BMRB Entry 36018

Name: Solution structure of the first RRM domain of human spliceosomal protein SF3b49
Published: 2017-04-11

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PDB ID: 5gvq
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR36018
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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:

Solution structure of the first RRM domain of human spliceosomal protein SF3b49

Deposition date:

2016-09-06

Original release date:

2017-04-11

Authors:

Kuwasako, K.; Nameki, N.; Tsuda, K.; Takahashi, M.; Sato, A.; Tochio, N.; Inoue, M.; Terada, T.; Kigawa, T.; Kobayashi, N.; Shirouzu, M.; Ito, T.; Sakamoto, T.; Wakamatsu, K.; Guntert, P.; Takahashi, S.; Yokoyama, S.; Muto, Y.

Citation:

Citation: Kuwasako, Kanako; Nameki, Nobukazu; Tsuda, Kengo; Takahashi, Mari; Sato, Atsuko; Tochio, Naoya; Inoue, Makoto; Terada, Takaho; Kigawa, Takanori; Kobayashi, Naohiro; Shirouzu, Mikako; Ito, Takuhiro; Sakamoto, Taiichi; Wakamatsu, Kaori; Guntert, Peter; Takahashi, Seizo; Yokoyama, Shigeyuki; Muto, Yutaka. "Solution structure of the first RNA recognition motif domain of human spliceosomal protein SF3b49 and its mode of interaction with a SF3b145 fragment" Protein Sci. 26, 280-291 (2017).
PubMed: 27862552

Assembly members:

Assembly members:
Splicing factor 3B subunit 4, polymer, 105 residues, 11378.703 Da.

Natural source:

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

Experimental source:

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

Entity Sequences (FASTA):

Entity Sequences (FASTA):
Splicing factor 3B subunit 4: GSSGSSGPISERNQDATVYV GGLDEKVSEPLLWELFLQAG PVVNTHMPKDRVTGQHQGYG FVEFLSEEDADYAIKIMDMI KLYGKPIRVNKASAHNKNLS GPSSG

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1

Data type	Count
13C chemical shifts	411
15N chemical shifts	94
1H chemical shifts	657

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	entity_1	1

Entities:

Entity 1, entity_1 105 residues - 11378.703 Da.

1

GLY

SER

GLY

SER

GLY

PRO

ILE

SER

2

GLU

ARG

ASN

GLN

ASP

ALA

THR

VAL

TYR

VAL

3

GLY

LEU

ASP

GLU

LYS

VAL

SER

GLU

PRO

4

LEU

TRP

GLU

LEU

PHE

LEU

GLN

ALA

GLY

5

PRO

VAL

ASN

THR

HIS

MET

PRO

LYS

ASP

6

ARG

VAL

THR

GLY

GLN

HIS

GLN

GLY

TYR

GLY

7

PHE

VAL

GLU

PHE

LEU

SER

GLU

ASP

ALA

8

ASP

TYR

ALA

ILE

LYS

ILE

MET

ASP

MET

ILE

9

LYS

LEU

TYR

GLY

LYS

PRO

ILE

ARG

VAL

ASN

10

LYS

ALA

SER

ALA

HIS

ASN

LYS

ASN

LEU

SER

11

GLY

PRO

SER

GLY

Samples:

sample_1: human spliceosomal protein SF3b49, [U-100% 13C; U-100% 15N], 0.8 mM; H2O 90%; D2O, [U-2H], 10%

sample_conditions_1: ionic strength: 100 mM; pH: 7.0; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
3D 1H-15N NOESY	sample_1	isotropic	sample_conditions_1
3D 1H-13C NOESY	sample_1	isotropic	sample_conditions_1
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-13C HSQC	sample_1	isotropic	sample_conditions_1

Software:

AMBER, Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman - refinement

CYANA, Guntert, Mumenthaler and Wuthrich - structure calculation

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

NMRView, Johnson, One Moon Scientific - data analysis

kujira, Kobayashi N - data analysis

NMR spectrometers:

Bruker Avance 800 MHz

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