[U-13C; U-15N]
2
405uM
hARF1
Unlabelled
2
310uM
hARF1
Unlabelled
3
478uM
hARF1
[U-13C]
4
354uM
Staufen1dsRBD4
[U-15N]
5
354uM
hARF1
[U-13C]
5
451uM
Staufen1dsRBD4
[U-13C; U-15N]
6
451uM
hARF1
Unlabelled
6
310uM
hARF1
Unlabelled
7
Sample conditions
Details: NMR spectrum for dsRBD4-dsRNA complex and free dsRNA were measured in condition mentioned below. Buffer composition was: 50mM K-phosphate pH 6.5 + 250uM EDTA Ionic strength: 50 mM / Label: Condition_1 / pH: 6.5 / Pressure: ambient atm / Temperature: 308 K
Conformer selection criteria: structures with the lowest energy and restraint violation Conformers calculated total number: 50 / Conformers submitted total number: 20
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