BMRB Entry 7325

Name: Backbone and Ile(d1), Leu and Val Sidechain Resonance Assignments of the NUDIX Domain of Yeast Dcp2
Published: 2007-08-22

Chem Shift validation: AVS_anomalous, AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR7325

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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:

Backbone and Ile(d1), Leu and Val Sidechain Resonance Assignments of the NUDIX Domain of Yeast Dcp2

Deposition date:

2006-11-04

Original release date:

2007-08-22

Authors:

Deshmukh, Mandar; Oku, Yuko; Gross, John

Citation:

Citation: Deshmukh, Mandar; Jones, Brittnee; Quang-Dang, Duc-Uy; Flinders, Jeremy; Floor, Stephen; Kim, Candice; Jemielity, Jacek; Kalek, Marcin; Darzynkiewicz, Edward; Gross, John. "mRNA decapping is promoted by an RNA-binding channel in Dcp2." Mol. Cell 29, 324-336 (2008).
PubMed: 18280238

Assembly members:

Assembly members:
yDcp2(100-245), polymer, 146 residues, 17353.9 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 Vector: GB1-pET30a

Entity Sequences (FASTA):

Entity Sequences (FASTA):
yDcp2(100-245): KKSIPVRGAAIFNENLSKIL LVQGTESDSWSFPRGKISKD ENDIDCCIREVKEEIGFDLT DYIDDNQFIERNIQGKNYKI FLISGVSEVFNFKPQVRNEI DKIEWFDFKKISKTMYKSNI KYYLINSMMRPLSMWLRHQR QIKNED

Data sets:

assigned_chemical_shifts
- Backbone_ILVMET

Data type	Count
13C chemical shifts	459
15N chemical shifts	135
1H chemical shifts	273

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	gb1-yDcp2	1

Entities:

Entity 1, gb1-yDcp2 146 residues - 17353.9 Da.

1

LYS

SER

ILE

PRO

VAL

ARG

GLY

ALA

2

ILE

PHE

ASN

GLU

ASN

LEU

SER

LYS

ILE

LEU

3

LEU

VAL

GLN

GLY

THR

GLU

SER

ASP

SER

TRP

4

SER

PHE

PRO

ARG

GLY

LYS

ILE

SER

LYS

ASP

5

GLU

ASN

ASP

ILE

ASP

CYS

ILE

ARG

GLU

6

VAL

LYS

GLU

ILE

GLY

PHE

ASP

LEU

THR

7

ASP

TYR

ILE

ASP

ASN

GLN

PHE

ILE

GLU

8

ARG

ASN

ILE

GLN

GLY

LYS

ASN

TYR

LYS

ILE

9

PHE

LEU

ILE

SER

GLY

VAL

SER

GLU

VAL

PHE

10

ASN

PHE

LYS

PRO

GLN

VAL

ARG

ASN

GLU

ILE

11

ASP

LYS

ILE

GLU

TRP

PHE

ASP

PHE

LYS

12

ILE

SER

LYS

THR

MET

TYR

LYS

SER

ASN

ILE

13

LYS

TYR

LEU

ILE

ASN

SER

MET

ARG

14

PRO

LEU

SER

MET

TRP

LEU

ARG

HIS

GLN

ARG

15

GLN

ILE

LYS

ASN

GLU

ASP

Samples:

sample_1: yDcp2(100-245), [U-2H; U-13C; U-15N], 0.5 mM; Na Phosphate 20 mM; Sodium Sulfate 100 mM; Arginine 50 mM; Glutamate 50 mM; NaCl 100 mM

sample_2: yDcp2(100-245), [U-2H; NA-Ile,Leu,Val metthyl; U-13C; U-15N], 0.5 mM; Na Phosphate 20 mM; Sodium Sulfate 100 mM; Arginine 50 mM; Glutamate 50 mM; NaCl 100 mM

NMR_Buffer: pH: 7.0; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
HNCA	sample_1	not available	NMR_Buffer
HN(CO)CA	sample_1	not available	NMR_Buffer
HN(CA)CB	sample_1	not available	NMR_Buffer
HN(COCA)CB	sample_1	not available	NMR_Buffer
HNCO	sample_1	not available	NMR_Buffer
HN(CA)CO	sample_1	not available	NMR_Buffer
H(CCO)NH	sample_1	not available	NMR_Buffer
(H)C(CO)NH	sample_1	not available	NMR_Buffer

Software:

No software information available

NMR spectrometers:

Bruker Avance 500 MHz

PDB	2JVB 4K6E 4KG3 4KG4
DBJ	GAA25980
EMBL	CAA93389 CAA95998
GB	AAA68866 AAC99860 ABN58539 ABN58548 ABN58557
REF	NP_014281
SP	A6ZRW5 P53550
TPG	DAA10430
AlphaFold	A6ZRW5 P53550