BMRB Entry 11279

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PDB ID: 2dzi
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR11279
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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:

2DZI/Solution Structure of the N-terminal Ubiquitin-like Domain in Human Ubiquitin-like Protein 4A (GDX)

Deposition date:

2010-08-09

Original release date:

2011-08-18

Authors:

Zhao, C.; Sato, M.; Koshiba, S.; Watanabe, S.; Harada, T.; Kigawa, T.; Yokoyama, S.

Citation:

Citation: Zhao, C.; Sato, M.; Koshiba, S.; Watanabe, S.; Harada, T.; Kigawa, T.; Yokoyama, S.. "2DZI/Solution Structure of the N-terminal Ubiquitin-like Domain in Human Ubiquitin-like Protein 4A (GDX)" .

Assembly members:

Assembly members:
ubiquitin-like domain, polymer, 81 residues, Formula weight is not available

Natural source:

Natural source: Common Name: human Taxonomy ID: 9606 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Homo sapiens

Experimental source:

Experimental source: Production method: cell free synthesis Host organism: E. coli - cell free Vector: P060227-19

Entity Sequences (FASTA):

Entity Sequences (FASTA):
ubiquitin-like domain: GSSGSSGMQLTVKALQGREC SLQVPEDELVSTLKQLVSEK LNVPVRQQRLLFKGKALADG KRLSDYSIGPNSKLNLVVKP L

Data sets:

assigned_chemical_shifts
- chemical_shift_1

Data type	Count
13C chemical shifts	347
15N chemical shifts	81
1H chemical shifts	571

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	ubiquitin-like domain	1

Entities:

Entity 1, ubiquitin-like domain 81 residues - Formula weight is not available

1

GLY

SER

GLY

SER

GLY

MET

GLN

LEU

2

THR

VAL

LYS

ALA

LEU

GLN

GLY

ARG

GLU

CYS

3

SER

LEU

GLN

VAL

PRO

GLU

ASP

GLU

LEU

VAL

4

SER

THR

LEU

LYS

GLN

LEU

VAL

SER

GLU

LYS

5

LEU

ASN

VAL

PRO

VAL

ARG

GLN

ARG

LEU

6

LEU

PHE

LYS

GLY

LYS

ALA

LEU

ALA

ASP

GLY

7

LYS

ARG

LEU

SER

ASP

TYR

SER

ILE

GLY

PRO

8

ASN

SER

LYS

LEU

ASN

LEU

VAL

LYS

PRO

9

LEU

Samples:

sample_1: ubiquitin-like domain, [U-13C; U-15N], 1.18 mM; d-Tris-HCl 20 mM; NaCl 100 mM; d-DTT 1 mM; NaN3 0.02%; H2O 90%; D2O 10%

condition_1: ionic strength: 120 mM; pH: 7.0; pressure: 1 atm; temperature: 296.0 K

Experiments:

Name	Sample	Sample state	Sample conditions
3D 15N-separated NOESY	sample_1	isotropic	condition_1
3D 13C-separated NOESY	sample_1	isotropic	condition_1

Software:

xwinnmr v2.6, Bruker - collection

NMRPipe v20031121, Delaglio, F. - processing

NMRView v5.0.4, Johnson, B. A. - data analysis

Kujira v0.9748, Kobayashi, N. - data analysis

CYANA v2.0.17, Guntert, P. - refinement, structure solution

NMR spectrometers:

Bruker AVANCE 800 MHz

PDB	2DZI
DBJ	BAG56766
EMBL	CAH93235
GB	AAA36790 AAA92650 AAH43346 AAH53589 ABZ10495
REF	NP_001126901 NP_001164852 NP_001229350 NP_001253630 NP_055050
SP	B0KWT6 B1MTV8 B7NZQ9 P11441 Q5R4T1
AlphaFold	B0KWT6 B1MTV8 B7NZQ9 P11441 Q5R4T1