BMRB Entry 11407

Name: Assigned chemical shifts of RNA binding domain 3 in RNA (UAUAUA)
Published: 2011-06-24

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR11407

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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Assigned chemical shifts of RNA binding domain 3 in RNA (UAUAUA)

Deposition date:

2010-09-09

Original release date:

2011-06-24

Authors:

Tsuda, K.; Kuwasako, K.; Takahashi, M.; Someya, T.; Inoue, M.; Terada, T.; Kobayashi, N.; Shirouzu, M.; Kigawa, T.; Guntert, P.; Muto, Y.; Yokoyama, S.

Citation:

Citation: Tsuda, Kengo; Kuwasako, Kanako; Takahashi, Mari; Someya, Tatsuhiko; Inoue, Makoto; Terada, Takaho; Kobayashi, Naohiro; Shirouzu, Mikako; Kigawa, Takanori; Tanaka, Akiko; Sugano, Sumio; Guntert, Peter; Muto, Yutaka; Yokoyama, Shigeyuki. "Structural basis for the sequence-specific RNA-recognition mechanism of human CUG-BP1 RRM3." Nucleic Acids Res. 37, 5151-5166 (2009).
PubMed: 19553194

Assembly members:

Assembly members:
RNA recognition motif, polymer, 115 residues, Formula weight is not available
RNA (UAUAUA), polymer, 6 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: P040329-21

Entity Sequences (FASTA):

Entity Sequences (FASTA):
RNA recognition motif: GSSGSSGLTQQSIGAAGSQK EGPEGANLFIYHLPQEFGDQ DLLQMFMPFGNVVSAKVFID KQTNLSKCFGFVSYDNPVSA QAAIQSMNGFQIGMKRLKVQ LKRSKNDSKSGPSSG
RNA (UAUAUA): UAUAUA

Data sets:

assigned_chemical_shifts
- chemical_shift_1

Data type	Count
15N chemical shifts	100
1H chemical shifts	100

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	RNA recognition motif	1
2	RNA (UAUAUA)	2

Entities:

Entity 1, RNA recognition motif 115 residues - Formula weight is not available

1

GLY

SER

GLY

SER

GLY

LEU

THR

GLN

2

GLN

SER

ILE

GLY

ALA

GLY

SER

GLN

LYS

3

GLU

GLY

PRO

GLU

GLY

ALA

ASN

LEU

PHE

ILE

4

TYR

HIS

LEU

PRO

GLN

GLU

PHE

GLY

ASP

GLN

5

ASP

LEU

GLN

MET

PHE

MET

PRO

PHE

GLY

6

ASN

VAL

SER

ALA

LYS

VAL

PHE

ILE

ASP

7

LYS

GLN

THR

ASN

LEU

SER

LYS

CYS

PHE

GLY

8

PHE

VAL

SER

TYR

ASP

ASN

PRO

VAL

SER

ALA

9

GLN

ALA

ILE

GLN

SER

MET

ASN

GLY

PHE

10

GLN

ILE

GLY

MET

LYS

ARG

LEU

LYS

VAL

GLN

11

LEU

LYS

ARG

SER

LYS

ASN

ASP

SER

LYS

SER

12

GLY

PRO

SER

GLY

Entity 2, RNA (UAUAUA) 6 residues - Formula weight is not available

1

U

A

U

A

U

A

Samples:

sample_1: RNA recognition motif, [U-13C; U-15N], 0.2 mM; RNA (UAUAUA) 0.4 mM; salt 100 mM; H2O 90%; D2O 10%

condition_1: ionic strength: 120 mM; pH: 7.0; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
3D 1H-15N NOESY	sample_1	isotropic	condition_1
3D 1H-13C NOESY	sample_1	isotropic	condition_1

Software:

AMBER v9.0, Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm - refinement

xwinnmr v3.5, Bruker, Biospin - collection

NMRPipe v20030801, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer, and, Bax - processing

NMRView v5.0.4, Johnson, One, Moon, Scientific - data analysis

Kujira v0.9297, Kobayashi, N. - data analysis

CYANA v2.0.17, Guntert, Mumenthaler, and, Wuthrich - structure solution

NMR spectrometers:

Bruker Avance 700 MHz

BMRB	11405 11406 11408
PDB	2CPZ 2RQ4 2RQC
DBJ	BAB29392 BAE06101 BAE22391 BAE25504 BAE33820
EMBL	CAC20566 CAC20707 CAH65197 CAH91665 CAJ82289
GB	AAC50895 AAF78955 AAF78956 AAF78957 AAF86230
REF	NP_001012539 NP_001017152 NP_001020592 NP_001020767 NP_001094682
SP	P28659 Q28HE9 Q4QQT3 Q5F3T7 Q5R995
TPG	DAA21780
AlphaFold	P28659 Q28HE9 Q4QQT3 Q5F3T7 Q5R995