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BMRB: 34104

5N8M

Structure of TRBP dsRBD 1 and 2 in complex with a 19 bp siRNA (Complex A)

Authors

Masliah, G., Maris, C., Allain, H.T.F.

Assembly

RISC-loading complex subunit TARBP2/RNA Complex

Entity

1. RISC-loading complex subunit TARBP2/RNA Complex, entity 1 (polymer), 215 monomers, 22983.06 Da Detail

GGSLPSIEQM LAANPGKTPI SLLQEYGTRI GKTPVYDLLK AEGQAHQPNF TFRVTVGDTS CTGQGPSKKA AKHKAAEVAL KHLKGGSMLE PALEDSSSFS PLDSSLPEDI PVFTAAAAAT PVPSVVLTRS PPMELQPPVS PQQSECNPVG ALQELVVQKG WRLPEYTVTQ ESGPAHRKEF TMTCRVERFI EIGSGTSKKL AKRNAAAKML LRVHT

2. RISC-loading complex subunit TARBP2/RNA Complex, entity 2 (polymer, Thiol state: not present), 21 monomers, 6597.799 Da Detail

UUAAUUAUCU AUUCCGUACU U

3. RISC-loading complex subunit TARBP2/RNA Complex, entity 3 (polymer, Thiol state: not present), 21 monomers, 6810.031 Da Detail

GUACGGAAUA GAUAAUUAAU U

Total weight

36390.89 Da

Max. entity weight

22983.06 Da

Source organism

Homo sapiens , synthetic construct

Exptl. method

solution NMR

Refine. method

simulated annealing

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 68.9 %, Completeness: 56.8 %, Completeness (bb): 51.6 % Detail

Polymer type: polypeptide(L) polyribonucleotide

	Total	¹H	¹³C	¹⁵N
All	56.8 % (1761 of 3102)	60.9 % (993 of 1630)	48.3 % (598 of 1238)	72.6 % (170 of 234)
Backbone	51.6 % (884 of 1712)	52.2 % (354 of 678)	43.7 % (367 of 839)	83.6 % (163 of 195)
Sidechain	64.8 % (1030 of 1589)	67.1 % (639 of 952)	64.2 % (384 of 598)	17.9 % (7 of 39)
Aromatic	25.6 % (82 of 320)	30.0 % (48 of 160)	24.3 % (33 of 136)	4.2 % (1 of 24)
Methyl	79.0 % (188 of 238)	80.7 % (96 of 119)	77.3 % (92 of 119)

1. entity 1

2. entity 2

UUAAUUAUCU AUUCCGUACU U

3. entity 3

GUACGGAAUA GAUAAUUAAU U

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 313 K, pH 6.5, Details 1 mM [U-100% 13C; U-100% 15N; U-80% 2H] dsRBD1, 1 mM EL86, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
1	dsRBD1	[U-100% 13C; U-100% 15N; U-80% 2H]		1 mM
2	EL86	natural abundance		1 mM

Sample #2

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 313 K, pH 6.5, Details 1 mM [U-100% 13C; U-100% 15N] dsRBD2, 1 mM EL86, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
3	EL86	natural abundance		1 mM
4	dsRBD2	[U-100% 13C; U-100% 15N]		1 mM

Sample #3

Solvent system 100% D2O, Pressure 1 atm, Temperature 313 K, pH 6.5, Details 1 mM [U-100% 13C; U-100% 15N; U-80% 2H] dsRBD12, 1 mM EL86, 100% D2O

#	Name	Isotope labeling	Type	Concentration
5	EL86	natural abundance		1 mM
6	dsRBD12	[U-100% 13C; U-100% 15N; U-80% 2H]		1 mM

Sample #4

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 313 K, pH 6.5, Details 1 mM [U-100% 13C; U-100% 15N; U-80% 2H] dsRBD12, 1 mM EL86, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
7	EL86	natural abundance		1 mM
8	dsRBD12	[U-100% 13C; U-100% 15N; U-80% 2H]		1 mM

Sample #5

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 313 K, pH 6.5, Details 1 mM [U-100% 13C; U-100% 15N; U-80% 2H] dsRBD12, 1 mM EL86, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
9	EL86	natural abundance		1 mM
10	dsRBD12	[U-100% 13C; U-100% 15N; U-80% 2H]		1 mM

LACS Plot; CA

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹H	water	protons	4.7 ppm	internal	direct	1.0

Referencing offset: -0.07 ppm, Outliers: 1 Detail

LACS Plot; CB

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹H	water	protons	4.7 ppm	internal	direct	1.0

Referencing offset: -0.07 ppm, Outliers: 1 Detail

LACS Plot; HA

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹H	water	protons	4.7 ppm	internal	direct	1.0

Referencing offset: -0.05 ppm, Outliers: 1 Detail

Protein Blocks Logo

Calculated from 20 models in PDB: 5N8M, Strand ID: A Detail

Release date

2018-02-11

Citation

Structural basis of siRNA recognition by TRBP double-stranded RNA binding domains
Masliah, G., Maris, C., Koenig, L.B.S., Yulikov, M., Aeschimann, F., Malinowska, A.L., Mabille, J., Weiler, J., Holla, A., Meisner-Kober, N., Meisner-Kober, N., Schuler, B., Jeschke, G., Allain, H.T.F.
EMBO J. (2018), 37, e97089-e97089, PubMed 29449323 , DOI 10.15252/embj.201797089 , Abstract

Related entities 1. RISC-loading complex subunit TARBP2/RNA Complex, entity 1, : 1 : 1 : 5 : 92 entities Detail

Related entities 2. RISC-loading complex subunit TARBP2/RNA Complex, entity 2, : 2 : 1 : 1 entities Detail

Related entities 3. RISC-loading complex subunit TARBP2/RNA Complex, entity 3, : 2 : 1 : 1 entities Detail

Interaction partners 1. RISC-loading complex subunit TARBP2/RNA Complex, entity 1, : 32 interactors Detail

More details for 32 interactors identified by 14 citations

Experiments performed 12 experiments Detail

1 3D HNCACB