BMRBj - BMREntryMaster

	Total	¹H	¹³C	¹⁵N
All	94.1 % (779 of 828)	92.4 % (402 of 435)	96.3 % (309 of 321)	94.4 % (68 of 72)
Backbone	98.1 % (408 of 416)	95.8 % (136 of 142)	100.0 % (208 of 208)	97.0 % (64 of 66)
Sidechain	91.4 % (437 of 478)	90.8 % (266 of 293)	93.3 % (167 of 179)	66.7 % (4 of 6)
Aromatic	78.6 % (44 of 56)	92.9 % (26 of 28)	61.5 % (16 of 26)	100.0 % (2 of 2)
Methyl	95.7 % (67 of 70)	91.4 % (32 of 35)	100.0 % (35 of 35)

1. dsRBD

NDICLRKNWP MPSYRCVKEG GPAHAKRFTF GVRVNTSDRG WTDECIGEPM PSVKKAKDSA AVLLLELLNK T

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
1	dsRBD	[U-100% 13C; U-100% 15N]	800 mM
2	HEPES	natural abundance	50 mM
3	sodium azide	natural abundance	0.05 %
4	PMSF	natural abundance	1 mM
5	H2O	natural abundance	90 %
6	D2O	natural abundance	10 %

Sample #2

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
7	dsRBD	[U-100% 13C; U-100% 15N]	600 uM
8	sodium phosphate	natural abundance	50 mM
9	C12/E5-Hexanol	natural abundance	5 %
10	DTT	natural abundance	10 mM
11	PMSF	natural abundance	1 mM
12	sodium azide	natural abundance	0.05 %
13	sodium chloride	natural abundance	50 mM
14	H2O	natural abundance	90 %
15	D2O	natural abundance	10 %

Sample #3

Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
16	dsRBD	natural abundance	800 mM
17	sodium phosphate	natural abundance	50 mM
18	sodium chloride	natural abundance	50 mM
19	sodium azide	natural abundance	0.05 %
20	PMSF	natural abundance	1 mM
21	D2O	natural abundance	100 %

Sample #4

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
22	dsRBD	[U-100% 13C; U-100% 15N]	600 mM
23	sodium phosphate	natural abundance	100 mM
24	sodium chloride	natural abundance	50 mM
25	sodium azide	natural abundance	0.05 %
26	PMSF	natural abundance	1 mM
27	DTT	natural abundance	10 mM
28	H2O	natural abundance	90 %
29	D2O	natural abundance	10 %

LACS Plot; CA

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	water	protons	4.77 ppm	internal	indirect	0.2514495
¹H	water	protons	4.77 ppm	internal	direct	1.0
¹⁵N	water	protons	4.77 ppm	internal	indirect	0.1013291

Referencing offset: -0.19 ppm, Outliers: 1 Detail

LACS Plot; CB

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	water	protons	4.77 ppm	internal	indirect	0.2514495
¹H	water	protons	4.77 ppm	internal	direct	1.0
¹⁵N	water	protons	4.77 ppm	internal	indirect	0.1013291

Referencing offset: -0.19 ppm, Outliers: 1 Detail

LACS Plot; HA

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	water	protons	4.77 ppm	internal	indirect	0.2514495
¹H	water	protons	4.77 ppm	internal	direct	1.0
¹⁵N	water	protons	4.77 ppm	internal	indirect	0.1013291

Referencing offset: 0.0 ppm, Outliers: 1 Detail

LACS Plot; CO

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
¹³C	water	protons	4.77 ppm	internal	indirect	0.2514495
¹H	water	protons	4.77 ppm	internal	direct	1.0
¹⁵N	water	protons	4.77 ppm	internal	indirect	0.1013291

Referencing offset: 0.05 ppm, Outliers: 1 Detail

Protein Blocks Logo

Calculated from 20 models in PDB: 2LRS, Strand ID: A Detail

Release date

2013-01-21

Citation

Second double-stranded RNA binding domain of dicer-like ribonuclease 1: structural and biochemical characterization
Burdisso, P., Suarez, I.P., Bologna, N.G., Palatnik, J.F., Bersch, B., Rasia, R.M.
Biochemistry (2012), 51, 10159-10166, PubMed 23194006 , DOI 10.1021/bi301247r , Abstract

Related entities 1. dsRBD, : 1 : 2 : 129 entities Detail

Interaction partners 1. dsRBD, : 6 interactors Detail

More details for 6 interactors identified by 4 citations

Experiments performed 17 experiments Detail

1 2D 1H-15N HSQC

Instrument

Varian VXRS - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
1	dsRBD	[U-100% 13C; U-100% 15N]	800 mM
2	HEPES	natural abundance	50 mM
3	sodium azide	natural abundance	0.05 %
4	PMSF	natural abundance	1 mM
5	H2O	natural abundance	90 %
6	D2O	natural abundance	10 %

2 2D 1H-13C HSQC

Instrument

Varian VXRS - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
1	dsRBD	[U-100% 13C; U-100% 15N]	800 mM
2	HEPES	natural abundance	50 mM
3	sodium azide	natural abundance	0.05 %
4	PMSF	natural abundance	1 mM
5	H2O	natural abundance	90 %
6	D2O	natural abundance	10 %

3 3D HNCO

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
22	dsRBD	[U-100% 13C; U-100% 15N]	600 mM
23	sodium phosphate	natural abundance	100 mM
24	sodium chloride	natural abundance	50 mM
25	sodium azide	natural abundance	0.05 %
26	PMSF	natural abundance	1 mM
27	DTT	natural abundance	10 mM
28	H2O	natural abundance	90 %
29	D2O	natural abundance	10 %

4 3D HNCA

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
22	dsRBD	[U-100% 13C; U-100% 15N]	600 mM
23	sodium phosphate	natural abundance	100 mM
24	sodium chloride	natural abundance	50 mM
25	sodium azide	natural abundance	0.05 %
26	PMSF	natural abundance	1 mM
27	DTT	natural abundance	10 mM
28	H2O	natural abundance	90 %
29	D2O	natural abundance	10 %

5 3D HNCACB

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
22	dsRBD	[U-100% 13C; U-100% 15N]	600 mM
23	sodium phosphate	natural abundance	100 mM
24	sodium chloride	natural abundance	50 mM
25	sodium azide	natural abundance	0.05 %
26	PMSF	natural abundance	1 mM
27	DTT	natural abundance	10 mM
28	H2O	natural abundance	90 %
29	D2O	natural abundance	10 %

6 3D HN(CO)CA

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
22	dsRBD	[U-100% 13C; U-100% 15N]	600 mM
23	sodium phosphate	natural abundance	100 mM
24	sodium chloride	natural abundance	50 mM
25	sodium azide	natural abundance	0.05 %
26	PMSF	natural abundance	1 mM
27	DTT	natural abundance	10 mM
28	H2O	natural abundance	90 %
29	D2O	natural abundance	10 %

7 3D HN(CO)CACB

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
22	dsRBD	[U-100% 13C; U-100% 15N]	600 mM
23	sodium phosphate	natural abundance	100 mM
24	sodium chloride	natural abundance	50 mM
25	sodium azide	natural abundance	0.05 %
26	PMSF	natural abundance	1 mM
27	DTT	natural abundance	10 mM
28	H2O	natural abundance	90 %
29	D2O	natural abundance	10 %

8 3D HN(CA)CO

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
22	dsRBD	[U-100% 13C; U-100% 15N]	600 mM
23	sodium phosphate	natural abundance	100 mM
24	sodium chloride	natural abundance	50 mM
25	sodium azide	natural abundance	0.05 %
26	PMSF	natural abundance	1 mM
27	DTT	natural abundance	10 mM
28	H2O	natural abundance	90 %
29	D2O	natural abundance	10 %

9 3D HN(CA)HA

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
22	dsRBD	[U-100% 13C; U-100% 15N]	600 mM
23	sodium phosphate	natural abundance	100 mM
24	sodium chloride	natural abundance	50 mM
25	sodium azide	natural abundance	0.05 %
26	PMSF	natural abundance	1 mM
27	DTT	natural abundance	10 mM
28	H2O	natural abundance	90 %
29	D2O	natural abundance	10 %

10 3D H(CCO)NH

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
22	dsRBD	[U-100% 13C; U-100% 15N]	600 mM
23	sodium phosphate	natural abundance	100 mM
24	sodium chloride	natural abundance	50 mM
25	sodium azide	natural abundance	0.05 %
26	PMSF	natural abundance	1 mM
27	DTT	natural abundance	10 mM
28	H2O	natural abundance	90 %
29	D2O	natural abundance	10 %

11 3D HCCH-TOCSY

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
22	dsRBD	[U-100% 13C; U-100% 15N]	600 mM
23	sodium phosphate	natural abundance	100 mM
24	sodium chloride	natural abundance	50 mM
25	sodium azide	natural abundance	0.05 %
26	PMSF	natural abundance	1 mM
27	DTT	natural abundance	10 mM
28	H2O	natural abundance	90 %
29	D2O	natural abundance	10 %

12 3D 1H-15N NOESY

Instrument

Varian VXRS - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
1	dsRBD	[U-100% 13C; U-100% 15N]	800 mM
2	HEPES	natural abundance	50 mM
3	sodium azide	natural abundance	0.05 %
4	PMSF	natural abundance	1 mM
5	H2O	natural abundance	90 %
6	D2O	natural abundance	10 %

13 3D 1H-13C NOESY

Instrument

Varian VXRS - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
1	dsRBD	[U-100% 13C; U-100% 15N]	800 mM
2	HEPES	natural abundance	50 mM
3	sodium azide	natural abundance	0.05 %
4	PMSF	natural abundance	1 mM
5	H2O	natural abundance	90 %
6	D2O	natural abundance	10 %

14 2D 1H-1H NOESY

Instrument

Varian VXRS - 800 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
16	dsRBD	natural abundance	800 mM
17	sodium phosphate	natural abundance	50 mM
18	sodium chloride	natural abundance	50 mM
19	sodium azide	natural abundance	0.05 %
20	PMSF	natural abundance	1 mM
21	D2O	natural abundance	100 %

15 2D 1H-1H TOCSY

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
16	dsRBD	natural abundance	800 mM
17	sodium phosphate	natural abundance	50 mM
18	sodium chloride	natural abundance	50 mM
19	sodium azide	natural abundance	0.05 %
20	PMSF	natural abundance	1 mM
21	D2O	natural abundance	100 %

16 2D 15N-IPAP-HSQC

Instrument

Bruker Avance - 600 MHz

Sample

State anisotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
7	dsRBD	[U-100% 13C; U-100% 15N]	600 uM
8	sodium phosphate	natural abundance	50 mM
9	C12/E5-Hexanol	natural abundance	5 %
10	DTT	natural abundance	10 mM
11	PMSF	natural abundance	1 mM
12	sodium azide	natural abundance	0.05 %
13	sodium chloride	natural abundance	50 mM
14	H2O	natural abundance	90 %
15	D2O	natural abundance	10 %

17 3D HNHA

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7

#	Name	Isotope labeling	Concentration
22	dsRBD	[U-100% 13C; U-100% 15N]	600 mM
23	sodium phosphate	natural abundance	100 mM
24	sodium chloride	natural abundance	50 mM
25	sodium azide	natural abundance	0.05 %
26	PMSF	natural abundance	1 mM
27	DTT	natural abundance	10 mM
28	H2O	natural abundance	90 %
29	D2O	natural abundance	10 %

NMR combined restraints 5 contents Detail

Properties

Input source #1: NMR data (NEF) - Assigned chemical shifts, Distance restraints, Dihedral angle restraints, RDC restraints	combined_18393_2lrs.nef
Input source #2: Coordindates	2lrs.cif
Diamagnetism of the molecular assembly	True (excluding Oxygen atoms)
Whether the assembly has a disulfide bond	None
Whether the assembly has a other bond	None
Whether the assembly contains a cyclic polymer	None
Overall data processing status	Warning

Disulfide bonds

None

Other bonds (neither disulfide, covalent nor hydrogen bonds, e.g. Zinc–sulphur bond)

None

Non-standard residues

None

Sequence alignments

Entity_assembly_ID (NMR): A vs Auth_asym_ID (model): A

----20--------30--------40--------50--------60--------70--------80-----
NDICLRKNWPMPSYRCVKEGGPAHAKRFTFGVRVNTSDRGWTDECIGEPMPSVKKAKDSAAVLLLELLNKT
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
NDICLRKNWPMPSYRCVKEGGPAHAKRFTFGVRVNTSDRGWTDECIGEPMPSVKKAKDSAAVLLLELLNKT
--------10--------20--------30--------40--------50--------60--------70-

Chain assignments

Entity_assembly_ID (NMR)	Auth_asym_ID (model)	Length	Unmapped	Conflict	Sequence coverage (%)
A	A	71	0	0	100.0

Content subtype: combined_18393_2lrs.nef

#	Content subtype	Saveframe	Status	# of rows (sets)	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chem_shift_list_1	Warning	781		100.0 (chain: A, length: 71)
1	Distance restraints	CNS/XPLOR_distance_constraints_4	OK	1489 (1)	noe	100.0 (chain: A, length: 71)
1	Dihedral angle restraints	CNS/XPLOR_dihedral_3	OK	103 (103)	.	90.1 (chain: A, length: 71)
1	RDC restraints	CNS/XPLOR_dipolar_coupling_2	OK	112 (112)	.	90.1 (chain: A, length: 71)

Assigned chemical shifts

Saveframe: assigned_chem_shift_list_1
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 71, Sequence coverage: 100.0%
- Total number of assignments
  - ¹H chemical shifts: 405
  - ¹³C chemical shifts: 309
  - ¹⁵N chemical shifts: 67
- Completeness of assignments
  - Entity_assemble_ID: A
- Redox state of CYS
- Peptide bond of PRO
- Tautomeric state of HIS
- Rotameric state of ILE , LEU, and VAL
- Histogram of normalized assigned chemical shifts
- Random coil index and derived parameters (S² and NMR RMSD)
  - Chain_ID: A

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	435	405	93.1
¹³C chemical shifts	321	309	96.3
¹⁵N chemical shifts	77	67	87.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	142	139	97.9
¹³C chemical shifts	142	142	100.0
¹⁵N chemical shifts	66	64	97.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	293	266	90.8
¹³C chemical shifts	179	167	93.3
¹⁵N chemical shifts	11	3	27.3

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	37	35	94.6
¹³C chemical shifts	37	37	100.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	28	26	92.9
¹³C chemical shifts	26	16	61.5
¹⁵N chemical shifts	2	2	100.0

Distance restraints

Saveframe: CNS/XPLOR_distance_constraints_4
- Status: OK
- Experiment type: noe
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 71, Sequence coverage: 100.0%
- Total number of restraints: 1489
- Weight of restraints: 1.0 (1489)
- Potential type of restraints: square-well-parabolic (1489)
- Range of distance target values: 1.61, 5.17 (Å)
- Histogram of distance target values
- Histogram of discrepancy in distance target values
- Distance restraints per residue
  - Chain_ID: A
- Distance restraints on contact map

Dihedral angle restraints

Saveframe: CNS/XPLOR_dihedral_3
- Status: OK
- Experiment type: .
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 71, Sequence coverage: 90.1%
- Total number of restraints: 103
- Total number of restraints per polymer type: 103
- Weight of restraints: 1.0 (103)
- Potential type of restraints: square-well-parabolic (103)
- Plot of Phi-Psi angle restraints
- Dihedral angle restraints per residue
  - Chain_ID: A

RDC restraints

Saveframe: CNS/XPLOR_dipolar_coupling_2
- Status: OK
- Experiment type: .
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 71, Sequence coverage: 90.1%
- Total number of restraints: 112
- Potential type of restraints: undefined (112)
- Range of observed RDC values: 100.0, -100.0 (Hz)
- RDC restraints per residue
  - Chain_ID: A
    None

Keywords DICER-LIKE, dsRBD, miRNA, RNA binding

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Found 1 Document (0.734 seconds)

BMRB: 18393

Sample #1

Sample #2

Sample #3

Sample #4

Chemical shift reference

Chemical shift reference

Chemical shift reference

Chemical shift reference

Related entities 1. dsRBD, : 1 : 2 : 129 entities Detail

Interaction partners 1. dsRBD, : 6 interactors Detail

Experiments performed 17 experiments Detail

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NMR combined restraints 5 contents Detail