BMRB Entry 25088

Name: NMR solution structure of the Ubiquitin like domain (UBL) of DNA-damage-inducible 1 protein (Ddi1)
Published: 2015-03-23

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PDB ID: 2mws
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR25088
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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:

NMR solution structure of the Ubiquitin like domain (UBL) of DNA-damage-inducible 1 protein (Ddi1)

Deposition date:

2014-07-14

Original release date:

2015-03-23

Authors:

Nowicka, Urszula; Fushman, David; Chen, Tony

Citation:

Citation: Nowicka, Urszula; Zhang, Daoning; Walker, Olivier; Castaneda, Calos; Krutauz, Daria; Chen, Tony; Reis, Noa; Glickman, Michael; Fushman, David. "DNA-Damage-Inducible 1 Protein (Ddi1) Contains an Uncharacteristic Ubiquitin-like Domain that Binds Ubiquitin" Structure 23, 542-557 (2015).
PubMed: 25703377

Assembly members:

Assembly members:
Ddi1UBL, polymer, 79 residues, 8827.999 Da.

Natural source:

Natural source: Common Name: baker's yeast Taxonomy ID: 4932 Superkingdom: Eukaryota Kingdom: Fungi Genus/species: Saccharomyces cerevisiae

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pQE30

Entity Sequences (FASTA):

Entity Sequences (FASTA):
Ddi1UBL: DLTISNELTGEIYGPIEVSE DMALTDLIALLQADCGFDKT KHDLYYNMDILDSNRTQSLK ELGLKTDDLLLIRGKISNS

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
1H chemical shifts	571
13C chemical shifts	331
15N chemical shifts	84

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	Ddi1UBL	1

Entities:

Entity 1, Ddi1UBL 79 residues - 8827.999 Da.

1

ASP

LEU

THR

ILE

SER

ASN

GLU

LEU

THR

GLY

2

GLU

ILE

TYR

GLY

PRO

ILE

GLU

VAL

SER

GLU

3

ASP

MET

ALA

LEU

THR

ASP

LEU

ILE

ALA

LEU

4

LEU

GLN

ALA

ASP

CYS

GLY

PHE

ASP

LYS

THR

5

LYS

HIS

ASP

LEU

TYR

ASN

MET

ASP

ILE

6

LEU

ASP

SER

ASN

ARG

THR

GLN

SER

LEU

LYS

7

GLU

LEU

GLY

LEU

LYS

THR

ASP

LEU

8

LEU

ILE

ARG

GLY

LYS

ILE

SER

ASN

SER

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-1H TOCSY	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_1	isotropic	sample_conditions_1
3D H(CCO)NH	sample_1	isotropic	sample_conditions_1
3D 1H-13C NOESY	sample_1	isotropic	sample_conditions_1
3D HNCO	sample_2	isotropic	sample_conditions_1
3D HN(CA)CO	sample_2	isotropic	sample_conditions_1
3D HN(CO)CA	sample_2	isotropic	sample_conditions_1
3D HNCA	sample_2	isotropic	sample_conditions_1
3D CBCA(CO)NH	sample_2	isotropic	sample_conditions_1
3D HNCACB	sample_2	isotropic	sample_conditions_1
3D C(CO)NH	sample_2	isotropic	sample_conditions_1
RDC	sample_3	isotropic	sample_conditions_1
RDC	sample_3	isotropic	sample_conditions_2

UNP	P40087
PDB	2MRP 2MWS
DBJ	GAA22973
EMBL	CAY79329
GB	AAB64670 AAB82066 AAC18522 AAT92964 AHY75700
REF	NP_011070
SP	P40087
TPG	DAA07804
AlphaFold	D3DM50 P40087

BMRB Entry 25088

Additional metadata:

Assembly:

Entities:

Samples:

Experiments:

Software:

NMR spectrometers:

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