BMRB Entry 19686

Name: ASD-1 RRM domain bound to UGCAUGG RNA
Published: 2014-08-29

Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR19686

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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:

ASD-1 RRM domain bound to UGCAUGG RNA

Deposition date:

2013-12-15

Original release date:

2014-08-29

Authors:

Amrane, Samir; Mackereth, Cameron

Citation:

Citation: Amrane, Samir; Rebora, Karine; Zniber, Ilyass; Dupuy, Denis; Mackereth, Cameron. "BACKBONE-INDEPENDENT NUCLEIC ACID BINDING BY SPLICING FACTOR SUP-12 REVEALS KEY ASPECTS OF MOLECULAR RECOGNITION" Nat. Commun. ., .-. (2014).

Assembly members:

Assembly members:
ASD-1, polymer, 99 residues, Formula weight is not available
UGCAUGG, polymer, 7 residues, Formula weight is not available

Natural source:

Natural source: Common Name: nematodes Taxonomy ID: 6239 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Caenorhabditis elegans

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pETHis1a

Entity Sequences (FASTA):

Entity Sequences (FASTA):
ASD-1: GAMGPVAPNDRSTSSSSTDG PRRLHVSNIPFKYREPDLTA MFEKVGPVVDVEIIFNERGS KGFGFVTMQNPDDADRARAE FNGTTIEGRRVEVNLATQR
UGCAUGG: UGCAUGG

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	185
15N chemical shifts	87
1H chemical shifts	87

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	ASD-1	1
2	RNA	2

Entities:

Entity 1, ASD-1 99 residues - Formula weight is not available

The N-terminal Gly-Ala-Met remains following removal of the His6-tag by TEV potease

1

GLY

ALA

MET

GLY

PRO

VAL

ALA

PRO

ASN

ASP

2

ARG

SER

THR

SER

THR

ASP

GLY

3

PRO

ARG

LEU

HIS

VAL

SER

ASN

ILE

PRO

4

PHE

LYS

TYR

ARG

GLU

PRO

ASP

LEU

THR

ALA

5

MET

PHE

GLU

LYS

VAL

GLY

PRO

VAL

ASP

6

VAL

GLU

ILE

PHE

ASN

GLU

ARG

GLY

SER

7

LYS

GLY

PHE

GLY

PHE

VAL

THR

MET

GLN

ASN

8

PRO

ASP

ALA

ASP

ARG

ALA

ARG

ALA

GLU

9

PHE

ASN

GLY

THR

ILE

GLU

GLY

ARG

10

VAL

GLU

VAL

ASN

LEU

ALA

THR

GLN

ARG

Entity 2, RNA 7 residues - Formula weight is not available

1

U

G

C

A

U

G

Samples:

sample_1: ASD-1, [U-99% 13C; U-99% 15N], 0.2 mM; sodium phosphate 20 mM; sodium chloride 300 mM; D2O, [U-2H], 10%; UGCAUGG 0.25 mM; H2O 90%

sample_conditions_1: ionic strength: 320 mM; pH: 6.5; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
3D HNCACB	sample_1	isotropic	sample_conditions_1

Software:

TOPSPIN v2.1, Bruker Biospin - collection, processing

NMRPipe v2007, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing, processing

SPARKY v3.113, Goddard - chemical shift assignment, data analysis, peak picking

NMR spectrometers:

Bruker Avance 700 MHz

UNP	G5EEW7 .
BMRB	19609 19680
PDB	2MGZ
EMBL	CAA85276 CAD82915 CCU83325
GB	ABF22491
REF	NP_001293646 NP_497841 NP_871667
AlphaFold	G5EEW7