BMRB Entry 5669

Name: Structure and Ubiquitin Interactions of the Conserved NZF Domain of Npl4
Published: 2003-06-10

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PDB ID: 1nj3
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full
BMRB Entry DOI: doi:10.13018/BMR5669
MolProbity Validation Chart

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Nicholas Rego and David Koes
3Dmol.js: molecular visualization with WebGL
Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Structure and Ubiquitin Interactions of the Conserved NZF Domain of Npl4

Deposition date:

2003-01-23

Original release date:

2003-06-10

Authors:

Wang, B.; Alam, S.; Meyer, H.; Payne, M.; Stemmler, T.; Davis, D.; Sundquist, W.

Citation:

Citation: Wang, B.; Alam, S.; Meyer, H.; Payne, M.; Stemmler, T.; Davis, D.; Sundquist, W.. "Structure and Ubiquitin Interactions of the Conserved Zinc Finger Domain of Npl4" J. Biol. Chem. 278, 20225-20234 (2003).
PubMed: 12644454

Assembly members:

Assembly members:
Npl4 Zinc Finger, polymer, 31 residues, 3373 Da.
ZN, non-polymer, 65.409 Da.

Natural source:

Natural source: Common Name: Rat Taxonomy ID: 10116 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Rattus norvegicus

Experimental source:

Experimental source: Production method: recombinant technology Vector: PGEX

Entity Sequences (FASTA):

Entity Sequences (FASTA):
Npl4 Zinc Finger: GSTSAMWACQHCTFMNQPGT GHCEMCSLPRT

Data sets:

assigned_chemical_shifts
- chemical_shift_set_1
coupling_constants

Data type	Count
13C chemical shifts	109
15N chemical shifts	30
1H chemical shifts	164
coupling constants	13

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	Npl4 Zinc Finger domain	1
2	ZINC ION	2

Entities:

Entity 1, Npl4 Zinc Finger domain 31 residues - 3373 Da.

1

GLY

SER

THR

SER

ALA

MET

TRP

ALA

CYS

GLN

2

HIS

CYS

THR

PHE

MET

ASN

GLN

PRO

GLY

THR

3

GLY

HIS

CYS

GLU

MET

CYS

SER

LEU

PRO

ARG

4

THR

Entity 2, ZINC ION - Zn - 65.409 Da.

1

ZN

Samples:

sample_1: Npl4 Zinc Finger, [U-15N; U-13C], 1 mM; sodium phosphate 20 mM; NaCl 50 mM; BME 5 mM; H2O 90%; D2O 10%

sample_2: Npl4 Zinc Finger, [U-95% 15N], 1 mM

sample_cond_1: ionic strength: 75 mM; pH: 5.5; pressure: 1 atm; temperature: 291 K

Experiments:

Name	Sample	Sample state	Sample conditions
HNCACB	not available	not available	sample_cond_1
HN(CA)CO	not available	not available	sample_cond_1
H(CCO)NH-TOCSY	not available	not available	sample_cond_1
(H)C(CO)NH-TOCSY	not available	not available	sample_cond_1
3D 13C-separated NOESY	not available	not available	sample_cond_1
3D 15N-separated NOESY	not available	not available	sample_cond_1

Software:

CNS v1.1 - refinement

DYANA v1.5 - refinement

FELIX v97 - processing

SPARKY v3.106 - data analysis

NMR spectrometers:

Varian UNITYplus 500 MHz
Varian Inova 600 MHz

Download HSQC peak lists in one of the following formats:
CSV: Backbone or all simulated peaks
SPARKY: Backbone or all simulated peaks