BMRBj - BMREntryMaster

	Total	¹H	¹³C	¹⁵N
All	78.9 % (1137 of 1441)	75.0 % (570 of 760)	80.7 % (451 of 559)	95.1 % (116 of 122)
Backbone	95.2 % (680 of 714)	96.7 % (236 of 244)	93.5 % (332 of 355)	97.4 % (112 of 115)
Sidechain	67.5 % (567 of 840)	64.7 % (334 of 516)	72.2 % (229 of 317)	57.1 % (4 of 7)
Aromatic	14.8 % (8 of 54)	29.6 % (8 of 27)	0.0 % (0 of 27)
Methyl	85.1 % (126 of 148)	93.2 % (69 of 74)	77.0 % (57 of 74)

1. Nhp2p

SKKLNKKVLK TVKKASKAKN VKRGVKEVVK ALRKGEKGLV VIAGDISPAD VISHIPVLCE DHSVPYIFIP SKQDLGAAGA TKRPTSVVFI VPGSNKKKDG KNKEEEYKES FNEVVKEVQA L

Show sample condition

Sample #1

Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4

#	Name	Isotope labeling	Concentration
1	HEPES	[U-13C; U-15N]	20 mM
2	potassium chloride	natural abundance	200 mM
3	DTT	natural abundance	1 mM
4	D2O	natural abundance	100 %

Sample #2

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4

#	Name	Isotope labeling	Concentration
5	HEPES	[U-15N]	20 mM
6	potassium chloride	natural abundance	200 mM
7	DTT	natural abundance	1 mM
8	D2O	natural abundance	10 %
9	H2O	natural abundance	90 %

Sample #3

Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4

#	Name	Isotope labeling	Concentration
10	HEPES	[U-13C; U-15N]	20 mM
11	potassium chloride	natural abundance	200 mM
12	DTT	natural abundance	1 mM
13	D2O	natural abundance	100 %

LACS Plot; CA

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	null	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	null	indirect	0.1013291

Referencing offset: -0.36 ppm, Outliers: 1 Detail

LACS Plot; CB

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	null	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	null	indirect	0.1013291

Referencing offset: -0.36 ppm, Outliers: 1 Detail

LACS Plot; HA

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	null	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	null	indirect	0.1013291

Referencing offset: -0.04 ppm, Outliers: 1 Detail

LACS Plot; CO

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	null	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	null	indirect	0.1013291

Referencing offset: -0.14 ppm, Outliers: 2 Detail

Protein Blocks Logo

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

Release date

2011-06-29

Citation 1

Structure of H/ACA RNP protein Nhp2p reveals cis/trans isomerization of a conserved proline at the RNA and Nop10 binding interface
Koo, B., Park, C., Fernandez, C.F., Chim, N., Ding, Y., Chanfreau, G., Feigon, J.
J. Mol. Biol. (2011), 411, 927-942, PubMed 21708174 , DOI 10.1016/j.jmb.2011.06.022 , Abstract

Show more 1 citaion

Citation 2

Crystal structure of an H/ACA box ribonucleoprotein particle
Li, L., Ye, K.
Nature (2006), 443, 302-307, PubMed 16943774 , DOI 10.1038/nature05151 , Abstract

Hide non-primary 1 citaion

Entries sharing articles BMRB: 1, Swiss-Prot: 1 entries Detail

  BMRB: 17578 released on 2011-06-29
    Title Solution structure of the S. cerevisiae H/ACA RNP protein Nhp2p-S82W mutant
  Swiss-Prot: P32495 released on 1993-10-01
    Title NHP2_YEAST Entity H/ACA ribonucleoprotein complex subunit 2

Related entities 1. H/ACA RNP protein Nhp2p, : 1 : 2 : 1 : 190 entities Detail

Interaction partners 1. H/ACA RNP protein Nhp2p, : 41 interactors Detail

More details for 41 interactors identified by 16 citations

Experiments performed 10 experiments Detail

1 3D HNCACB

Instrument

Bruker DRX - 800 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4

#	Name	Isotope labeling	Concentration
1	HEPES	[U-13C; U-15N]	20 mM
2	potassium chloride	natural abundance	200 mM
3	DTT	natural abundance	1 mM
4	D2O	natural abundance	100 %

2 3D CBCA(CO)NH

Instrument

Bruker DRX - 800 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4

#	Name	Isotope labeling	Concentration
1	HEPES	[U-13C; U-15N]	20 mM
2	potassium chloride	natural abundance	200 mM
3	DTT	natural abundance	1 mM
4	D2O	natural abundance	100 %

3 3D HNCO

Instrument

Bruker DRX - 800 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4

#	Name	Isotope labeling	Concentration
1	HEPES	[U-13C; U-15N]	20 mM
2	potassium chloride	natural abundance	200 mM
3	DTT	natural abundance	1 mM
4	D2O	natural abundance	100 %

4 3D HBHA(CO)NH

Instrument

Bruker DRX - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4

#	Name	Isotope labeling	Concentration
5	HEPES	[U-15N]	20 mM
6	potassium chloride	natural abundance	200 mM
7	DTT	natural abundance	1 mM
8	D2O	natural abundance	10 %
9	H2O	natural abundance	90 %

5 3D HCCH-TOCSY

Instrument

Bruker DRX - 800 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4

#	Name	Isotope labeling	Concentration
1	HEPES	[U-13C; U-15N]	20 mM
2	potassium chloride	natural abundance	200 mM
3	DTT	natural abundance	1 mM
4	D2O	natural abundance	100 %

6 3D 1H-13C NOESY

Instrument

Bruker DRX - 800 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4

#	Name	Isotope labeling	Concentration
10	HEPES	[U-13C; U-15N]	20 mM
11	potassium chloride	natural abundance	200 mM
12	DTT	natural abundance	1 mM
13	D2O	natural abundance	100 %

7 3D 1H-15N NOESY

Instrument

Bruker DRX - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4

#	Name	Isotope labeling	Concentration
5	HEPES	[U-15N]	20 mM
6	potassium chloride	natural abundance	200 mM
7	DTT	natural abundance	1 mM
8	D2O	natural abundance	10 %
9	H2O	natural abundance	90 %

8 2D 1H-15N HSQC

Instrument

Bruker DRX - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4

#	Name	Isotope labeling	Concentration
5	HEPES	[U-15N]	20 mM
6	potassium chloride	natural abundance	200 mM
7	DTT	natural abundance	1 mM
8	D2O	natural abundance	10 %
9	H2O	natural abundance	90 %

9 2D 1H-13C HSQC

Instrument

Bruker DRX - 800 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4

#	Name	Isotope labeling	Concentration
1	HEPES	[U-13C; U-15N]	20 mM
2	potassium chloride	natural abundance	200 mM
3	DTT	natural abundance	1 mM
4	D2O	natural abundance	100 %

10 3D C(CO)NH

Instrument

Bruker DRX - 800 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7.4

#	Name	Isotope labeling	Concentration
1	HEPES	[U-13C; U-15N]	20 mM
2	potassium chloride	natural abundance	200 mM
3	DTT	natural abundance	1 mM
4	D2O	natural abundance	100 %

NMR combined restraints 5 contents Detail

Properties

Input source #1: NMR data (NEF) - Assigned chemical shifts, Distance restraints, Dihedral angle restraints	combined_17579_2lbx.nef
Input source #2: Coordindates	2lbx.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

---40--------50--------60--------70--------80--------90-------100-------110-------120-------130-----
SKKLNKKVLKTVKKASKAKNVKRGVKEVVKALRKGEKGLVVIAGDISPADVISHIPVLCEDHSVPYIFIPSKQDLGAAGATKRPTSVVFIVPGSNKKKDG
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
SKKLNKKVLKTVKKASKAKNVKRGVKEVVKALRKGEKGLVVIAGDISPADVISHIPVLCEDHSVPYIFIPSKQDLGAAGATKRPTSVVFIVPGSNKKKDG
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100

--140-------150------
KNKEEEYKESFNEVVKEVQAL
|||||||||||||||||||||
KNKEEEYKESFNEVVKEVQAL
-------110-------120-

Chain assignments

Entity_assembly_ID (NMR)	Auth_asym_ID (model)	Length	Unmapped	Conflict	Sequence coverage (%)
A	A	121	0	0	100.0

Content subtype: combined_17579_2lbx.nef

#	Content subtype	Saveframe	Status	# of rows (sets)	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chem_shift_list_1	Warning	1156		97.5 (chain: A, length: 121)
1	Distance restraints	DYANA/DIANA_distance_constraints_2	Warning	1315 (1)	noe	88.4 (chain: A, length: 121)
2	Distance restraints	DYANA/DIANA_distance_constraints_3	Warning	230 (1)	hbond	66.9 (chain: A, length: 121)
1	Dihedral angle restraints	DYANA/DIANA_dihedral_4	OK	176 (176)	.	90.1 (chain: A, length: 121)

Assigned chemical shifts

Saveframe: assigned_chem_shift_list_1
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 121, Sequence coverage: 97.5%
- Total number of assignments
  - ¹H chemical shifts: 612
  - ¹³C chemical shifts: 430
  - ¹⁵N chemical shifts: 114
- Completeness of assignments
  - Entity_assemble_ID: A
- Redox state of CYS
- Peptide bond of PRO
- 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

Comp_index_ID	Comp_ID	Atom_ID	CS value (ppm)
94	CYS	HG	2.239
142	TYR	HH	9.134

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	760	526	69.2
¹³C chemical shifts	559	430	76.9
¹⁵N chemical shifts	125	114	91.2

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	244	232	95.1
¹³C chemical shifts	242	218	90.1
¹⁵N chemical shifts	115	110	95.7

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	516	294	57.0
¹³C chemical shifts	317	212	66.9
¹⁵N chemical shifts	10	4	40.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	74	66	89.2
¹³C chemical shifts	74	50	67.6

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	27	8	29.6
¹³C chemical shifts	27	0	0.0

Distance restraints

Saveframe: DYANA/DIANA_distance_constraints_2
- Status: Warning
- Experiment type: noe
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 121, Sequence coverage: 88.4%
- Total number of restraints: 1313
- Weight of restraints: 1.0 (1313)
- Potential type of restraints: upper-bound-parabolic (1313)
- Range of distance target values: 2.54, 6.5 (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
- Saveframe: DYANA/DIANA_distance_constraints_3
  - Status: Warning
  - Experiment type: hbond
  - Sequence coverage of experimental data
    - Entity_assembly_ID: A, Chain length: 121, Sequence coverage: 66.9%
  - Total number of restraints: 230
  - Weight of restraints: 1.0 (230)
  - Potential type of restraints: upper-bound-parabolic (230)
  - Range of distance target values: 1.8, 3.0 (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: DYANA/DIANA_dihedral_4
- Status: OK
- Experiment type: .
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 121, Sequence coverage: 90.1%
- Total number of restraints: 176
- Total number of restraints per polymer type: 176
- Weight of restraints: 1.0 (176)
- Potential type of restraints: square-well-parabolic (176)
- Plot of Phi-Psi angle restraints
- Dihedral angle restraints per residue
  - Chain_ID: A

Keywords L7Ae, Nhp2p, NMR solution structure, scaRNP, snoRNP

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Found 1 Document (2.159 seconds)

BMRB: 17579

Sample #1

Sample #2

Sample #3

Chemical shift reference

Chemical shift reference

Chemical shift reference

Chemical shift reference

Entries sharing articles BMRB: 1, Swiss-Prot: 1 entries Detail

Related entities 1. H/ACA RNP protein Nhp2p, : 1 : 2 : 1 : 190 entities Detail

Interaction partners 1. H/ACA RNP protein Nhp2p, : 41 interactors Detail

Experiments performed 10 experiments Detail

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NMR combined restraints 5 contents Detail